AFA results for: TSA1-e07.ls

JumpToCollection
Go to: Gene Set Collection: KEGG
Go to: Gene Set Collection: GO
Go to: Gene Set Collection: Broad.c2.CGP
Go to: Gene Set Collection: Broad.c2.CP.BIOCARTA
Go to: Gene Set Collection: Broad.c2.CP.KEGG
Go to: Gene Set Collection: Broad.c2.CP.REACTOME
Go to: Gene Set Collection: Broad.c3.TFT
Go to: Gene Set Collection: Broad.c4.CGN
Go to: Gene Set Collection: Broad.c4.CM
Go to: Gene Set Collection: Broad.c5.BP
Go to: Gene Set Collection: Broad.c5.CC
Go to: Gene Set Collection: Broad.c5.MF
Go to: Gene Set Collection: PMID
Go to: Gene Set Collection: Prosite
Go to: Gene Set Collection: Enzyme
Go to: Gene Set Collection: ppi.BIND
Go to: Gene Set Collection: ppi.BioGRID
Go to: Gene Set Collection: ppi.HPRD
Go to: Gene Set Collection: ppi.anyDB
Go to: Gene Set Collection: pathwayCommons.cell-map
Go to: Gene Set Collection: pathwayCommons.nci-nature
Go to: Gene Set Collection: pathwayCommons.reactome
Go to: Gene Set Collection: mirbase.targets
Go to: Gene Set Collection: tfbsK3Z3

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
KEGG 03040	View Gene Set	1.961e-17	128	4.196e-15	1	Spliceosome	www.genome.jp/d...
KEGG 03018	View Gene Set	1.708e-06	59	9.447e-05	2	RNA degradation	www.genome.jp/d...
KEGG 03030	View Gene Set	1.144e-06	36	9.447e-05	2	DNA replication	www.genome.jp/d...
KEGG 04110	View Gene Set	1.766e-06	128	9.447e-05	2	Cell cycle	www.genome.jp/d...
KEGG 03050	View Gene Set	5.816e-05	48	0.002074	5	Proteasome	www.genome.jp/d...
KEGG 03410	View Gene Set	5.555e-05	34	0.002074	5	Base excision repair	www.genome.jp/d...
KEGG 04120	View Gene Set	0.0002473	139	0.00756	7	Ubiquitin mediated proteolysis	www.genome.jp/d...
KEGG 00240	View Gene Set	0.001059	99	0.02834	8	Pyrimidine metabolism	www.genome.jp/d...
KEGG 03440	View Gene Set	0.001413	28	0.03357	9	Homologous recombination	www.genome.jp/d...
KEGG 04623	View Gene Set	0.001569	56	0.03357	9	Cytosolic DNA-sensing pathway	www.genome.jp/d...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
GO GO:0090304	View Gene Set	2.138e-59	3724	2.857e-55	1	nucleic acid metabolic process	amigo.geneontol...
GO GO:0005634	View Gene Set	1.549e-58	5198	1.035e-54	2	nucleus	amigo.geneontol...
GO GO:0003676	View Gene Set	7.145e-50	2979	3.182e-46	3	nucleic acid binding	amigo.geneontol...
GO GO:0010467	View Gene Set	5.577e-49	3806	1.863e-45	4	gene expression	amigo.geneontol...
GO GO:0044428	View Gene Set	1.294e-47	1938	3.458e-44	5	nuclear part	amigo.geneontol...
GO GO:0044260	View Gene Set	4.618e-46	5699	1.028e-42	6	cellular macromolecule metabolic process	amigo.geneontol...
GO GO:0003723	View Gene Set	8.22e-44	732	1.569e-40	7	RNA binding	amigo.geneontol...
GO GO:0031981	View Gene Set	3.604e-42	1518	6.018e-39	8	nuclear lumen	amigo.geneontol...
GO GO:0006139	View Gene Set	7.953e-42	4294	1.181e-38	9	nucleobase nucleoside nucleotide and nucleic acid metabolic process	amigo.geneontol...
GO GO:0006396	View Gene Set	4.849e-39	578	6.479e-36	10	RNA processing	amigo.geneontol...
GO GO:0016070	View Gene Set	7.917e-38	2596	9.616e-35	11	RNA metabolic process	amigo.geneontol...
GO GO:0070013	View Gene Set	1.594e-36	1845	1.774e-33	12	intracellular organelle lumen	amigo.geneontol...
GO GO:0043170	View Gene Set	4.879e-36	6274	4.656e-33	13	macromolecule metabolic process	amigo.geneontol...
GO GO:0043233	View Gene Set	4.604e-36	1881	4.656e-33	13	organelle lumen	amigo.geneontol...
GO GO:0031974	View Gene Set	9.738e-36	1917	8.674e-33	15	membrane-enclosed lumen	amigo.geneontol...
GO GO:0034641	View Gene Set	6.759e-34	4584	5.644e-31	16	cellular nitrogen compound metabolic process	amigo.geneontol...
GO GO:0034645	View Gene Set	1.885e-33	3529	1.481e-30	17	cellular macromolecule biosynthetic process	amigo.geneontol...
GO GO:0009059	View Gene Set	6.245e-33	3597	4.635e-30	18	macromolecule biosynthetic process	amigo.geneontol...
GO GO:0030529	View Gene Set	3.859e-32	504	2.713e-29	19	ribonucleoprotein complex	amigo.geneontol...
GO GO:0006807	View Gene Set	2.89e-30	4698	1.93e-27	20	nitrogen compound metabolic process	amigo.geneontol...
GO GO:0008380	View Gene Set	2.187e-28	300	1.391e-25	21	RNA splicing	amigo.geneontol...
GO GO:0005654	View Gene Set	3.466e-28	939	2.105e-25	22	nucleoplasm	amigo.geneontol...
GO GO:0016071	View Gene Set	8.193e-27	381	4.759e-24	23	mRNA metabolic process	amigo.geneontol...
GO GO:0006397	View Gene Set	2.008e-26	317	1.118e-23	24	mRNA processing	amigo.geneontol...
GO GO:0043227	View Gene Set	3.278e-25	8383	1.752e-22	25	membrane-bounded organelle	amigo.geneontol...
GO GO:0043231	View Gene Set	3.55e-25	8376	1.824e-22	26	intracellular membrane-bounded organelle	amigo.geneontol...
GO GO:0005730	View Gene Set	1.111e-23	734	5.498e-21	27	nucleolus	amigo.geneontol...
GO GO:0006350	View Gene Set	6.428e-21	2744	3.067e-18	28	transcription	amigo.geneontol...
GO GO:0060255	View Gene Set	3.04e-19	3411	1.401e-16	29	regulation of macromolecule metabolic process	amigo.geneontol...
GO GO:0010556	View Gene Set	3.324e-19	2901	1.48e-16	30	regulation of macromolecule biosynthetic process	amigo.geneontol...
GO GO:0044249	View Gene Set	5.154e-19	4326	2.221e-16	31	cellular biosynthetic process	amigo.geneontol...
GO GO:0045449	View Gene Set	1.775e-18	2647	7.411e-16	32	regulation of transcription	amigo.geneontol...
GO GO:0043229	View Gene Set	2.21e-18	9346	8.946e-16	33	intracellular organelle	amigo.geneontol...
GO GO:0043226	View Gene Set	2.719e-18	9360	1.069e-15	34	organelle	amigo.geneontol...
GO GO:0010468	View Gene Set	2.925e-18	2958	1.116e-15	35	regulation of gene expression	amigo.geneontol...
GO GO:0000375	View Gene Set	2.198e-17	106	8.156e-15	36	RNA splicing via transesterification reactions	amigo.geneontol...
GO GO:0009058	View Gene Set	2.342e-17	4436	8.456e-15	37	biosynthetic process	amigo.geneontol...
GO GO:0005681	View Gene Set	2.421e-17	135	8.511e-15	38	spliceosomal complex	amigo.geneontol...
GO GO:0044451	View Gene Set	5.005e-17	600	1.714e-14	39	nucleoplasm part	amigo.geneontol...
GO GO:0044237	View Gene Set	2.034e-16	7431	6.795e-14	40	cellular metabolic process	amigo.geneontol...
GO GO:0000775	View Gene Set	8.986e-16	146	2.928e-13	41	chromosome centromeric region	amigo.geneontol...
GO GO:0003677	View Gene Set	1.309e-15	2028	4.165e-13	42	DNA binding	amigo.geneontol...
GO GO:0006259	View Gene Set	1.426e-15	592	4.429e-13	43	DNA metabolic process	amigo.geneontol...
GO GO:0031326	View Gene Set	1.542e-15	3048	4.681e-13	44	regulation of cellular biosynthetic process	amigo.geneontol...
GO GO:0009889	View Gene Set	3.086e-15	3070	9.162e-13	45	regulation of biosynthetic process	amigo.geneontol...
GO GO:0005694	View Gene Set	5.117e-15	507	1.486e-12	46	chromosome	amigo.geneontol...
GO GO:0080090	View Gene Set	8.981e-15	3585	2.553e-12	47	regulation of primary metabolic process	amigo.geneontol...
GO GO:0000278	View Gene Set	1.807e-14	489	5.029e-12	48	mitotic cell cycle	amigo.geneontol...
GO GO:0000377	View Gene Set	1.935e-14	97	5.169e-12	49	RNA splicing via transesterification reactions with bulged adenosine as nucleophile	amigo.geneontol...
GO GO:0000398	View Gene Set	1.935e-14	97	5.169e-12	49	nuclear mRNA splicing via spliceosome	amigo.geneontol...
GO GO:0019219	View Gene Set	2.099e-14	3040	5.498e-12	51	regulation of nucleobase nucleoside nucleotide and nucleic acid metabolic process	amigo.geneontol...
GO GO:0044238	View Gene Set	4.628e-14	7629	1.189e-11	52	primary metabolic process	amigo.geneontol...
GO GO:0006412	View Gene Set	1.119e-13	412	2.822e-11	53	translation	amigo.geneontol...
GO GO:0022613	View Gene Set	1.269e-13	194	3.109e-11	54	ribonucleoprotein complex biogenesis	amigo.geneontol...
GO GO:0051171	View Gene Set	1.28e-13	3066	3.109e-11	54	regulation of nitrogen compound metabolic process	amigo.geneontol...
GO GO:0006974	View Gene Set	3.249e-13	412	7.751e-11	56	response to DNA damage stimulus	amigo.geneontol...
GO GO:0032991	View Gene Set	4.154e-13	3237	9.737e-11	57	macromolecular complex	amigo.geneontol...
GO GO:0048285	View Gene Set	5.324e-13	286	1.226e-10	58	organelle fission	amigo.geneontol...
GO GO:0000280	View Gene Set	5.952e-13	276	1.325e-10	59	nuclear division	amigo.geneontol...
GO GO:0007067	View Gene Set	5.952e-13	276	1.325e-10	59	mitosis	amigo.geneontol...
GO GO:0000087	View Gene Set	1.025e-12	286	2.245e-10	61	M phase of mitotic cell cycle	amigo.geneontol...
GO GO:0043228	View Gene Set	1.56e-12	2690	3.308e-10	62	non-membrane-bounded organelle	amigo.geneontol...
GO GO:0043232	View Gene Set	1.56e-12	2690	3.308e-10	62	intracellular non-membrane-bounded organelle	amigo.geneontol...
GO GO:0016604	View Gene Set	2.859e-12	198	5.967e-10	64	nuclear body	amigo.geneontol...
GO GO:0000279	View Gene Set	2.969e-12	406	6.103e-10	65	M phase	amigo.geneontol...
GO GO:0034470	View Gene Set	7.054e-12	193	1.428e-09	66	ncRNA processing	amigo.geneontol...
GO GO:0044424	View Gene Set	1.149e-11	10976	2.291e-09	67	intracellular part	amigo.geneontol...
GO GO:0016741	View Gene Set	1.664e-11	179	3.27e-09	68	transferase activity transferring one-carbon groups	amigo.geneontol...
GO GO:0005622	View Gene Set	2.394e-11	11329	4.636e-09	69	intracellular	amigo.geneontol...
GO GO:0044427	View Gene Set	2.521e-11	420	4.812e-09	70	chromosomal part	amigo.geneontol...
GO GO:0008168	View Gene Set	2.742e-11	176	5.159e-09	71	methyltransferase activity	amigo.geneontol...
GO GO:0006281	View Gene Set	3.006e-11	309	5.579e-09	72	DNA repair	amigo.geneontol...
GO GO:0008152	View Gene Set	3.165e-11	8439	5.793e-09	73	metabolic process	amigo.geneontol...
GO GO:0022403	View Gene Set	5.21e-11	522	9.406e-09	74	cell cycle phase	amigo.geneontol...
GO GO:0031323	View Gene Set	7.73e-11	3768	1.377e-08	75	regulation of cellular metabolic process	amigo.geneontol...
GO GO:0022402	View Gene Set	7.917e-11	676	1.392e-08	76	cell cycle process	amigo.geneontol...
GO GO:0000793	View Gene Set	1.732e-10	136	3.005e-08	77	condensed chromosome	amigo.geneontol...
GO GO:0032774	View Gene Set	2.655e-10	1953	4.547e-08	78	RNA biosynthetic process	amigo.geneontol...
GO GO:0006351	View Gene Set	2.781e-10	1949	4.684e-08	79	transcription DNA-dependent	amigo.geneontol...
GO GO:0034660	View Gene Set	2.805e-10	236	4.684e-08	79	ncRNA metabolic process	amigo.geneontol...
GO GO:0005840	View Gene Set	2.877e-10	198	4.746e-08	81	ribosome	amigo.geneontol...
GO GO:0000070	View Gene Set	3.078e-10	37	5.015e-08	82	mitotic sister chromatid segregation	amigo.geneontol...
GO GO:0000819	View Gene Set	3.394e-10	38	5.464e-08	83	sister chromatid segregation	amigo.geneontol...
GO GO:0022618	View Gene Set	3.826e-10	76	6.086e-08	84	ribonucleoprotein complex assembly	amigo.geneontol...
GO GO:0051276	View Gene Set	3.91e-10	548	6.146e-08	85	chromosome organization	amigo.geneontol...
GO GO:0007059	View Gene Set	1.186e-09	94	1.843e-07	86	chromosome segregation	amigo.geneontol...
GO GO:0044446	View Gene Set	1.33e-09	5019	2.043e-07	87	intracellular organelle part	amigo.geneontol...
GO GO:0007049	View Gene Set	2.016e-09	1006	3.061e-07	88	cell cycle	amigo.geneontol...
GO GO:0070647	View Gene Set	3.315e-09	356	4.976e-07	89	protein modification by small protein conjugation or removal	amigo.geneontol...
GO GO:0051439	View Gene Set	3.589e-09	68	5.328e-07	90	regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	amigo.geneontol...
GO GO:0000776	View Gene Set	4.242e-09	92	6.228e-07	91	kinetochore	amigo.geneontol...
GO GO:0051340	View Gene Set	5.498e-09	85	7.984e-07	92	regulation of ligase activity	amigo.geneontol...
GO GO:0006260	View Gene Set	5.788e-09	239	8.315e-07	93	DNA replication	amigo.geneontol...
GO GO:0051436	View Gene Set	6.089e-09	62	8.654e-07	94	negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	amigo.geneontol...
GO GO:0051351	View Gene Set	6.829e-09	74	9.604e-07	95	positive regulation of ligase activity	amigo.geneontol...
GO GO:0016568	View Gene Set	9.27e-09	324	1.29e-06	96	chromatin modification	amigo.geneontol...
GO GO:0008270	View Gene Set	9.834e-09	2009	1.354e-06	97	zinc ion binding	amigo.geneontol...
GO GO:0044422	View Gene Set	1.105e-08	5089	1.507e-06	98	organelle part	amigo.geneontol...
GO GO:0031145	View Gene Set	1.139e-08	64	1.537e-06	99	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process	amigo.geneontol...
GO GO:0051252	View Gene Set	2.554e-08	1869	3.412e-06	100	regulation of RNA metabolic process	amigo.geneontol...
GO GO:0051352	View Gene Set	2.69e-08	66	3.524e-06	101	negative regulation of ligase activity	amigo.geneontol...
GO GO:0051444	View Gene Set	2.69e-08	66	3.524e-06	101	negative regulation of ubiquitin-protein ligase activity	amigo.geneontol...
GO GO:0019222	View Gene Set	2.834e-08	4060	3.676e-06	103	regulation of metabolic process	amigo.geneontol...
GO GO:0051437	View Gene Set	3.047e-08	64	3.914e-06	104	positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	amigo.geneontol...
GO GO:0051438	View Gene Set	3.499e-08	82	4.452e-06	105	regulation of ubiquitin-protein ligase activity	amigo.geneontol...
GO GO:0032446	View Gene Set	3.578e-08	310	4.51e-06	106	protein modification by small protein conjugation	amigo.geneontol...
GO GO:0051443	View Gene Set	4.642e-08	71	5.797e-06	107	positive regulation of ubiquitin-protein ligase activity	amigo.geneontol...
GO GO:0003735	View Gene Set	5.735e-08	158	7.095e-06	108	structural constituent of ribosome	amigo.geneontol...
GO GO:0006355	View Gene Set	7.168e-08	1820	8.786e-06	109	regulation of transcription DNA-dependent	amigo.geneontol...
GO GO:0000779	View Gene Set	7.68e-08	79	9.328e-06	110	condensed chromosome centromeric region	amigo.geneontol...
GO GO:0000502	View Gene Set	7.779e-08	63	9.362e-06	111	proteasome complex	amigo.geneontol...
GO GO:0006399	View Gene Set	9.855e-08	118	1.176e-05	112	tRNA metabolic process	amigo.geneontol...
GO GO:0031397	View Gene Set	1.549e-07	78	1.831e-05	113	negative regulation of protein ubiquitination	amigo.geneontol...
GO GO:0042254	View Gene Set	1.908e-07	130	2.236e-05	114	ribosome biogenesis	amigo.geneontol...
GO GO:0007051	View Gene Set	2.435e-07	57	2.829e-05	115	spindle organization	amigo.geneontol...
GO GO:0008033	View Gene Set	2.911e-07	78	3.352e-05	116	tRNA processing	amigo.geneontol...
GO GO:0051301	View Gene Set	3.219e-07	358	3.675e-05	117	cell division	amigo.geneontol...
GO GO:0010605	View Gene Set	3.714e-07	827	4.205e-05	118	negative regulation of macromolecule metabolic process	amigo.geneontol...
GO GO:0044265	View Gene Set	3.866e-07	479	4.341e-05	119	cellular macromolecule catabolic process	amigo.geneontol...
GO GO:0000313	View Gene Set	4.035e-07	49	4.422e-05	120	organellar ribosome	amigo.geneontol...
GO GO:0000777	View Gene Set	4.038e-07	74	4.422e-05	120	condensed chromosome kinetochore	amigo.geneontol...
GO GO:0005761	View Gene Set	4.035e-07	49	4.422e-05	120	mitochondrial ribosome	amigo.geneontol...
GO GO:0000123	View Gene Set	4.505e-07	50	4.893e-05	123	histone acetyltransferase complex	amigo.geneontol...
GO GO:0016567	View Gene Set	5.102e-07	286	5.497e-05	124	protein ubiquitination	amigo.geneontol...
GO GO:0030528	View Gene Set	5.618e-07	950	6.005e-05	125	transcription regulator activity	amigo.geneontol...
GO GO:0016607	View Gene Set	7.483e-07	116	7.934e-05	126	nuclear speck	amigo.geneontol...
GO GO:0043566	View Gene Set	7.614e-07	149	8.01e-05	127	structure-specific DNA binding	amigo.geneontol...
GO GO:0000245	View Gene Set	7.724e-07	34	8.062e-05	128	spliceosome assembly	amigo.geneontol...
GO GO:0033279	View Gene Set	7.915e-07	121	8.197e-05	129	ribosomal subunit	amigo.geneontol...
GO GO:0005876	View Gene Set	1.053e-06	35	0.0001082	130	spindle microtubule	amigo.geneontol...
GO GO:0031396	View Gene Set	1.35e-06	121	0.0001376	131	regulation of protein ubiquitination	amigo.geneontol...
GO GO:0006511	View Gene Set	1.463e-06	296	0.0001481	132	ubiquitin-dependent protein catabolic process	amigo.geneontol...
GO GO:0031398	View Gene Set	1.499e-06	95	0.0001506	133	positive regulation of protein ubiquitination	amigo.geneontol...
GO GO:0006403	View Gene Set	1.552e-06	104	0.0001545	134	RNA localization	amigo.geneontol...
GO GO:0007052	View Gene Set	1.561e-06	22	0.0001545	134	mitotic spindle organization	amigo.geneontol...
GO GO:0043161	View Gene Set	1.622e-06	162	0.0001594	136	proteasomal ubiquitin-dependent protein catabolic process	amigo.geneontol...
GO GO:0010498	View Gene Set	1.754e-06	166	0.0001711	137	proteasomal protein catabolic process	amigo.geneontol...
GO GO:0030530	View Gene Set	1.767e-06	17	0.0001711	138	heterogeneous nuclear ribonucleoprotein complex	amigo.geneontol...
GO GO:0003690	View Gene Set	2.12e-06	99	0.0002038	139	double-stranded DNA binding	amigo.geneontol...
GO GO:0050657	View Gene Set	2.166e-06	102	0.0002038	140	nucleic acid transport	amigo.geneontol...
GO GO:0050658	View Gene Set	2.166e-06	102	0.0002038	140	RNA transport	amigo.geneontol...
GO GO:0051236	View Gene Set	2.166e-06	102	0.0002038	140	establishment of RNA localization	amigo.geneontol...
GO GO:0006325	View Gene Set	4.043e-06	425	0.0003777	143	chromatin organization	amigo.geneontol...
GO GO:0030532	View Gene Set	5.084e-06	32	0.0004717	144	small nuclear ribonucleoprotein complex	amigo.geneontol...
GO GO:0019941	View Gene Set	5.507e-06	302	0.0005039	145	modification-dependent protein catabolic process	amigo.geneontol...
GO GO:0043632	View Gene Set	5.507e-06	302	0.0005039	145	modification-dependent macromolecule catabolic process	amigo.geneontol...
GO GO:0000228	View Gene Set	5.581e-06	177	0.0005073	147	nuclear chromosome	amigo.geneontol...
GO GO:0031324	View Gene Set	5.873e-06	809	0.0005301	148	negative regulation of cellular metabolic process	amigo.geneontol...
GO GO:0051603	View Gene Set	6.165e-06	346	0.0005527	149	proteolysis involved in cellular protein catabolic process	amigo.geneontol...
GO GO:0008170	View Gene Set	7.102e-06	58	0.0006326	150	N-methyltransferase activity	amigo.geneontol...
GO GO:0044257	View Gene Set	8.169e-06	349	0.0007228	151	cellular protein catabolic process	amigo.geneontol...
GO GO:0008757	View Gene Set	9.713e-06	91	0.0008537	152	S-adenosylmethionine-dependent methyltransferase activity	amigo.geneontol...
GO GO:0051427	View Gene Set	1.021e-05	90	0.0008916	153	hormone receptor binding	amigo.geneontol...
GO GO:0051028	View Gene Set	1.188e-05	90	0.00103	154	mRNA transport	amigo.geneontol...
GO GO:0004386	View Gene Set	1.215e-05	144	0.001047	155	helicase activity	amigo.geneontol...
GO GO:0030163	View Gene Set	1.279e-05	398	0.001095	156	protein catabolic process	amigo.geneontol...
GO GO:0035257	View Gene Set	1.298e-05	79	0.001105	157	nuclear hormone receptor binding	amigo.geneontol...
GO GO:0005819	View Gene Set	1.436e-05	167	0.001214	158	spindle	amigo.geneontol...
GO GO:0006302	View Gene Set	1.493e-05	65	0.001254	159	double-strand break repair	amigo.geneontol...
GO GO:0006376	View Gene Set	1.552e-05	15	0.001296	160	mRNA splice site selection	amigo.geneontol...
GO GO:0009892	View Gene Set	1.622e-05	889	0.001346	161	negative regulation of metabolic process	amigo.geneontol...
GO GO:0010564	View Gene Set	1.679e-05	161	0.001385	162	regulation of cell cycle process	amigo.geneontol...
GO GO:0016569	View Gene Set	2.553e-05	165	0.002093	163	covalent chromatin modification	amigo.geneontol...
GO GO:0015934	View Gene Set	2.589e-05	64	0.002109	164	large ribosomal subunit	amigo.geneontol...
GO GO:0003713	View Gene Set	2.88e-05	215	0.002332	165	transcription coactivator activity	amigo.geneontol...
GO GO:0016072	View Gene Set	2.931e-05	101	0.002359	166	rRNA metabolic process	amigo.geneontol...
GO GO:0044267	View Gene Set	3.351e-05	2465	0.002681	167	cellular protein metabolic process	amigo.geneontol...
GO GO:0008276	View Gene Set	3.406e-05	59	0.002709	168	protein methyltransferase activity	amigo.geneontol...
GO GO:0009057	View Gene Set	3.457e-05	570	0.002731	169	macromolecule catabolic process	amigo.geneontol...
GO GO:0031400	View Gene Set	3.489e-05	141	0.002731	169	negative regulation of protein modification process	amigo.geneontol...
GO GO:0033554	View Gene Set	3.495e-05	698	0.002731	169	cellular response to stress	amigo.geneontol...
GO GO:0006364	View Gene Set	3.611e-05	97	0.002805	172	rRNA processing	amigo.geneontol...
GO GO:0016570	View Gene Set	4.491e-05	162	0.003469	173	histone modification	amigo.geneontol...
GO GO:0046914	View Gene Set	4.802e-05	2285	0.003687	174	transition metal ion binding	amigo.geneontol...
GO GO:0000314	View Gene Set	5.329e-05	18	0.004045	175	organellar small ribosomal subunit	amigo.geneontol...
GO GO:0005763	View Gene Set	5.329e-05	18	0.004045	175	mitochondrial small ribosomal subunit	amigo.geneontol...
GO GO:0003712	View Gene Set	5.416e-05	364	0.004088	177	transcription cofactor activity	amigo.geneontol...
GO GO:0016563	View Gene Set	6.205e-05	430	0.004658	178	transcription activator activity	amigo.geneontol...
GO GO:0042054	View Gene Set	7.354e-05	44	0.005489	179	histone methyltransferase activity	amigo.geneontol...
GO GO:0006473	View Gene Set	7.458e-05	61	0.005536	180	protein amino acid acetylation	amigo.geneontol...
GO GO:0007346	View Gene Set	8.803e-05	174	0.006498	181	regulation of mitotic cell cycle	amigo.geneontol...
GO GO:0005667	View Gene Set	8.926e-05	201	0.006552	182	transcription factor complex	amigo.geneontol...
GO GO:0008139	View Gene Set	0.0001038	9	0.00758	183	nuclear localization sequence binding	amigo.geneontol...
GO GO:0015931	View Gene Set	0.0001058	118	0.007653	184	nucleobase nucleoside nucleotide and nucleic acid transport	amigo.geneontol...
GO GO:0032268	View Gene Set	0.000106	576	0.007653	184	regulation of cellular protein metabolic process	amigo.geneontol...
GO GO:0016893	View Gene Set	0.0001071	34	0.007694	186	endonuclease activity active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	amigo.geneontol...
GO GO:0030518	View Gene Set	0.0001101	73	0.007859	187	steroid hormone receptor signaling pathway	amigo.geneontol...
GO GO:0016251	View Gene Set	0.0001106	49	0.007859	187	general RNA polymerase II transcription factor activity	amigo.geneontol...
GO GO:0006405	View Gene Set	0.0001149	44	0.008122	189	RNA export from nucleus	amigo.geneontol...
GO GO:0008134	View Gene Set	0.0001172	525	0.008241	190	transcription factor binding	amigo.geneontol...
GO GO:0000922	View Gene Set	0.0001224	63	0.008565	191	spindle pole	amigo.geneontol...
GO GO:0030522	View Gene Set	0.0001258	95	0.008754	192	intracellular receptor mediated signaling pathway	amigo.geneontol...
GO GO:0000387	View Gene Set	0.0001284	31	0.008889	193	spliceosomal snRNP assembly	amigo.geneontol...
GO GO:0016578	View Gene Set	0.0001314	15	0.009047	194	histone deubiquitination	amigo.geneontol...
GO GO:0030261	View Gene Set	0.0001468	27	0.01006	195	chromosome condensation	amigo.geneontol...
GO GO:0010629	View Gene Set	0.000149	573	0.01016	196	negative regulation of gene expression	amigo.geneontol...
GO GO:0003697	View Gene Set	0.0001775	58	0.01204	197	single-stranded DNA binding	amigo.geneontol...
GO GO:0050733	View Gene Set	0.0001864	6	0.01258	198	RS domain binding	amigo.geneontol...
GO GO:0050000	View Gene Set	0.0001937	17	0.01294	199	chromosome localization	amigo.geneontol...
GO GO:0051303	View Gene Set	0.0001937	17	0.01294	199	establishment of chromosome localization	amigo.geneontol...

Gene Set Collection: Broad.c2.CGP

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad DODD_NASOPHARYNGEAL_CARCINOMA_DN	View Gene Set	5.44e-49	1253	1.301e-45	1	Genes down-regulated in nasopharyngeal carcinoma (NPC) compared to the normal tissue.	www.broad.mit.e...
Broad PUJANA_BRCA1_PCC_NETWORK	View Gene Set	5.21e-41	1582	6.231e-38	2	Genes constituting the BRCA1-PCC network of transcripts whose expression positively correlated (Pearson correlation coefficient PCC >= 0.4) with that of BRCA1 [Gene ID=672] across a compendium of normal tissues.	www.broad.mit.e...
Broad PUJANA_CHEK2_PCC_NETWORK	View Gene Set	5.386e-39	744	4.294e-36	3	Genes constituting the CHEK2-PCC network of transcripts whose expression positively correlates (Pearson correlation coefficient PCC >= 0.4) with that of CHEK2 [Gene ID=11200].	www.broad.mit.e...
Broad KINSEY_TARGETS_OF_EWSR1_FLII_FUSION_UP	View Gene Set	3.755e-34	1180	2.246e-31	4	Genes up-regulated in TC71 and EWS502 cells (Ewing's sarcoma) upon knockdown of the EWSR1-FLII fusion [Gene ID=2130 2314].	www.broad.mit.e...
Broad CAIRO_HEPATOBLASTOMA_CLASSES_UP	View Gene Set	2.998e-32	577	1.434e-29	5	Genes up-regulated in robust Cluster 2 (rC2) of hepatoblastoma samples compared to those in the robust Cluster 1 (rC1).	www.broad.mit.e...
Broad WONG_EMBRYONIC_STEM_CELL_CORE	View Gene Set	8.694e-25	331	3.466e-22	6	The 'core ESC-like gene module': genes coordinately up-regulated in a compendium of mouse embryonic stem cells (ESC) which are shared with the human ESC-like module.	www.broad.mit.e...
Broad PUJANA_BRCA2_PCC_NETWORK	View Gene Set	2.407e-24	410	8.226e-22	7	Genes constituting the BRCA2-PCC network of transcripts whose expression positively correlated (Pearson correlation coefficient PCC >= 0.4) with that of BRCA2 [Gene ID=675] across a compendium of normal tissues.	www.broad.mit.e...
Broad KOBAYASHI_EGFR_SIGNALING_24HR_DN	View Gene Set	6.539e-24	243	1.955e-21	8	Genes down-regulated in H1975 cells (non-small cell lung cancer NSCLC) resistant to gefitinib [PubChem=123631] after treatment with EGFR inhibitor CL-387785 [PubChem=2776] for 24h.	www.broad.mit.e...
Broad SOTIRIOU_BREAST_CANCER_GRADE_1_VS_3_UP	View Gene Set	6.69e-23	143	1.778e-20	9	Up-regulated genes whose expression correlated with histologic grade of invasive breast cancer tumors: comparison of grade 1 vs grade 3.	www.broad.mit.e...
Broad TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C	View Gene Set	4.586e-20	436	1.097e-17	10	Genes down-regulated in HCT116 cells (colon cancer) upon expression of MIR34B or MIR34C [Gene ID=407041 407042] microRNAs.	www.broad.mit.e...
Broad PUJANA_XPRSS_INT_NETWORK	View Gene Set	6.724e-20	164	1.462e-17	11	Genes constituting the XPRSS-Int network: intersection of genes whose expression correlates with BRCA1 BRCA2 ATM and CHEK2 [Gene ID=672 675 472 11200] in a compendium of normal tissues.	www.broad.mit.e...
Broad ROSTY_CERVICAL_CANCER_PROLIFERATION_CLUSTER	View Gene Set	7.638e-20	138	1.523e-17	12	The 'Cervical Cancer Proliferation Cluster' (CCPC): genes whose expression in cervical carcinoma positively correlates with that of the HPV E6 and E7 oncogenes; they are also differentially expressed according to disease outcome.	www.broad.mit.e...
Broad MANALO_HYPOXIA_DN	View Gene Set	2.721e-19	276	5.007e-17	13	Genes down-regulated in response to both hypoxia and overexpression of an active form of HIF1A [Gene ID=3091].	www.broad.mit.e...
Broad NUYTTEN_EZH2_TARGETS_DN	View Gene Set	9.618e-18	859	1.643e-15	14	Genes down-regulated in PC3 cells (prostate cancer) after knockdown of EZH2 [Gene ID=2146] by RNAi.	www.broad.mit.e...
Broad CROONQUIST_IL6_DEPRIVATION_DN	View Gene Set	3.038e-17	80	4.541e-15	15	Genes down-regulated in the ANBL-6 cell line (multiple myeloma MM) after withdrawal of IL6 [Gene ID=3569].	www.broad.mit.e...
Broad BOYAULT_LIVER_CANCER_SUBCLASS_G3_UP	View Gene Set	2.956e-17	184	4.541e-15	15	Up-regulated genes in hepatocellular carcinoma (HCC) subclass G3 defined by unsupervised clustering.	www.broad.mit.e...
Broad CROONQUIST_NRAS_SIGNALING_DN	View Gene Set	3.667e-17	62	5.16e-15	17	Genes down-regulated in ANBL-6 cell line (multiple myeloma MM) expressing a constantly active form of NRAS [Gene ID=4893] off a plasmid vector compared to those grown in the presence of IL6 [Gene ID=3569].	www.broad.mit.e...
Broad PUJANA_ATM_PCC_NETWORK	View Gene Set	1.287e-16	1375	1.71e-14	18	Genes constituting the ATM-PCC network of transcripts whose expression positively correlated (Pearson correlation coefficient PCC >= 0.4) with that of ATM [Gene ID=472] across a compendium of normal tissues.	www.broad.mit.e...
Broad ZHONG_RESPONSE_TO_AZACITIDINE_AND_TSA_DN	View Gene Set	3.538e-16	61	4.455e-14	19	Genes down-regulated in 3 out of 4 NSCLC cell lines (non-small cell lung cancer) after treatment with azacitidine [PubChem=9444] and TSA [PubChem=5562].	www.broad.mit.e...
Broad SHEDDEN_LUNG_CANCER_POOR_SURVIVAL_A6	View Gene Set	1.29e-15	435	1.543e-13	20	Cluster 6 of method A: up-regulation of these genes in patients with non???small cell lung cancer (NSCLC) predicts poor survival outcome.	www.broad.mit.e...
Broad BERENJENO_TRANSFORMED_BY_RHOA_UP	View Gene Set	5.816e-15	485	6.625e-13	21	Genes up-regulated in NIH3T3 cells (fibroblasts) transformed by expression of contitutively active (Q63L) form of RHOA [Gene ID=387] off plasmid vector.	www.broad.mit.e...
Broad MUELLER_PLURINET	View Gene Set	9.973e-15	294	1.084e-12	22	Genes constituting the PluriNet protein-protein network shared by the pluripotent cells (embryonic stem cells embryonical carcinomas and induced pluripotent cells).	www.broad.mit.e...
Broad GARY_CD5_TARGETS_DN	View Gene Set	8.8e-14	415	9.152e-12	23	Genes down-regulated in Daudi cells (B lymphocytes) stably expressing CD5 [Gene ID=921] off a plasmid vector.	www.broad.mit.e...
Broad BIDUS_METASTASIS_UP	View Gene Set	1.016e-13	203	1.012e-11	24	Genes up-regulated in endometroid endometrial tumors from patients with lymph node metastases compared to those without the metastases.	www.broad.mit.e...
Broad MISSIAGLIA_REGULATED_BY_METHYLATION_DN	View Gene Set	3.781e-13	96	3.617e-11	25	Genes down-regulated in PaCa44 and CFPAC1 cells (pancreatic cancer) after treatment with decitabine [PubChem=451668] a DNA hypomethylating agent similar to azacitidine [PubChem=9444].	www.broad.mit.e...
Broad FOURNIER_ACINAR_DEVELOPMENT_LATE_2	View Gene Set	4.368e-13	265	4.019e-11	26	Genes identified by method 2 as coordinately down-regulated late in HMEC cells (mammary epithelium) during acinar development in vitro.	www.broad.mit.e...
Broad LI_WILMS_TUMOR_VS_FETAL_KIDNEY_1_DN	View Gene Set	3.571e-12	158	3.164e-10	27	Genes down-regulated in Wilm's tumor samples compared to fetal kidney.	www.broad.mit.e...
Broad PUJANA_BRCA_CENTERED_NETWORK	View Gene Set	8.285e-12	92	7.078e-10	28	Genes constituting the BRCA-centered network (BCN).	www.broad.mit.e...
Broad MARKEY_RB1_ACUTE_LOF_DN	View Gene Set	1.189e-11	201	9.804e-10	29	Genes down-regulated in adult fibroblasts with inactivated RB1 [Gene ID=5925] by Cre-lox: acute loss of function (LOF) of RB1.	www.broad.mit.e...
Broad PAL_PRMT5_TARGETS_UP	View Gene Set	1.51e-11	178	1.204e-09	30	Genes up-regulated in NIH-3T3 cells (fibroblast) after knockdown of PRMT5 [Gene ID=10419] by RNAi.	www.broad.mit.e...
Broad VECCHI_GASTRIC_CANCER_EARLY_UP	View Gene Set	1.757e-11	408	1.356e-09	31	Up-regulated genes distinguishing between early gastric cancer (EGC) and normal tissue samples.	www.broad.mit.e...
Broad MITSIADES_RESPONSE_TO_APLIDIN_DN	View Gene Set	3.185e-11	241	2.381e-09	32	Genes down-regulated in the MM1S cells (multiple myeloma) after treatment with aplidin [PubChem=44152164] a marine-derived compound with potential anti-cancer properties.	www.broad.mit.e...
Broad MOREAUX_MULTIPLE_MYELOMA_BY_TACI_DN	View Gene Set	5.922e-11	121	4.292e-09	33	Genes distinguishing in multiple myeloma (MM) samples with lower expression of TACI [Gene ID=23495].	www.broad.mit.e...
Broad PUJANA_BREAST_CANCER_WITH_BRCA1_MUTATED_UP	View Gene Set	6.848e-11	53	4.818e-09	34	The XPRSS-Int network genes up-regulated in breast tumors from patients with germline mutations in BRCA1 [Gene ID=672] compared to those with the wild type allele.	www.broad.mit.e...
Broad FERREIRA_EWINGS_SARCOMA_UNSTABLE_VS_STABLE_UP	View Gene Set	1.01e-10	144	6.902e-09	35	Genes up-regulated in genomically unstable Ewing's sarcoma tumors compared to the stable ones.	www.broad.mit.e...
Broad WEI_MYCN_TARGETS_WITH_E_BOX	View Gene Set	1.101e-10	757	7.314e-09	36	Genes whose promoters contain E-box motifs and whose expression changed in MYCN-3 cells (neuroblastoma) upon induction of MYCN [Gene ID=4613].	www.broad.mit.e...
Broad BENPORATH_CYCLING_GENES	View Gene Set	1.306e-10	630	8.441e-09	37	Genes showing cell-cycle stage-specific expression [PMID=12058064].	www.broad.mit.e...
Broad ODONNELL_TFRC_TARGETS_DN	View Gene Set	1.481e-10	131	9.324e-09	38	Genes dpwn-regulated in P493-6 cells (B lymphocyte) upon knockdown of TFRC [Gene ID=7037] by RNAi.	www.broad.mit.e...
Broad HOFFMANN_LARGE_TO_SMALL_PRE_BII_LYMPHOCYTE_UP	View Gene Set	2.754e-10	93	1.689e-08	39	Genes up-regulated during differentiation from large pre-BII to small pre-BII lymphocyte.	www.broad.mit.e...
Broad ZHAN_MULTIPLE_MYELOMA_PR_UP	View Gene Set	3.262e-10	43	1.951e-08	40	Top 50 up-regulated genes in cluster PR of multiple myeloma samples characterized by increased expression of proliferation and cell cycle genes.	www.broad.mit.e...
Broad GRAHAM_CML_DIVIDING_VS_NORMAL_QUIESCENT_UP	View Gene Set	4.63e-10	180	2.701e-08	41	Genes up-regulated in quiescent CD34+ [Gene ID=8842] cells isolated from peripheral blood of normal donors compared to the dividing cells from CML (chronic myeloid leukemia) patients.	www.broad.mit.e...
Broad TIEN_INTESTINE_PROBIOTICS_24HR_UP	View Gene Set	4.815e-10	537	2.742e-08	42	Genes up-regulated in Caco-2 cells (intestinal epithelium) after coculture with the probiotic bacteria L. casei for 24h.	www.broad.mit.e...
Broad WINNEPENNINCKX_MELANOMA_METASTASIS_UP	View Gene Set	6.217e-10	152	3.459e-08	43	Genes from the 254-gene classifier which were up-regulated in melanoma patients with a reported distant metastasis within 4 years.	www.broad.mit.e...
Broad GARGALOVIC_RESPONSE_TO_OXIDIZED_PHOSPHOLIPIDS_TURQUOISE_DN	View Gene Set	7.853e-10	51	4.269e-08	44	Genes from the turquoise module which are down-regulated in HAEC cells (primary aortic endothelium) after exposure to the oxidized 1-palmitoyl-2-arachidonyl-sn-3-glycerophosphocholine (oxPAPC).	www.broad.mit.e...
Broad ZHANG_BREAST_CANCER_PROGENITORS_UP	View Gene Set	1.162e-09	370	6.177e-08	45	Genes changed in cancer stem cells isolated from mammary tumors compared to the non-tumorigenic cells.	www.broad.mit.e...
Broad KANG_DOXORUBICIN_RESISTANCE_UP	View Gene Set	1.539e-09	53	8.002e-08	46	Genes differentialy expressed in gastric cancer cell lines: doxorubicin [PubChem=31703] resistant vs sensitive.	www.broad.mit.e...
Broad SHEN_SMARCA2_TARGETS_UP	View Gene Set	1.576e-09	406	8.023e-08	47	Genes whose expression positively correlated with that of SMARCA2 [Gene ID=6595] in prostate cancer samples.	www.broad.mit.e...
Broad REN_BOUND_BY_E2F	View Gene Set	5.077e-09	47	2.53e-07	48	Genes whose promoters were bound by E2F1 [Gene ID=1869] and E2F4 [Gene ID=1874] in the primary fibroblasts WI-38 by ChIP on chip assay.	www.broad.mit.e...
Broad WHITEFORD_PEDIATRIC_CANCER_MARKERS	View Gene Set	5.667e-09	92	2.766e-07	49	Differentially expressed genes in a panel of xenografts representing 8 common pediatric tumors compared to the normal tissues.	www.broad.mit.e...
Broad RUIZ_TNC_TARGETS_DN	View Gene Set	1.314e-08	138	6.288e-07	50	Genes down-regulated in T98G cells (glioblastoma) by TNC [Gene ID=3371].	www.broad.mit.e...
Broad KAUFFMANN_DNA_REPAIR_GENES	View Gene Set	2.482e-08	205	1.164e-06	51	Genes involved in DNA repair compiled manually by the authors.	www.broad.mit.e...
Broad BLUM_RESPONSE_TO_SALIRASIB_DN	View Gene Set	2.998e-08	332	1.379e-06	52	Selected genes down-regulated in response to the Ras inhibitor salirasib [PubChem=5469318] in a panel of cancer cell lines with constantly active HRAS [Gene ID=3265].	www.broad.mit.e...
Broad GINESTIER_BREAST_CANCER_ZNF217_AMPLIFIED_DN	View Gene Set	5.012e-08	308	2.262e-06	53	Genes down-regulated in non-metastatic breast cancer tumors having type 1 amplification in the 20q13 region; involves ZNF217 [Gene ID=7764] locus only.	www.broad.mit.e...
Broad LY_AGING_OLD_DN	View Gene Set	5.947e-08	47	2.634e-06	54	Genes up-regulated in fibroblasts from old individuals compared to those from young donors.	www.broad.mit.e...
Broad SCHLOSSER_MYC_TARGETS_REPRESSED_BY_SERUM	View Gene Set	1.219e-07	154	5.301e-06	55	Cluster 7: genes up-regulated in B493-6 cells (B lymphocytes) by MYC [Gene ID=4609] and down-regulated by the combination of MYC and serum.	www.broad.mit.e...
Broad ODONNELL_TARGETS_OF_MYC_AND_TFRC_DN	View Gene Set	1.308e-07	42	5.587e-06	56	Genes down-regulated in P493-6 cells (B lymphocyte) by MYC [Gene ID=4609] and up-regulated by RNAi knockdown of TFRC [Gene ID=7037].	www.broad.mit.e...
Broad GRAHAM_NORMAL_QUIESCENT_VS_NORMAL_DIVIDING_DN	View Gene Set	1.339e-07	86	5.62e-06	57	Genes down-regulated in quiescent vs dividing CD34+ [Gene ID=8842] cells isolated from peripheral blood of normal donors.	www.broad.mit.e...
Broad RICKMAN_METASTASIS_UP	View Gene Set	1.829e-07	316	7.541e-06	58	Genes up-regulated in metastatic vs non-metastatic HNSCC (head and neck squamous cell carcinoma) samples.	www.broad.mit.e...
Broad RIZ_ERYTHROID_DIFFERENTIATION	View Gene Set	2.445e-07	71	9.913e-06	59	Selected gradually up-regulated genes in the TLX1 [Gene ID=3195] Tet On iEBHX15-4 cells (pro-erythroblasts).	www.broad.mit.e...
Broad RODRIGUES_THYROID_CARCINOMA_POORLY_DIFFERENTIATED_UP	View Gene Set	2.887e-07	589	1.143e-05	60	Genes up-regulated in poorly differentiated thyroid carcinoma (PDTC) compared to normal thyroid tissue.	www.broad.mit.e...
Broad GRADE_COLON_CANCER_UP	View Gene Set	2.914e-07	711	1.143e-05	60	Up-regulated genes in colon carcinoma tumors compared to the matched normal mucosa samples.	www.broad.mit.e...
Broad RICKMAN_TUMOR_DIFFERENTIATED_MODERATELY_VS_POORLY_UP	View Gene Set	3.024e-07	36	1.148e-05	62	Up-regulated genes that vary between HNSCC (head and neck squamous cell carcinoma) groups formed on the basis of their level of pathological differentiation: moderately vs poorly differentiated tumors.	www.broad.mit.e...
Broad RICKMAN_TUMOR_DIFFERENTIATED_MODERATELY_VS_POORLY_DN	View Gene Set	3.024e-07	36	1.148e-05	62	Down-regulated genes that vary between HNSCC (head and neck squamous cell carcinoma) groups formed on the basis of their level of pathological differentiation: moderately vs poorly differentiated tumors.	www.broad.mit.e...
Broad EGUCHI_CELL_CYCLE_RB1_TARGETS	View Gene Set	3.374e-07	19	1.261e-05	64	RB1 [Gene ID=5925] target genes involved in cell cycle regulation: genes down-regulated by doxorubicin [PubChem=31703] only in cells expressing RB1.	www.broad.mit.e...
Broad GINESTIER_BREAST_CANCER_20Q13_AMPLIFICATION_DN	View Gene Set	3.604e-07	160	1.326e-05	65	Genes down-regulated in metastatic breast cancer tumors having type 2 amplification in the 20q13 region; involves MYBL2 STK6 and ZNF217 [Gene ID=4605 6790 7764]	www.broad.mit.e...
Broad MORI_LARGE_PRE_BII_LYMPHOCYTE_UP	View Gene Set	4.262e-07	52	1.545e-05	66	Up-regulated genes in the B lymphocyte developmental signature based on expression profiling of lymphomas from the Emu-myc transgenic mice: the Large Pre-BII stage.	www.broad.mit.e...
Broad CHIANG_LIVER_CANCER_SUBCLASS_PROLIFERATION_UP	View Gene Set	6.626e-07	135	2.366e-05	67	Top 200 marker genes up-regulated in the 'proliferation' subclass of hepatocellular carcinoma (HCC); characterized by increased proliferation high levels of serum AFP [Gene ID=174] and chromosomal instability.	www.broad.mit.e...
Broad MOREAUX_B_LYMPHOCYTE_MATURATION_BY_TACI_DN	View Gene Set	8.462e-07	42	2.977e-05	68	Genes down-regulated in normal bone marrow plasma cells (BMPC) compared to polyclonal plasmablasts (PPC) that also distinguished multiple myeloma (MM) samples by expression of levels of TACI [Gene ID=23495].	www.broad.mit.e...
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_24HR_DN	View Gene Set	9.644e-07	920	3.343e-05	69	Genes down-regulated in HL-60 cells (acute promyelocytic leukemia APL) after treatment with the aminopeptidase inhibitor tosedostat (CHR-2797) [PubChem=15547703] for 24 h.	www.broad.mit.e...
Broad MILI_PSEUDOPODIA_HAPTOTAXIS_UP	View Gene Set	1.111e-06	452	3.798e-05	70	Transcripts enriched in pseudopodia of NIH/3T3 cells (fibroblast) in response to haptotactic migratory stimulus by fibronectin FN1 [Gene ID=2335].	www.broad.mit.e...
Broad HELLER_HDAC_TARGETS_SILENCED_BY_METHYLATION_DN	View Gene Set	1.172e-06	241	3.95e-05	71	Genes down-regulated in multiple myeloma (MM) cell lines treated with both decitabine [PubChem=451668] TSA [PubChem=5562].	www.broad.mit.e...
Broad CHEMNITZ_RESPONSE_TO_PROSTAGLANDIN_E2_UP	View Gene Set	1.697e-06	135	5.637e-05	72	Genes up-regulated in CD4+ [Gene ID=920] T lymphocytes after stimulation with prostaglandin E2 [PubChem=5280360].	www.broad.mit.e...
Broad LOCKWOOD_AMPLIFIED_IN_LUNG_CANCER	View Gene Set	1.906e-06	167	6.161e-05	73	Overexpressed genes with amplified copy number across 27 non-small cell lung cancer (NSCLC) cell lines.	www.broad.mit.e...
Broad MORI_IMMATURE_B_LYMPHOCYTE_DN	View Gene Set	1.89e-06	52	6.161e-05	73	Down-regulated genes in the B lymphocyte developmental signature based on expression profiling of lymphomas from the Emu-myc transgenic mice: the immature B stage.	www.broad.mit.e...
Broad SENGUPTA_NASOPHARYNGEAL_CARCINOMA_UP	View Gene Set	1.936e-06	269	6.173e-05	75	Genes up-regulated in nsopharyngeal carcinoma relative to the normal tissue.	www.broad.mit.e...
Broad MARTINEZ_RESPONSE_TO_TRABECTEDIN_DN	View Gene Set	2.249e-06	212	7.078e-05	76	Genes down-regulated in at least 8 of 11 sarcoma cell lines by trabectedin [PubChem=3199].	www.broad.mit.e...
Broad MORI_EMU_MYC_LYMPHOMA_BY_ONSET_TIME_UP	View Gene Set	3.26e-06	92	0.0001013	77	Genes correlated with the early tumor onset in the Emu-myc transgenic mouse lymphoma model.	www.broad.mit.e...
Broad LEE_EARLY_T_LYMPHOCYTE_UP	View Gene Set	3.321e-06	80	0.0001018	78	Genes up-regulated at early stages of progenitor T lymphocyte maturation compared to the late stages.	www.broad.mit.e...
Broad DANG_MYC_TARGETS_UP	View Gene Set	4.449e-06	127	0.0001347	79	Genes up-regulated by MYC [Gene ID=4609] and whose promoters are bound by MYC according to MYC Target Gene Database.	www.broad.mit.e...
Broad NOUZOVA_TRETINOIN_AND_H4_ACETYLATION	View Gene Set	4.606e-06	124	0.0001377	80	Genes whose CpG islands showed greatly increased histone H4 acetylation in NB4 cells (acute promyelocytic leukemia APL) upon treatment with tretinoin [PubChem=5538].	www.broad.mit.e...
Broad CASORELLI_ACUTE_PROMYELOCYTIC_LEUKEMIA_DN	View Gene Set	5.416e-06	639	0.0001599	81	Genes down-regulated in APL (acute promyeolocytic leukemia) blasts expressing PML-RARA fusion [Gene ID=5371 5914] compared to normal promyeloblasts.	www.broad.mit.e...
Broad BUYTAERT_PHOTODYNAMIC_THERAPY_STRESS_DN	View Gene Set	6.27e-06	599	0.0001829	82	Genes down-regulated in T24 (bladder cancer) cells in response to the photodynamic therapy (PDT) stress.	www.broad.mit.e...
Broad HORIUCHI_WTAP_TARGETS_DN	View Gene Set	7.25e-06	289	0.0002065	83	Genes down-regulated in primary endothelial cells (HUVEC) after knockdown of WTAP [Gene ID=9589] by RNAi.	www.broad.mit.e...
Broad DAZARD_RESPONSE_TO_UV_NHEK_DN	View Gene Set	7.185e-06	256	0.0002065	83	Genes down-regulated in NHEK cells (normal keratinocytes) by UV-B irradiation.	www.broad.mit.e...
Broad KALMA_E2F1_TARGETS	View Gene Set	8.298e-06	11	0.0002335	85	DNA replication genes up-regulated in a Rat-1a cell line (fibroblast) by expression of E2F1 [Gene ID=1869].	www.broad.mit.e...
Broad LY_AGING_MIDDLE_DN	View Gene Set	8.953e-06	15	0.000249	86	Genes down-regulated in fibroblasts from middle-age individuals compared to those from the young donors.	www.broad.mit.e...
Broad RIZ_ERYTHROID_DIFFERENTIATION_CCNE1	View Gene Set	9.266e-06	38	0.0002548	87	Selected gradually up-regulated genes whose expression profile follows that of CCNE1 [Gene ID=898] in the TLX1 [Gene ID=3195] Tet On iEBHX15-4 cells (pro-erythroblasts).	www.broad.mit.e...
Broad FRASOR_RESPONSE_TO_SERM_OR_FULVESTRANT_DN	View Gene Set	9.461e-06	43	0.0002572	88	Genes down-regulated in MCF-7 cells (breast cancer) by selective estrogen receptor modulators (SERM) 4-hydroxytamoxifen raloxifene or ICI 182780 but not by estradiol [PubChem=44959 5035 3478439 5757].	www.broad.mit.e...
Broad TARTE_PLASMA_CELL_VS_PLASMABLAST_DN	View Gene Set	9.899e-06	303	0.0002661	89	Genes down-regulated in mature plasma cells compared with plasmablastic B lymphocytes.	www.broad.mit.e...
Broad GALE_APL_WITH_FLT3_MUTATED_UP	View Gene Set	1.002e-05	52	0.0002662	90	Genes up-regulated in acute promyelocytic leukemia (APL) patients with mutated FLT3 [Gene ID=2322].	www.broad.mit.e...
Broad AMUNDSON_GAMMA_RADIATION_RESPONSE	View Gene Set	1.041e-05	36	0.0002738	91	Genes down-regulated across the entire panel of NCI-60 cell lines in response to gamma radiation.	www.broad.mit.e...
Broad RAMALHO_STEMNESS_UP	View Gene Set	1.219e-05	192	0.000317	92	Genes enriched in embryonic neural and hematopoietic stem cells.	www.broad.mit.e...
Broad BENPORATH_PROLIFERATION	View Gene Set	1.357e-05	140	0.0003491	93	Set 'Proliferation Cluster': genes defined in human breast tumor expression data.	www.broad.mit.e...
Broad RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP	View Gene Set	1.568e-05	681	0.000399	94	Genes up-regulated in anaplastic thyroid carcinoma (ATC) compared to normal thyroid tissue.	www.broad.mit.e...
Broad SONG_TARGETS_OF_IE86_CMV_PROTEIN	View Gene Set	1.963e-05	49	0.0004942	95	Cellular genes up-regulated in forskin fibroblasts by expression of CMV EI86 protein off an adenovirus vector.	www.broad.mit.e...
Broad RICKMAN_TUMOR_DIFFERENTIATED_WELL_VS_POORLY_UP	View Gene Set	2.359e-05	220	0.0005879	96	Up-regulated genes that vary between HNSCC (head and neck squamous cell carcinoma) groups formed on the basis of their level of pathological differentiation: well vs poorly differentiated tumors.	www.broad.mit.e...
Broad FINETTI_BREAST_CANCER_KINOME_RED	View Gene Set	2.481e-05	15	0.0006055	97	Genes in the red cluster of protein kinases distinguishing between luminal A and basal breast cancer subtypes.	www.broad.mit.e...
Broad FINETTI_BREAST_CANCER_BASAL_VS_LUMINAL	View Gene Set	2.481e-05	15	0.0006055	97	Protein kinases distinguishing between basal and luminal A subtypes of breast cancer.	www.broad.mit.e...
Broad SARRIO_EPITHELIAL_MESENCHYMAL_TRANSITION_UP	View Gene Set	4e-05	16	0.0009666	99	Genes up-regulated in MCF10A cells (breast cancer) grown at low (mesenchymal phenotype) compared to those grown at high (epithelial basal-like phenotype) confluency.	www.broad.mit.e...
Broad FARMER_BREAST_CANCER_CLUSTER_2	View Gene Set	4.314e-05	33	0.001032	100	Cluster 2: selected proliferation and 8q amplicon genes clustered together across breast cancer samples.	www.broad.mit.e...
Broad BASAKI_YBX1_TARGETS_UP	View Gene Set	5.88e-05	279	0.001381	101	Genes up-regulated in SKOC-3 cells (ovarian cancer) after YB-1 (YBX1) [Gene ID=4904] knockdown by RNAi.	www.broad.mit.e...
Broad WANG_LMO4_TARGETS_DN	View Gene Set	5.89e-05	327	0.001381	101	Genes down-regulated in MCF7 cells (breast cancer) engineered to conditionally express LMO4 [Gene ID=8543] by a Tet Off system.	www.broad.mit.e...
Broad SMID_BREAST_CANCER_LUMINAL_A_DN	View Gene Set	6.091e-05	17	0.001415	103	Genes down-regulated in the luminal A subtype of breast cancer.	www.broad.mit.e...
Broad GRADE_COLON_AND_RECTAL_CANCER_UP	View Gene Set	6.403e-05	213	0.001473	104	Up-regulated genes in both rectal and colon carcinoma compared to normal mucosa samples.	www.broad.mit.e...
Broad RHODES_UNDIFFERENTIATED_CANCER	View Gene Set	6.803e-05	60	0.00155	105	Genes commonly up-regulated in undifferentiated cancer relative to well-differentiated cancer based on the meta-analysis of the OncoMine gene expression database.	www.broad.mit.e...
Broad YU_MYC_TARGETS_UP	View Gene Set	8.043e-05	37	0.001815	106	Genes up-regulated in B cell lymphoma tumors expressing an activated form of MYC [Gene ID=4609].	www.broad.mit.e...
Broad HELLER_HDAC_TARGETS_DN	View Gene Set	8.416e-05	250	0.001882	107	Genes down-regulated in at least one of three multiple myeloma (MM) cell lines by TSA [PubChem=5562].	www.broad.mit.e...
Broad GARCIA_TARGETS_OF_FLI1_AND_DAX1_DN	View Gene Set	9.407e-05	148	0.002083	108	Genes down-regulated in the A673 cells (Ewing sarcoma) after double knockdown of both FLI1 and DAX1 [Gene ID=2313 190] by RNAi.	www.broad.mit.e...
Broad CHANG_CYCLING_GENES	View Gene Set	9.819e-05	49	0.002155	109	Fibroblast serum response genes showing periodic expression during the cell cycle; excluded from the core serum response signature.	www.broad.mit.e...
Broad JISON_SICKLE_CELL_DISEASE_DN	View Gene Set	0.0001128	168	0.002454	110	Genes down-regulated in peripheral blood mononuclear cells (PBMC) from sickle cell disease patients compared to those from healthy subjects.	www.broad.mit.e...
Broad PENG_GLUTAMINE_DEPRIVATION_DN	View Gene Set	0.0001165	84	0.002511	111	Genes down-regulated in BJAB cells (B-lymphoma) after glutamine [PubChem=738] deprivation.	www.broad.mit.e...
Broad SCHLOSSER_MYC_TARGETS_AND_SERUM_RESPONSE_DN	View Gene Set	0.0001351	46	0.002885	112	Cluster 6: genes down-regulated in B493-6 cells (B lymphocytes) by MYC [Gene ID=4609] in combination with serum but not affected by serum alone; they are also up-regulated by MYC alone.	www.broad.mit.e...
Broad LIN_MELANOMA_COPY_NUMBER_UP	View Gene Set	0.0001437	65	0.003041	113	Candidate genes in significant regions of chromosomal copy number gains in a panel of melanoma samples.	www.broad.mit.e...
Broad KIM_WT1_TARGETS_DN	View Gene Set	0.0001501	431	0.00315	114	Genes down-regulated in UB27 cells (osteosarcoma) at any time point after inducing the expression of a mutant form of WT1 [Gene ID=7490].	www.broad.mit.e...
Broad KAUFFMANN_DNA_REPLICATION_GENES	View Gene Set	0.0001536	128	0.003195	115	Genes involved in DNA replication compiled manually by the authors.	www.broad.mit.e...
Broad SPIELMAN_LYMPHOBLAST_EUROPEAN_VS_ASIAN_UP	View Gene Set	0.0001627	469	0.003355	116	Genes up-regulated in lymphoblastoid cells from the European population compared to those from the Asian population.	www.broad.mit.e...
Broad FURUKAWA_DUSP6_TARGETS_PCI35_DN	View Gene Set	0.0001731	66	0.003539	117	Genes down-regulated in PCI-35 cells (pancreatic cancer lack endogenous DUSP6 [Gene ID=1848]) upon expression of DUSP6 off an adenoviral vector.	www.broad.mit.e...
Broad NAKAMURA_TUMOR_ZONE_PERIPHERAL_VS_CENTRAL_UP	View Gene Set	0.0001913	263	0.003877	118	Up-regulated genes in peripheral zone of human pancreatic cancer growing in the pancreas of nude mice compared to that of the tumor from the central zone.	www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_13	View Gene Set	0.0001951	158	0.003922	119	Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 13.	www.broad.mit.e...
Broad SCIAN_CELL_CYCLE_TARGETS_OF_TP53_AND_TP73_DN	View Gene Set	0.0002104	22	0.004194	120	Cell cycle genes changed in H1299 cells (lung cancer) after overexpression of either P53 [Gene ID=7157] or P73 [Gene ID=7161].	www.broad.mit.e...
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_DN	View Gene Set	0.0002507	832	0.004957	121	Genes down-regulated in HL-60 cells (acute promyelocytic leukemia APL) after treatment with the aminopeptidase inhibitor tosedostat (CHR-2797) [PubChem=15547703] for 6 h.	www.broad.mit.e...
Broad AGUIRRE_PANCREATIC_CANCER_COPY_NUMBER_UP	View Gene Set	0.0002804	288	0.005498	122	Up-regulated genes whose expression correlates with copy number gains in pancreatic adenocarcinoma cell lines and primary tumor specimens.	www.broad.mit.e...
Broad MATTIOLI_MGUS_VS_PCL	View Gene Set	0.0002844	109	0.005531	123	Genes changed in MGUS (monoclonal gammopathy of undetermined significance) compared to PCL (plasma cell leukemia) samples.	www.broad.mit.e...
Broad CHANG_CORE_SERUM_RESPONSE_UP	View Gene Set	0.0003115	66	0.006009	124	Up-regulated genes in the canonical gene expression signature of the fibroblast core serum response (CSR) defined by the Stanford group.	www.broad.mit.e...
Broad LE_EGR2_TARGETS_UP	View Gene Set	0.0003283	100	0.006282	125	Genes up-regulated in P14 nerves of transgenic mice having hypomorhic (reduced function) allele of EGR2 [Gene ID=1959].	www.broad.mit.e...
Broad BOYAULT_LIVER_CANCER_SUBCLASS_G123_UP	View Gene Set	0.0003661	44	0.00695	126	Up-regulated genes in hepatocellular carcinoma (HCC) subclass G123 defined by unsupervised clustering.	www.broad.mit.e...
Broad KIM_WT1_TARGETS_12HR_DN	View Gene Set	0.0003722	200	0.007011	127	Genes down-regulated in UB27 cells (osteosarcoma) at 12 hr after inducing the expression of a mutated form of WT1 [Gene ID=7490].	www.broad.mit.e...
Broad GENTILE_UV_RESPONSE_CLUSTER_D4	View Gene Set	0.00038	49	0.007101	128	Cluster d4: genes progressively down-regulated in WS1 cells (fibroblast) through 12 h after irradiation with high dose UV-C.	www.broad.mit.e...
Broad WONG_PROTEASOME_GENE_MODULE	View Gene Set	0.0004084	46	0.007573	129	Genes that comprise the proteasome gene module	www.broad.mit.e...
Broad MEINHOLD_OVARIAN_CANCER_LOW_GRADE_DN	View Gene Set	0.0004144	18	0.007625	130	Genes down-regulated in low grade (LMP and G1) serous ovarian carcinomas vs the higher grade invasive tumors (G2 and G3).	www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_1_DN	View Gene Set	0.0004648	161	0.008422	131	Genes down-regulated in HMLE cells (mmortalized nontransformed mammary epithelial) by expression of a dominant-negative form of E-cadhedrin (CDH1) [Gene ID=999].	www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_17	View Gene Set	0.0004624	165	0.008422	131	Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 17.	www.broad.mit.e...
Broad MONTERO_THYROID_CANCER_POOR_SURVIVAL_UP	View Gene Set	0.0004863	10	0.008747	133	Up-regulated genes predicting poor survival of patients with thyroid carcinoma.	www.broad.mit.e...
Broad STARK_PREFRONTAL_CORTEX_22Q11_DELETION_DN	View Gene Set	0.0004922	437	0.008786	134	Genes down-regulated in prefrontal cortex (PFC) of mice carrying a hemizygotic microdeletion in the 22q11.2 region.	www.broad.mit.e...
Broad SEMBA_FHIT_TARGETS_DN	View Gene Set	0.0005093	10	0.009025	135	Genes down-regulated in H1299 cells (non-small cell lung cancer NSCLC) expressing the Y144F mutant form of FHIT [Gene ID=2272].	www.broad.mit.e...
Broad ENK_UV_RESPONSE_KERATINOCYTE_DN	View Gene Set	0.0005219	475	0.00918	136	Genes down-regulated in NHEK cells (normal epidermal keratinocytes) after UVB irradiation.	www.broad.mit.e...
Broad RHEIN_ALL_GLUCOCORTICOID_THERAPY_DN	View Gene Set	0.0005304	351	0.009194	137	Genes down-regulated in ALL (acute lymphoblastic leukemia) blasts after 1 week of treatment with glucocorticoids.	www.broad.mit.e...
Broad GEORGES_CELL_CYCLE_MIR192_TARGETS	View Gene Set	0.000528	59	0.009194	137	Experimentally validated direct targets of MIR192 [Gene ID=406967] microRNA; MIR192 caused cell cycle arrest in HCT116 cells (colon cancer).	www.broad.mit.e...
Broad FUJII_YBX1_TARGETS_DN	View Gene Set	0.0005939	139	0.01022	139	Genes down-regulated in MCF-7 cells (breast cancer) after knockdown of YBX1 [Gene ID=4904] by RNAi.	www.broad.mit.e...
Broad RHODES_CANCER_META_SIGNATURE	View Gene Set	0.0006006	54	0.01026	140	Genes commonly up-regulated in cancer relative to normal tissue according to the meta-analysis of the OncoMine gene expression database.	www.broad.mit.e...
Broad WU_APOPTOSIS_BY_CDKN1A_VIA_TP53	View Gene Set	0.0006571	36	0.01115	141	Genes downstream of both CDKN1A and TP53 [Gene ID=1026 7157] in 2774qw1 cells (ovarian cancer).	www.broad.mit.e...
Broad DIAZ_CHRONIC_MEYLOGENOUS_LEUKEMIA_UP	View Gene Set	0.0006881	1353	0.01159	142	Genes up-regulated in CD34+ [Gene ID=947] cells isolated from bone marrow of CML (chronic myelogenous leukemia) patients compared to those from normal donors.	www.broad.mit.e...
Broad LINDGREN_BLADDER_CANCER_CLUSTER_3_UP	View Gene Set	0.0007054	314	0.0118	143	Genes whose expression profile is specific to Cluster III of urothelial cell carcinoma (UCC) tumors.	www.broad.mit.e...
Broad DAZARD_UV_RESPONSE_CLUSTER_G6	View Gene Set	0.0007235	122	0.01202	144	Cluster G6: genes increasingly down-regulated in NHEK cells (normal keratinocyte) after UV-B irradiation.	www.broad.mit.e...
Broad WELCSH_BRCA1_TARGETS_1_DN	View Gene Set	0.0007486	124	0.01235	145	Upregulated by induction of exogenous BRCA1 in EcR-293 cells	www.broad.mit.e...
Broad LEE_LIVER_CANCER_SURVIVAL_DN	View Gene Set	0.0007694	123	0.01261	146	Genes highly expressed in hepatocellular carcinoma with poor survival.	www.broad.mit.e...
Broad GEORGES_TARGETS_OF_MIR192_AND_MIR215	View Gene Set	0.0007831	809	0.01274	147	Genes down-regulated in HCT116 cells (colon cancer) by expression of MIR192 or MIR215 [Gene ID=406967 406997] at 24 h.	www.broad.mit.e...
Broad GARGALOVIC_RESPONSE_TO_OXIDIZED_PHOSPHOLIPIDS_MAGENTA_UP	View Gene Set	0.0007961	26	0.01287	148	Genes from the magenta module which are up-regulated in HAEC cells (primary aortic endothelium) after exposure to the oxidized 1-palmitoyl-2-arachidonyl-sn-3-glycerophosphorylcholine (oxPAPC).	www.broad.mit.e...
Broad COLDREN_GEFITINIB_RESISTANCE_UP	View Gene Set	0.0008183	74	0.01314	149	Genes up-regulated in NSCLC (non-small cell lung carcinoma) cell lines resistant to gefitinib [PubChem=123631] compared to the sensitive ones.	www.broad.mit.e...
Broad MOOTHA_MITOCHONDRIA	View Gene Set	0.0008691	433	0.01386	150	Mitochondrial genes	www.broad.mit.e...
Broad SLEBOS_HEAD_AND_NECK_CANCER_WITH_HPV_UP	View Gene Set	0.000988	72	0.01565	151	Genes up-regulated in head and neck squamous cell carcinoma (HNSCC) samples positive for HPV compared to the HPV-negative tumors.	www.broad.mit.e...
Broad DACOSTA_UV_RESPONSE_VIA_ERCC3_COMMON_DN	View Gene Set	0.001029	418	0.0162	152	Common down-regulated transcripts in fibroblasts expressing either XP/CS or TDD mutant forms of ERCC3 [Gene ID=2071] after UVC irradiation.	www.broad.mit.e...
Broad VERNELL_RETINOBLASTOMA_PATHWAY_UP	View Gene Set	0.001052	39	0.01645	153	Cluster 1: genes up-regulated by RB1 [Gene ID=5925] CDNK2A [Gene ID=1029] and one of the E2Fs (E2F1 E2F2 or E2F3 [Gene ID=1869 1870 1871]).	www.broad.mit.e...
Broad PYEON_CANCER_HEAD_AND_NECK_VS_CERVICAL_UP	View Gene Set	0.001121	175	0.01737	154	Up-regulated genes in head and neck cancer compared to cervical carcinoma samples.	www.broad.mit.e...
Broad IVANOVA_HEMATOPOIESIS_EARLY_PROGENITOR	View Gene Set	0.001126	100	0.01737	154	Genes in the expression cluster 'Early Progenitors Shared': up-regulated in hematopoietic progenitors from adult bone marrow and from fetal liver.	www.broad.mit.e...
Broad ZHAN_VARIABLE_EARLY_DIFFERENTIATION_GENES_DN	View Gene Set	0.001179	26	0.01808	156	The vEDG set: most variable early differentiation genes (EDG) with similar expression patterns in tonsil B lymphocytes (TBC) and multiple myeloma (MM) cells compared to the plasma cells from tonsil (TPC) and bone marrow (BPC).	www.broad.mit.e...
Broad PUJANA_BREAST_CANCER_LIT_INT_NETWORK	View Gene Set	0.001192	100	0.01817	157	Genes constituting the LIT-Int network of proteins interacting with breast cancer reference proteins BRCA1 BRCA2 ATM and CHEK2 [Gene ID=672 675 472 11200]; the interactions were manually curated from the literature.	www.broad.mit.e...
Broad MOOTHA_VOXPHOS	View Gene Set	0.001619	82	0.02451	158	Genes involved in oxidative phosphorylation; based on literature and sequence annotation resources and converted to Affymetrix HG-U133A probe sets.	www.broad.mit.e...
Broad NADERI_BREAST_CANCER_PROGNOSIS_UP	View Gene Set	0.001746	37	0.02627	159	Up-regulated genes in the breast cancer prognostic signature of 70 genes that significantly correlated with survival.	www.broad.mit.e...
Broad GENTILE_UV_RESPONSE_CLUSTER_D5	View Gene Set	0.001783	28	0.02665	160	Cluster d5: genes progressively down-regulated in WS1 cells (fibroblast) through 18 h after irradiation with high dose UV-C.	www.broad.mit.e...
Broad MARKS_HDAC_TARGETS_DN	View Gene Set	0.001804	14	0.0268	161	Genes whose transcription is altered by histone deacetylase inhibitors.	www.broad.mit.e...
Broad SHEPARD_BMYB_TARGETS	View Gene Set	0.002006	60	0.02962	162	Human orthologs of BMYB [Gene ID=4605] target genes in zebra fish identified as commonly changed in the BMYB loss of function mutant crb ('crush and burn') and after knockdown of BMYB by morpholino.	www.broad.mit.e...
Broad NAKAYAMA_SOFT_TISSUE_TUMORS_PCA2_UP	View Gene Set	0.00215	87	0.03155	163	Top 100 probe sets contrubuting to the positive side of the 2nd principal component; associated with adipocytic differentiation.	www.broad.mit.e...
Broad SHEPARD_CRUSH_AND_BURN_MUTANT_DN	View Gene Set	0.00227	147	0.03311	164	Human orthologs of genes down-regulated in the crb ('crash and burn') zebrafish mutant that represents a loss-of-function mutation in BMYB [Gene ID=4605].	www.broad.mit.e...
Broad DACOSTA_UV_RESPONSE_VIA_ERCC3_DN	View Gene Set	0.002474	825	0.03565	165	Genes down-regulated in fibroblasts expressing mutant forms of ERCC3 [Gene ID=2071] after UV irradiation.	www.broad.mit.e...
Broad VANTVEER_BREAST_CANCER_METASTASIS_DN	View Gene Set	0.002463	104	0.03565	165	Genes whose expression is significantly and negatively correlated with poor breast cancer clinical outcome (defined as developing distant metastases in less than 5 years).	www.broad.mit.e...
Broad SCHLOSSER_MYC_AND_SERUM_RESPONSE_SYNERGY	View Gene Set	0.002665	31	0.03817	167	Cluster 3: genes strongly up-regulated in B493-6 cells (B lymphocytes) by a combination of MYC [Gene ID=4609] and serum but not by each of them alone.	www.broad.mit.e...
Broad SU_TESTIS	View Gene Set	0.002719	75	0.03872	168	Genes up-regulated specifically in human testis tissue.	www.broad.mit.e...
Broad ZHANG_RESPONSE_TO_CANTHARIDIN_DN	View Gene Set	0.002754	60	0.03898	169	Genes down-regulated in HL-60 cells (promyeloid leukemia) by cantharidin [PubChem=6708701].	www.broad.mit.e...
Broad LY_AGING_PREMATURE_DN	View Gene Set	0.002939	24	0.04135	170	Genes down-regulated in fibroblasts from patients with Hutchinson-Gilford progeria (premature aging) compared to those from normal young individuals.	www.broad.mit.e...
Broad BENPORATH_ES_1	View Gene Set	0.003237	367	0.04527	171	Set 'ES exp1': genes overexpressed in human embryonic stem cells according to 5 or more out of 20 profiling studies.	www.broad.mit.e...
Broad BROWNE_HCMV_INFECTION_14HR_DN	View Gene Set	0.003309	289	0.04602	172	Genes down-regulated in primary fibroblast cell culture after infection with HCMV (AD169 strain) at 14 h time point that were not down-regulated at the previous time point 12 h.	www.broad.mit.e...

Gene Set Collection: Broad.c2.CP.BIOCARTA

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c2.CP.KEGG

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c2.CP.REACTOME

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad BIOCARTA_RANMS_PATHWAY	View Gene Set	2.682e-05	10	0.005821	1	Role of Ran in mitotic spindle regulation	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad KEGG_SPLICEOSOME	View Gene Set	1.119e-13	118	2.081e-11	1	Spliceosome	www.broad.mit.e...
Broad KEGG_RNA_DEGRADATION	View Gene Set	1.708e-06	59	8.211e-05	2	RNA degradation	www.broad.mit.e...
Broad KEGG_DNA_REPLICATION	View Gene Set	1.144e-06	36	8.211e-05	2	DNA replication	www.broad.mit.e...
Broad KEGG_CELL_CYCLE	View Gene Set	1.766e-06	128	8.211e-05	2	Cell cycle	www.broad.mit.e...
Broad KEGG_PROTEASOME	View Gene Set	5.816e-05	48	0.001803	5	Proteasome	www.broad.mit.e...
Broad KEGG_BASE_EXCISION_REPAIR	View Gene Set	5.555e-05	35	0.001803	5	Base excision repair	www.broad.mit.e...
Broad KEGG_UBIQUITIN_MEDIATED_PROTEOLYSIS	View Gene Set	0.000365	138	0.009699	7	Ubiquitin mediated proteolysis	www.broad.mit.e...
Broad KEGG_PYRIMIDINE_METABOLISM	View Gene Set	0.00158	98	0.02939	8	Pyrimidine metabolism	www.broad.mit.e...
Broad KEGG_HOMOLOGOUS_RECOMBINATION	View Gene Set	0.001413	28	0.02939	8	Homologous recombination	www.broad.mit.e...
Broad KEGG_CYTOSOLIC_DNA_SENSING_PATHWAY	View Gene Set	0.001569	56	0.02939	8	Cytosolic DNA-sensing pathway	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad REACTOME_MITOTIC_M_M_G1_PHASES	View Gene Set	5.019e-15	157	2.158e-12	1	Genes involved in Mitotic M-M/G1 phases	www.broad.mit.e...
Broad REACTOME_CELL_CYCLE_MITOTIC	View Gene Set	5.824e-14	306	1.252e-11	2	Genes involved in Cell Cycle Mitotic	www.broad.mit.e...
Broad REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA	View Gene Set	7.878e-13	128	1.129e-10	3	Genes involved in Processing of Capped Intron-Containing Pre-mRNA	www.broad.mit.e...
Broad REACTOME_GENE_EXPRESSION	View Gene Set	3.585e-12	415	3.837e-10	4	Genes involved in Gene Expression	www.broad.mit.e...
Broad REACTOME_MRNA_SPLICING	View Gene Set	4.462e-12	97	3.837e-10	4	Genes involved in mRNA Splicing	www.broad.mit.e...
Broad REACTOME_ELONGATION_AND_PROCESSING_OF_CAPPED_TRANSCRIPTS	View Gene Set	3.221e-11	124	2.308e-09	6	Genes involved in Elongation and Processing of Capped Transcripts	www.broad.mit.e...
Broad REACTOME_FORMATION_AND_MATURATION_OF_MRNA_TRANSCRIPT	View Gene Set	1.338e-10	142	8.219e-09	7	Genes involved in Formation and Maturation of mRNA Transcript	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_RNA	View Gene Set	3.166e-10	95	1.702e-08	8	Genes involved in Metabolism of RNA	www.broad.mit.e...
Broad REACTOME_CELL_CYCLE_CHECKPOINTS	View Gene Set	5.955e-10	110	2.845e-08	9	Genes involved in Cell Cycle Checkpoints	www.broad.mit.e...
Broad REACTOME_MITOTIC_PROMETAPHASE	View Gene Set	8.316e-09	92	3.576e-07	10	Genes involved in Mitotic Prometaphase	www.broad.mit.e...
Broad REACTOME_REGULATION_OF_APC_ACTIVATORS_BETWEEN_G1_S_AND_EARLY_ANAPHASE	View Gene Set	4.225e-08	71	1.651e-06	11	Genes involved in Regulation of APC/C activators between G1/S and early anaphase	www.broad.mit.e...
Broad REACTOME_CDC20_PHOSPHO_APC_MEDIATED_DEGRADATION_OF_CYCLIN_A	View Gene Set	1.162e-07	63	4.164e-06	12	Genes involved in Cdc20:Phospho-APC/C mediated degradation of Cyclin A	www.broad.mit.e...
Broad REACTOME_DNA_REPLICATION_PRE_INITIATION	View Gene Set	1.321e-07	76	4.369e-06	13	Genes involved in DNA Replication Pre-Initiation	www.broad.mit.e...
Broad REACTOME_AUTODEGRADATION_OF_CDH1_BY_CDH1_APC	View Gene Set	7.424e-07	57	2.013e-05	14	Genes involved in Autodegradation of Cdh1 by Cdh1:APC/C	www.broad.mit.e...
Broad REACTOME_G1_S_TRANSITION	View Gene Set	6.731e-07	102	2.013e-05	14	Genes involved in G1/S Transition	www.broad.mit.e...
Broad REACTOME_M_G1_TRANSITION	View Gene Set	7.49e-07	61	2.013e-05	14	Genes involved in M/G1 Transition	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_MRNA	View Gene Set	1.72e-06	45	4.351e-05	17	Genes involved in Metabolism of mRNA	www.broad.mit.e...
Broad REACTOME_SYNTHESIS_OF_DNA	View Gene Set	4.164e-06	89	9.595e-05	18	Genes involved in Synthesis of DNA	www.broad.mit.e...
Broad REACTOME_VIF_MEDIATED_DEGRADATION_OF_APOBEC3G	View Gene Set	4.24e-06	47	9.595e-05	18	Genes involved in Vif-mediated degradation of APOBEC3G	www.broad.mit.e...
Broad REACTOME_S_PHASE	View Gene Set	5.124e-06	103	0.0001102	20	Genes involved in S Phase	www.broad.mit.e...
Broad REACTOME_DEADENYLATION_OF_MRNA	View Gene Set	5.586e-06	21	0.0001144	21	Genes involved in Deadenylation of mRNA	www.broad.mit.e...
Broad REACTOME_STABILIZATION_OF_P53	View Gene Set	7.42e-06	46	0.000145	22	Genes involved in Stabilization of p53	www.broad.mit.e...
Broad REACTOME_P53_INDEPENDENT_DNA_DAMAGE_RESPONSE	View Gene Set	1.078e-05	43	0.0002015	23	Genes involved in p53-Independent DNA Damage Response	www.broad.mit.e...
Broad REACTOME_SCF_BETA_TRCP_MEDIATED_DEGRADATION_OF_EMI1	View Gene Set	1.33e-05	48	0.0002384	24	Genes involved in SCF-beta-TrCP mediated degradation of Emi1	www.broad.mit.e...
Broad REACTOME_SNRNP_ASSEMBLY	View Gene Set	1.921e-05	50	0.0003303	25	Genes involved in snRNP Assembly	www.broad.mit.e...
Broad REACTOME_HOST_INTERACTIONS_OF_HIV_FACTORS	View Gene Set	2.762e-05	120	0.0004568	26	Genes involved in Host Interactions of HIV factors	www.broad.mit.e...
Broad REACTOME_ORC1_REMOVAL_FROM_CHROMATIN	View Gene Set	4.63e-05	63	0.0007374	27	Genes involved in Orc1 removal from chromatin	www.broad.mit.e...
Broad REACTOME_MRNA_3_END_PROCESSING	View Gene Set	4.914e-05	25	0.0007546	28	Genes involved in mRNA 3-end processing	www.broad.mit.e...
Broad REACTOME_TRANSPORT_OF_MATURE_MRNA_DERIVED_FROM_AN_INTRON_CONTAINING_TRANSCRIPT	View Gene Set	6.969e-05	42	0.001033	29	Genes involved in Transport of Mature mRNA derived from an Intron-Containing Transcript	www.broad.mit.e...
Broad REACTOME_G2_M_CHECKPOINTS	View Gene Set	9.979e-05	43	0.00143	30	Genes involved in G2/M Checkpoints	www.broad.mit.e...
Broad REACTOME_HIV_INFECTION	View Gene Set	0.000129	183	0.00179	31	Genes involved in HIV Infection	www.broad.mit.e...
Broad REACTOME_CDT1_ASSOCIATION_WITH_THE_CDC6_ORC_ORIGIN_COMPLEX	View Gene Set	0.0001491	52	0.002003	32	Genes involved in CDT1 association with the CDC6:ORC:origin complex	www.broad.mit.e...
Broad REACTOME_REGULATION_OF_ORNITHINE_DECARBOXYLASE	View Gene Set	0.0002153	47	0.002723	33	Genes involved in Regulation of ornithine decarboxylase (ODC)	www.broad.mit.e...
Broad REACTOME_SCF_SKP2_MEDIATED_DEGRADATION_OF_P27_P21	View Gene Set	0.0002137	52	0.002723	33	Genes involved in SCF(Skp2)-mediated degradation of p2721	www.broad.mit.e...
Broad REACTOME_DNA_STRAND_ELONGATION	View Gene Set	0.0003505	31	0.004187	35	Genes involved in DNA strand elongation	www.broad.mit.e...
Broad REACTOME_INACTIVATION_OF_APC_VIA_DIRECT_INHIBITION_OF_THE_APCOMPLEX	View Gene Set	0.0003451	18	0.004187	35	Genes involved in Inactivation of APC/C via direct inhibition of the APC/C complex	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_PROTEINS	View Gene Set	0.0004339	215	0.005043	37	Genes involved in Metabolism of proteins	www.broad.mit.e...
Broad REACTOME_TRNA_AMINOACYLATION	View Gene Set	0.0004508	40	0.005101	38	Genes involved in tRNA Aminoacylation	www.broad.mit.e...
Broad REACTOME_INFLUENZA_LIFE_CYCLE	View Gene Set	0.0004971	137	0.005481	39	Genes involved in Influenza Life Cycle	www.broad.mit.e...
Broad REACTOME_REV_MEDIATED_NUCLEAR_EXPORT_OF_HIV1_RNA	View Gene Set	0.0005614	31	0.005995	40	Genes involved in Rev-mediated nuclear export of HIV-1 RNA	www.broad.mit.e...
Broad REACTOME_TRANSLATION	View Gene Set	0.0005716	120	0.005995	40	Genes involved in Translation	www.broad.mit.e...
Broad REACTOME_GTP_HYDROLYSIS_AND_JOINING_OF_THE_60S_RIBOSOMAL_SUBUNIT	View Gene Set	0.000597	106	0.006007	42	Genes involved in GTP hydrolysis and joining of the 60S ribosomal subunit	www.broad.mit.e...
Broad REACTOME_ASSOCIATION_OF_TRIC_CCT_WITH_TARGET_PROTEINS_DURING_BIOSYNTHESIS	View Gene Set	0.0006007	29	0.006007	42	Genes involved in Association of TriC/CCT with target proteins during biosynthesis	www.broad.mit.e...
Broad REACTOME_DNA_REPAIR	View Gene Set	0.0006648	102	0.006352	44	Genes involved in DNA Repair	www.broad.mit.e...
Broad REACTOME_PHOSPHORYLATION_OF_THE_APC	View Gene Set	0.000652	17	0.006352	44	Genes involved in Phosphorylation of the APC/C	www.broad.mit.e...
Broad REACTOME_DOUBLE_STRAND_BREAK_REPAIR	View Gene Set	0.0008313	21	0.007701	46	Genes involved in Double-Strand Break Repair	www.broad.mit.e...
Broad REACTOME_SIGNALING_BY_WNT	View Gene Set	0.0008418	58	0.007701	46	Genes involved in Signaling by Wnt	www.broad.mit.e...
Broad REACTOME_NUCLEAR_IMPORT_OF_REV_PROTEIN	View Gene Set	0.00104	30	0.009316	48	Genes involved in Nuclear import of Rev protein	www.broad.mit.e...
Broad REACTOME_TRANSCRIPTION	View Gene Set	0.001121	188	0.009794	49	Genes involved in Transcription	www.broad.mit.e...
Broad REACTOME_TRANSPORT_OF_RIBONUCLEOPROTEINS_INTO_THE_HOST_NUCLEUS	View Gene Set	0.001139	29	0.009794	49	Genes involved in Transport of Ribonucleoproteins into the Host Nucleus	www.broad.mit.e...
Broad REACTOME_NEP_NS2_INTERACTS_WITH_THE_CELLULAR_EXPORT_MACHINERY	View Gene Set	0.001174	29	0.009895	51	Genes involved in NEP/NS2 Interacts with the Cellular Export Machinery	www.broad.mit.e...
Broad REACTOME_CYCLIN_E_ASSOCIATED_EVENTS_DURING_G1_S_TRANSITION_	View Gene Set	0.001559	58	0.01265	52	Genes involved in Cyclin E associated events during G1/S transition	www.broad.mit.e...
Broad REACTOME_FORMATION_OF_A_POOL_OF_FREE_40S_SUBUNITS	View Gene Set	0.001558	95	0.01265	52	Genes involved in Formation of a pool of free 40S subunits	www.broad.mit.e...
Broad REACTOME_METABLISM_OF_NUCLEOTIDES	View Gene Set	0.002271	71	0.01808	54	Genes involved in Metablism of nucleotides	www.broad.mit.e...
Broad REACTOME_ACTIVATION_OF_ATR_IN_RESPONSE_TO_REPLICATION_STRESS	View Gene Set	0.002354	37	0.01841	55	Genes involved in Activation of ATR in response to replication stress	www.broad.mit.e...
Broad REACTOME_ACTIVATION_OF_THE_PRE_REPLICATIVE_COMPLEX	View Gene Set	0.003989	30	0.03063	56	Genes involved in Activation of the pre-replicative complex	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_II_TRANSCRIPTION	View Gene Set	0.004122	83	0.0311	57	Genes involved in RNA Polymerase II Transcription	www.broad.mit.e...
Broad REACTOME_APCDC20_MEDIATED_DEGRADATION_OF_CYCLIN_B	View Gene Set	0.004228	18	0.03134	58	Genes involved in APC/C:Cdc20 mediated degradation of Cyclin B	www.broad.mit.e...
Broad REACTOME_VIRAL_MRNA_TRANSLATION	View Gene Set	0.004737	84	0.03452	59	Genes involved in Viral mRNA Translation	www.broad.mit.e...
Broad REACTOME_MITOCHONDRIAL_TRNA_AMINOACYLATION	View Gene Set	0.005277	20	0.03747	60	Genes involved in Mitochondrial tRNA aminoacylation	www.broad.mit.e...
Broad REACTOME_PYRIMIDINE_METABOLISM	View Gene Set	0.005315	22	0.03747	60	Genes involved in Pyrimidine metabolism	www.broad.mit.e...
Broad REACTOME_PEPTIDE_CHAIN_ELONGATION	View Gene Set	0.006038	84	0.04188	62	Genes involved in Peptide chain elongation	www.broad.mit.e...
Broad REACTOME_LAGGING_STRAND_SYNTHESIS	View Gene Set	0.006155	20	0.04201	63	Genes involved in Lagging Strand Synthesis	www.broad.mit.e...
Broad REACTOME_HIV_LIFE_CYCLE	View Gene Set	0.006702	103	0.04503	64	Genes involved in HIV Life Cycle	www.broad.mit.e...
Broad REACTOME_TRANSPORT_OF_THE_SLBP_INDEPENDENT_MATURE_MRNA	View Gene Set	0.00721	32	0.0477	65	Genes involved in Transport of the SLBP independent Mature mRNA	www.broad.mit.e...
Broad REACTOME_CONVERSION_FROM_APC_CDC20_TO_APC_CDH1_IN_LATE_ANAPHASE	View Gene Set	0.007602	17	0.04807	66	Genes involved in Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase	www.broad.mit.e...
Broad REACTOME_HOMOLOGOUS_RECOMBINATION_REPAIR	View Gene Set	0.007498	15	0.04807	66	Genes involved in Homologous Recombination Repair	www.broad.mit.e...
Broad REACTOME_MRNA_SPLICING_MINOR_PATHWAY	View Gene Set	0.007596	38	0.04807	66	Genes involved in mRNA Splicing - Minor Pathway	www.broad.mit.e...
Broad REACTOME_MRNA_DECAY_BY_5_TO_3_EXORIBONUCLEASE	View Gene Set	0.007981	13	0.04973	69	Genes involved in mRNA Decay by 5' to 3' Exoribonuclease	www.broad.mit.e...

Gene Set Collection: Broad.c3.TFT

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad GCCATNTTG_V$YY1_Q6	View Gene Set	1.157e-18	289	7.115e-16	1	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif GCCATNTTG which matches annotation for YY1: YY1 transcription factor	www.broad.mit.e...
Broad V$NFMUE1_Q6	View Gene Set	1.807e-10	175	5.557e-08	2	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif CGGCCATCT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$YY1_02	View Gene Set	1.155e-07	168	1.775e-05	3	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NNNCGGCCATCTTGNCTSNW which matches annotation for YY1: YY1 transcription factor	www.broad.mit.e...
Broad TAANNYSGCG_UNKNOWN	View Gene Set	8.762e-08	60	1.775e-05	3	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TAANNYSGCG. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q6	View Gene Set	2.816e-07	165	2.887e-05	5	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTSGCGS. Motif does not match any known transcription factor	www.broad.mit.e...
Broad KCCGNSWTTT_UNKNOWN	View Gene Set	2.54e-07	76	2.887e-05	5	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif KCCGNSWTTT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q4	View Gene Set	5.183e-07	166	4.554e-05	7	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTSGCGS. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1_Q6_01	View Gene Set	6.951e-06	177	0.000475	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NTTTCGCGCS which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad RCGCANGCGY_V$NRF1_Q6	View Gene Set	6.483e-06	580	0.000475	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif RCGCANGCGY which matches annotation for NRF1: nuclear respiratory factor 1	www.broad.mit.e...
Broad V$E2F1_Q6	View Gene Set	1.139e-05	167	0.0007003	10	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGS which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad V$YY1_Q6	View Gene Set	1.357e-05	166	0.0007588	11	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif GCCATNTTN which matches annotation for YY1: YY1 transcription factor	www.broad.mit.e...
Broad GGCNKCCATNK_UNKNOWN	View Gene Set	2.957e-05	84	0.001515	12	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GGCNKCCATNK. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1_Q4	View Gene Set	4.124e-05	178	0.001812	13	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NTTSGCGG which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad V$E2F1_Q4_01	View Gene Set	3.857e-05	167	0.001812	13	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGSG which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad SGCGSSAAA_V$E2F1DP2_01	View Gene Set	5.082e-05	122	0.002084	15	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif SGCGSSAAA which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1<br> RB1: retinoblastoma 1 (including osteosarcoma)	www.broad.mit.e...
Broad GATGKMRGCG_UNKNOWN	View Gene Set	7.206e-05	47	0.00277	16	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GATGKMRGCG. Motif does not match any known transcription factor	www.broad.mit.e...
Broad TCCCRNNRTGC_UNKNOWN	View Gene Set	0.0001026	130	0.003711	17	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TCCCRNNRTGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad KTGGYRSGAA_UNKNOWN	View Gene Set	0.000164	53	0.005604	18	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif KTGGYRSGAA. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q3_01	View Gene Set	0.000185	171	0.005989	19	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGSG which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F_02	View Gene Set	0.0002382	169	0.007134	20	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTSGCGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q4_01	View Gene Set	0.0002436	171	0.007134	20	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NCSCGCSAAAN which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$ELK1_02	View Gene Set	0.0003183	170	0.008155	22	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NNNNCCGGAARTNN which matches annotation for ELK1: ELK1 member of ETS oncogene family	www.broad.mit.e...
Broad AAGWWRNYGGC_UNKNOWN	View Gene Set	0.0003067	85	0.008155	22	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif AAGWWRNYGGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad TMTCGCGANR_UNKNOWN	View Gene Set	0.0002954	100	0.008155	22	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TMTCGCGANR. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1DP1_01	View Gene Set	0.0003902	169	0.008888	25	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTCSCGC which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F1DP2_01	View Gene Set	0.0003902	169	0.008888	25	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSSCGC which matches annotation for E2F1: E2F transcription factor 1<br> TFDP2: transcription factor Dp-2 (E2F dimerization partner 2)	www.broad.mit.e...
Broad V$E2F4DP2_01	View Gene Set	0.0003902	169	0.008888	25	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTCSCGC which matches annotation for E2F4: E2F transcription factor 4 p107/p130-binding<br> TFDP2: transcription factor Dp-2 (E2F dimerization partner 2)	www.broad.mit.e...
Broad V$E2F_Q3	View Gene Set	0.0005043	162	0.01108	28	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTCGCGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad GCGSCMNTTT_UNKNOWN	View Gene Set	0.0008169	49	0.01732	29	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GCGSCMNTTT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad CCAWNWWNNNGGC_UNKNOWN	View Gene Set	0.0009164	56	0.01818	30	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif CCAWNWWNNNGGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1DP1RB_01	View Gene Set	0.0008968	168	0.01818	30	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGC which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1<br> RB1: retinoblastoma 1 (including osteosarcoma)	www.broad.mit.e...
Broad V$POU3F2_01	View Gene Set	0.0009632	82	0.01851	32	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif ATGMATWWATTCAT which matches annotation for POU3F2: POU domain class 3 transcription factor 2	www.broad.mit.e...
Broad SCGGAAGY_V$ELK1_02	View Gene Set	0.001072	784	0.01998	33	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif SCGGAAGY which matches annotation for ELK1: ELK1 member of ETS oncogene family	www.broad.mit.e...
Broad ACAWNRNSRCGG_UNKNOWN	View Gene Set	0.001133	50	0.0205	34	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif ACAWNRNSRCGG. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F4DP1_01	View Gene Set	0.001316	174	0.02313	35	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGC which matches annotation for E2F4: E2F transcription factor 4 p107/p130-binding<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad GGCKCATGS_UNKNOWN	View Gene Set	0.001526	43	0.02606	36	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GGCKCATGS. Motif does not match any known transcription factor	www.broad.mit.e...
Broad MGGAAGTG_V$GABP_B	View Gene Set	0.001773	512	0.02947	37	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif MGGAAGTG which matches annotation for GABPA: GA binding protein transcription factor alpha subunit 60kDa<br> GABPB2: GA binding protein transcription factor beta subunit 2	www.broad.mit.e...
Broad V$NRF1_Q6	View Gene Set	0.002734	151	0.04311	38	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif CGCATGCGCR which matches annotation for NRF1: nuclear respiratory factor 1	www.broad.mit.e...
Broad KMCATNNWGGA_UNKNOWN	View Gene Set	0.002681	60	0.04311	38	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif KMCATNNWGGA. Motif does not match any known transcription factor	www.broad.mit.e...

Gene Set Collection: Broad.c4.CGN

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad GNF2_CCNA2	View Gene Set	2.095e-22	62	8.945e-20	1	Neighborhood of CCNA2	www.broad.mit.e...
Broad GNF2_SMC4L1	View Gene Set	6.929e-21	75	1.479e-18	2	Neighborhood of SMC4L1	www.broad.mit.e...
Broad GNF2_RRM1	View Gene Set	3.001e-19	82	4.271e-17	3	Neighborhood of RRM1	www.broad.mit.e...
Broad GNF2_PA2G4	View Gene Set	5.104e-19	73	5.449e-17	4	Neighborhood of PA2G4	www.broad.mit.e...
Broad GNF2_CCNB2	View Gene Set	1.166e-18	53	8.297e-17	5	Neighborhood of CCNB2	www.broad.mit.e...
Broad GNF2_PCNA	View Gene Set	1.152e-18	62	8.297e-17	5	Neighborhood of PCNA	www.broad.mit.e...
Broad GNF2_CDC20	View Gene Set	2.488e-18	52	1.518e-16	7	Neighborhood of CDC20	www.broad.mit.e...
Broad MORF_HDAC2	View Gene Set	3.646e-18	256	1.946e-16	8	Neighborhood of HDAC2	www.broad.mit.e...
Broad GNF2_CDC2	View Gene Set	1.71e-17	56	8.115e-16	9	Neighborhood of CDC2	www.broad.mit.e...
Broad GNF2_HMMR	View Gene Set	4.206e-17	43	1.796e-15	10	Neighborhood of HMMR	www.broad.mit.e...
Broad GNF2_CENPF	View Gene Set	9.081e-17	56	3.525e-15	11	Neighborhood of CENPF	www.broad.mit.e...
Broad GNF2_DEK	View Gene Set	1.556e-16	45	5.536e-15	12	Neighborhood of DEK	www.broad.mit.e...
Broad GNF2_RFC4	View Gene Set	5.548e-16	57	1.822e-14	13	Neighborhood of RFC4	www.broad.mit.e...
Broad MORF_PRKDC	View Gene Set	7.434e-16	173	2.267e-14	14	Neighborhood of PRKDC	www.broad.mit.e...
Broad GNF2_MCM5	View Gene Set	8.911e-16	51	2.537e-14	15	Neighborhood of MCM5	www.broad.mit.e...
Broad MORF_BUB3	View Gene Set	1.024e-15	256	2.733e-14	16	Neighborhood of BUB3	www.broad.mit.e...
Broad GNF2_APEX1	View Gene Set	3.066e-15	72	7.7e-14	17	Neighborhood of APEX1	www.broad.mit.e...
Broad GNF2_BUB1B	View Gene Set	3.364e-15	46	7.979e-14	18	Neighborhood of BUB1B	www.broad.mit.e...
Broad MORF_RAD23A	View Gene Set	1.499e-14	316	3.368e-13	19	Neighborhood of RAD23A	www.broad.mit.e...
Broad GNF2_RRM2	View Gene Set	1.916e-14	36	4.092e-13	20	Neighborhood of RRM2	www.broad.mit.e...
Broad GNF2_RAN	View Gene Set	3.781e-14	78	7.688e-13	21	Neighborhood of RAN	www.broad.mit.e...
Broad GNF2_MCM4	View Gene Set	4.962e-14	50	9.631e-13	22	Neighborhood of MCM4	www.broad.mit.e...
Broad MORF_BUB1B	View Gene Set	6.443e-14	61	1.196e-12	23	Neighborhood of BUB1B	www.broad.mit.e...
Broad GNF2_TTK	View Gene Set	8.06e-14	34	1.434e-12	24	Neighborhood of TTK	www.broad.mit.e...
Broad GNF2_FEN1	View Gene Set	1.06e-13	49	1.811e-12	25	Neighborhood of FEN1	www.broad.mit.e...
Broad GNF2_ESPL1	View Gene Set	1.422e-13	35	2.336e-12	26	Neighborhood of ESPL1	www.broad.mit.e...
Broad MORF_RFC4	View Gene Set	5.727e-13	137	9.057e-12	27	Neighborhood of RFC4	www.broad.mit.e...
Broad GNF2_CKS2	View Gene Set	9.814e-13	45	1.497e-11	28	Neighborhood of CKS2	www.broad.mit.e...
Broad MORF_ACP1	View Gene Set	1.037e-12	178	1.528e-11	29	Neighborhood of ACP1	www.broad.mit.e...
Broad MORF_DNMT1	View Gene Set	1.777e-12	105	2.505e-11	30	Neighborhood of DNMT1	www.broad.mit.e...
Broad GNF2_HDAC1	View Gene Set	1.819e-12	85	2.505e-11	30	Neighborhood of HDAC1	www.broad.mit.e...
Broad GNF2_CENPE	View Gene Set	2.845e-12	37	3.797e-11	32	Neighborhood of CENPE	www.broad.mit.e...
Broad GNF2_FBL	View Gene Set	4.051e-12	119	5.241e-11	33	Neighborhood of FBL	www.broad.mit.e...
Broad GNF2_MKI67	View Gene Set	6.707e-12	26	8.423e-11	34	Neighborhood of MKI67	www.broad.mit.e...
Broad GNF2_RFC3	View Gene Set	7.046e-12	38	8.596e-11	35	Neighborhood of RFC3	www.broad.mit.e...
Broad MORF_FBL	View Gene Set	1.08e-11	121	1.28e-10	36	Neighborhood of FBL	www.broad.mit.e...
Broad GNF2_HAT1	View Gene Set	1.478e-11	45	1.706e-10	37	Neighborhood of HAT1	www.broad.mit.e...
Broad MORF_BUB1	View Gene Set	1.638e-11	49	1.841e-10	38	Neighborhood of BUB1	www.broad.mit.e...
Broad GNF2_CKS1B	View Gene Set	3.838e-11	36	4.202e-10	39	Neighborhood of CKS1B	www.broad.mit.e...
Broad MORF_UBE2I	View Gene Set	4.848e-11	208	5.175e-10	40	Neighborhood of UBE2I	www.broad.mit.e...
Broad MORF_RAD54L	View Gene Set	5.046e-11	94	5.255e-10	41	Neighborhood of RAD54L	www.broad.mit.e...
Broad MORF_PCNA	View Gene Set	6.46e-11	71	6.568e-10	42	Neighborhood of PCNA	www.broad.mit.e...
Broad GNF2_SMC2L1	View Gene Set	7.519e-11	30	7.467e-10	43	Neighborhood of SMC2L1	www.broad.mit.e...
Broad GNF2_KPNB1	View Gene Set	1.575e-10	52	1.529e-09	44	Neighborhood of KPNB1	www.broad.mit.e...
Broad MORF_HAT1	View Gene Set	1.727e-10	155	1.638e-09	45	Neighborhood of HAT1	www.broad.mit.e...
Broad MORF_SOD1	View Gene Set	2.554e-10	247	2.371e-09	46	Neighborhood of SOD1	www.broad.mit.e...
Broad MORF_ESPL1	View Gene Set	2.672e-10	58	2.428e-09	47	Neighborhood of ESPL1	www.broad.mit.e...
Broad GNF2_ANP32B	View Gene Set	2.925e-10	29	2.602e-09	48	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_DEK	View Gene Set	3.526e-10	229	3.073e-09	49	Neighborhood of DEK	www.broad.mit.e...
Broad MORF_ANP32B	View Gene Set	4.994e-10	174	4.265e-09	50	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_EIF3S2	View Gene Set	8.609e-10	220	7.208e-09	51	Neighborhood of EIF3S2	www.broad.mit.e...
Broad MORF_RAD21	View Gene Set	1.102e-09	157	9.048e-09	52	Neighborhood of RAD21	www.broad.mit.e...
Broad MORF_CSNK2B	View Gene Set	1.34e-09	256	1.079e-08	53	Neighborhood of CSNK2B	www.broad.mit.e...
Broad GNF2_H2AFX	View Gene Set	1.651e-09	28	1.306e-08	54	Neighborhood of H2AFX	www.broad.mit.e...
Broad GNF2_DENR	View Gene Set	1.729e-09	39	1.342e-08	55	Neighborhood of DENR	www.broad.mit.e...
Broad MORF_AATF	View Gene Set	1.783e-09	179	1.359e-08	56	Neighborhood of AATF	www.broad.mit.e...
Broad MORF_PPP1CC	View Gene Set	3.489e-09	150	2.613e-08	57	Neighborhood of PPP1CC	www.broad.mit.e...
Broad GNF2_DAP3	View Gene Set	4.443e-09	98	3.271e-08	58	Neighborhood of DAP3	www.broad.mit.e...
Broad MORF_GNB1	View Gene Set	5.694e-09	276	4.121e-08	59	Neighborhood of GNB1	www.broad.mit.e...
Broad GNF2_TDG	View Gene Set	7.93e-09	23	5.643e-08	60	Neighborhood of TDG	www.broad.mit.e...
Broad MORF_DDB1	View Gene Set	8.857e-09	220	6.2e-08	61	Neighborhood of DDB1	www.broad.mit.e...
Broad GNF2_RBBP6	View Gene Set	1.018e-08	54	7.011e-08	62	Neighborhood of RBBP6	www.broad.mit.e...
Broad GNF2_MSH2	View Gene Set	1.239e-08	26	8.395e-08	63	Neighborhood of MSH2	www.broad.mit.e...
Broad GNF2_XRCC5	View Gene Set	1.405e-08	61	9.374e-08	64	Neighborhood of XRCC5	www.broad.mit.e...
Broad GNF2_BUB1	View Gene Set	1.635e-08	25	1.074e-07	65	Neighborhood of BUB1	www.broad.mit.e...
Broad MORF_MSH2	View Gene Set	1.731e-08	52	1.12e-07	66	Neighborhood of MSH2	www.broad.mit.e...
Broad MORF_PRKAG1	View Gene Set	1.791e-08	202	1.141e-07	67	Neighborhood of PRKAG1	www.broad.mit.e...
Broad MORF_XRCC5	View Gene Set	3.557e-08	210	2.234e-07	68	Neighborhood of XRCC5	www.broad.mit.e...
Broad MORF_RRM1	View Gene Set	5.139e-08	90	3.18e-07	69	Neighborhood of RRM1	www.broad.mit.e...
Broad MORF_UNG	View Gene Set	8.615e-08	65	5.255e-07	70	Neighborhood of UNG	www.broad.mit.e...
Broad MORF_PSMC1	View Gene Set	1.237e-07	162	7.44e-07	71	Neighborhood of PSMC1	www.broad.mit.e...
Broad GNF2_MLH1	View Gene Set	1.444e-07	36	8.563e-07	72	Neighborhood of MLH1	www.broad.mit.e...
Broad MORF_FEN1	View Gene Set	1.466e-07	58	8.576e-07	73	Neighborhood of FEN1	www.broad.mit.e...
Broad MORF_G22P1	View Gene Set	1.539e-07	145	8.882e-07	74	Neighborhood of G22P1	www.broad.mit.e...
Broad GNF2_RPA1	View Gene Set	1.784e-07	20	1.016e-06	75	Neighborhood of RPA1	www.broad.mit.e...
Broad MORF_SKP1A	View Gene Set	6.798e-07	175	3.82e-06	76	Neighborhood of SKP1A	www.broad.mit.e...
Broad MORF_SMC1L1	View Gene Set	9.152e-07	47	5.075e-06	77	Neighborhood of SMC1L1	www.broad.mit.e...
Broad MORF_SNRP70	View Gene Set	1.076e-06	50	5.893e-06	78	Neighborhood of SNRP70	www.broad.mit.e...
Broad GCM_APEX1	View Gene Set	1.21e-06	102	6.542e-06	79	Neighborhood of APEX1	www.broad.mit.e...
Broad GNF2_ELAC2	View Gene Set	1.297e-06	32	6.924e-06	80	Neighborhood of ELAC2	www.broad.mit.e...
Broad GNF2_G22P1	View Gene Set	1.378e-06	29	7.263e-06	81	Neighborhood of G22P1	www.broad.mit.e...
Broad MORF_UBE2N	View Gene Set	2.11e-06	79	1.099e-05	82	Neighborhood of UBE2N	www.broad.mit.e...
Broad MORF_RAN	View Gene Set	2.557e-06	242	1.3e-05	83	Neighborhood of RAN	www.broad.mit.e...
Broad GNF2_PPP6C	View Gene Set	2.554e-06	33	1.3e-05	83	Neighborhood of PPP6C	www.broad.mit.e...
Broad MORF_CDC16	View Gene Set	2.885e-06	67	1.435e-05	85	Neighborhood of CDC16	www.broad.mit.e...
Broad MORF_PHB	View Gene Set	2.89e-06	112	1.435e-05	85	Neighborhood of PHB	www.broad.mit.e...
Broad MORF_DAP3	View Gene Set	3.67e-06	175	1.801e-05	87	Neighborhood of DAP3	www.broad.mit.e...
Broad MORF_RPA2	View Gene Set	4.975e-06	170	2.414e-05	88	Neighborhood of RPA2	www.broad.mit.e...
Broad GNF2_MSH6	View Gene Set	5.234e-06	30	2.511e-05	89	Neighborhood of MSH6	www.broad.mit.e...
Broad MORF_CUL1	View Gene Set	5.713e-06	62	2.711e-05	90	Neighborhood of CUL1	www.broad.mit.e...
Broad MORF_EI24	View Gene Set	5.862e-06	136	2.75e-05	91	Neighborhood of EI24	www.broad.mit.e...
Broad MORF_RAD23B	View Gene Set	6.066e-06	159	2.815e-05	92	Neighborhood of RAD23B	www.broad.mit.e...
Broad MORF_MTA1	View Gene Set	6.874e-06	95	3.156e-05	93	Neighborhood of MTA1	www.broad.mit.e...
Broad MORF_PPP2CA	View Gene Set	7.943e-06	110	3.608e-05	94	Neighborhood of PPP2CA	www.broad.mit.e...
Broad MORF_PPP1CA	View Gene Set	8.177e-06	145	3.675e-05	95	Neighborhood of PPP1CA	www.broad.mit.e...
Broad MORF_RPA1	View Gene Set	8.362e-06	55	3.719e-05	96	Neighborhood of RPA1	www.broad.mit.e...
Broad GCM_MAX	View Gene Set	8.547e-06	28	3.762e-05	97	Neighborhood of MAX	www.broad.mit.e...
Broad GCM_DENR	View Gene Set	8.866e-06	40	3.863e-05	98	Neighborhood of DENR	www.broad.mit.e...
Broad GNF2_NPM1	View Gene Set	1.022e-05	57	4.407e-05	99	Neighborhood of NPM1	www.broad.mit.e...
Broad MORF_HDAC1	View Gene Set	1.062e-05	222	4.533e-05	100	Neighborhood of HDAC1	www.broad.mit.e...
Broad MORF_RAF1	View Gene Set	1.182e-05	94	4.996e-05	101	Neighborhood of RAF1	www.broad.mit.e...
Broad MORF_SART1	View Gene Set	1.244e-05	55	5.209e-05	102	Neighborhood of SART1	www.broad.mit.e...
Broad MORF_GSPT1	View Gene Set	1.39e-05	41	5.764e-05	103	Neighborhood of GSPT1	www.broad.mit.e...
Broad MORF_CCNF	View Gene Set	1.706e-05	65	7.006e-05	104	Neighborhood of CCNF	www.broad.mit.e...
Broad MORF_GMPS	View Gene Set	1.936e-05	48	7.871e-05	105	Neighborhood of GMPS	www.broad.mit.e...
Broad MORF_TERF1	View Gene Set	2.398e-05	57	9.662e-05	106	Neighborhood of TERF1	www.broad.mit.e...
Broad MORF_CTBP1	View Gene Set	2.531e-05	149	0.000101	107	Neighborhood of CTBP1	www.broad.mit.e...
Broad MORF_ERH	View Gene Set	2.588e-05	103	0.0001023	108	Neighborhood of ERH	www.broad.mit.e...
Broad MORF_EIF4A2	View Gene Set	3.017e-05	120	0.0001182	109	Neighborhood of EIF4A2	www.broad.mit.e...
Broad MORF_RAC1	View Gene Set	3.53e-05	196	0.000137	110	Neighborhood of RAC1	www.broad.mit.e...
Broad MORF_NPM1	View Gene Set	4.169e-05	152	0.0001604	111	Neighborhood of NPM1	www.broad.mit.e...
Broad MORF_PTPN11	View Gene Set	4.527e-05	93	0.0001726	112	Neighborhood of PTPN11	www.broad.mit.e...
Broad MORF_EIF4E	View Gene Set	5.316e-05	76	0.0002009	113	Neighborhood of EIF4E	www.broad.mit.e...
Broad MORF_PSMC2	View Gene Set	5.942e-05	100	0.0002215	114	Neighborhood of PSMC2	www.broad.mit.e...
Broad GCM_MYST2	View Gene Set	5.965e-05	138	0.0002215	114	Neighborhood of MYST2	www.broad.mit.e...
Broad GNF2_BNIP2	View Gene Set	6.492e-05	31	0.000239	116	Neighborhood of BNIP2	www.broad.mit.e...
Broad GNF2_NS	View Gene Set	7.511e-05	35	0.0002741	117	Neighborhood of NS	www.broad.mit.e...
Broad MORF_SP3	View Gene Set	8.29e-05	69	0.0003	118	Neighborhood of SP3	www.broad.mit.e...
Broad MORF_EIF3S6	View Gene Set	8.54e-05	108	0.0003064	119	Neighborhood of EIF3S6	www.broad.mit.e...
Broad GCM_CBFB	View Gene Set	9.588e-05	59	0.0003412	120	Neighborhood of CBFB	www.broad.mit.e...
Broad MORF_CCNI	View Gene Set	0.0001173	76	0.0004138	121	Neighborhood of CCNI	www.broad.mit.e...
Broad MORF_DEAF1	View Gene Set	0.0001292	54	0.0004522	122	Neighborhood of DEAF1	www.broad.mit.e...
Broad GNF2_BUB3	View Gene Set	0.0001445	22	0.0005015	123	Neighborhood of BUB3	www.broad.mit.e...
Broad MORF_CDC10	View Gene Set	0.0001717	120	0.0005911	124	Neighborhood of CDC10	www.broad.mit.e...
Broad GNF2_EIF3S6	View Gene Set	0.0001773	109	0.0006057	125	Neighborhood of EIF3S6	www.broad.mit.e...
Broad MORF_SS18	View Gene Set	0.0001999	55	0.0006776	126	Neighborhood of SS18	www.broad.mit.e...
Broad GCM_MLL	View Gene Set	0.0002797	130	0.0009404	127	Neighborhood of MLL	www.broad.mit.e...
Broad MORF_TERF2IP	View Gene Set	0.0002907	99	0.0009697	128	Neighborhood of TERF2IP	www.broad.mit.e...
Broad MORF_REV3L	View Gene Set	0.0002995	52	0.0009915	129	Neighborhood of REV3L	www.broad.mit.e...
Broad GCM_DFFA	View Gene Set	0.0003509	100	0.001153	130	Neighborhood of DFFA	www.broad.mit.e...
Broad GCM_HBP1	View Gene Set	0.0003796	54	0.001237	131	Neighborhood of HBP1	www.broad.mit.e...
Broad MORF_BAG5	View Gene Set	0.0004179	48	0.001352	132	Neighborhood of BAG5	www.broad.mit.e...
Broad GCM_SMARCC1	View Gene Set	0.0004438	33	0.001425	133	Neighborhood of SMARCC1	www.broad.mit.e...
Broad GCM_ANP32B	View Gene Set	0.000548	32	0.001746	134	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_CDK2	View Gene Set	0.0006952	63	0.002199	135	Neighborhood of CDK2	www.broad.mit.e...
Broad MORF_FANCG	View Gene Set	0.0007423	148	0.002331	136	Neighborhood of FANCG	www.broad.mit.e...
Broad GCM_NPM1	View Gene Set	0.0008533	108	0.00266	137	Neighborhood of NPM1	www.broad.mit.e...
Broad MORF_ACTG1	View Gene Set	0.000875	134	0.002707	138	Neighborhood of ACTG1	www.broad.mit.e...
Broad GNF2_ST13	View Gene Set	0.0008969	56	0.002755	139	Neighborhood of ST13	www.broad.mit.e...
Broad MORF_PPP6C	View Gene Set	0.0009341	88	0.002849	140	Neighborhood of PPP6C	www.broad.mit.e...
Broad GCM_ACTG1	View Gene Set	0.000957	113	0.002898	141	Neighborhood of ACTG1	www.broad.mit.e...
Broad GNF2_UBE2I	View Gene Set	0.001002	33	0.003012	142	Neighborhood of UBE2I	www.broad.mit.e...
Broad GCM_PSME1	View Gene Set	0.001052	76	0.003141	143	Neighborhood of PSME1	www.broad.mit.e...
Broad GCM_NF2	View Gene Set	0.001069	235	0.00317	144	Neighborhood of NF2	www.broad.mit.e...
Broad GCM_HDAC1	View Gene Set	0.001106	30	0.003235	145	Neighborhood of HDAC1	www.broad.mit.e...
Broad GCM_NUMA1	View Gene Set	0.001104	45	0.003235	145	Neighborhood of NUMA1	www.broad.mit.e...
Broad GCM_BECN1	View Gene Set	0.001115	59	0.003239	147	Neighborhood of BECN1	www.broad.mit.e...
Broad GCM_DDX5	View Gene Set	0.001161	52	0.00335	148	Neighborhood of DDX5	www.broad.mit.e...
Broad GNF2_CBFB	View Gene Set	0.001243	26	0.003561	149	Neighborhood of CBFB	www.broad.mit.e...
Broad GCM_DPF2	View Gene Set	0.001401	32	0.003989	150	Neighborhood of DPF2	www.broad.mit.e...
Broad MORF_RFC1	View Gene Set	0.001449	98	0.004096	151	Neighborhood of RFC1	www.broad.mit.e...
Broad GNF2_DDX5	View Gene Set	0.001591	54	0.004468	152	Neighborhood of DDX5	www.broad.mit.e...
Broad MORF_PPP5C	View Gene Set	0.001629	81	0.004547	153	Neighborhood of PPP5C	www.broad.mit.e...
Broad GCM_CSNK1A1	View Gene Set	0.001816	28	0.005036	154	Neighborhood of CSNK1A1	www.broad.mit.e...
Broad MORF_PRKAR1A	View Gene Set	0.001975	133	0.005406	155	Neighborhood of PRKAR1A	www.broad.mit.e...
Broad GNF2_SMC1L1	View Gene Set	0.001969	24	0.005406	155	Neighborhood of SMC1L1	www.broad.mit.e...
Broad MORF_TPR	View Gene Set	0.002009	131	0.005465	157	Neighborhood of TPR	www.broad.mit.e...
Broad MORF_NME2	View Gene Set	0.002503	145	0.006764	158	Neighborhood of NME2	www.broad.mit.e...
Broad MORF_USP5	View Gene Set	0.002836	46	0.007617	159	Neighborhood of USP5	www.broad.mit.e...
Broad GCM_UBE2N	View Gene Set	0.002905	125	0.007752	160	Neighborhood of UBE2N	www.broad.mit.e...
Broad GCM_PPP1CC	View Gene Set	0.003066	47	0.008131	161	Neighborhood of PPP1CC	www.broad.mit.e...
Broad GCM_AIP	View Gene Set	0.003102	36	0.008176	162	Neighborhood of AIP	www.broad.mit.e...
Broad MORF_PRDX3	View Gene Set	0.003361	79	0.008804	163	Neighborhood of PRDX3	www.broad.mit.e...
Broad GNF2_TYK2	View Gene Set	0.003576	31	0.009311	164	Neighborhood of TYK2	www.broad.mit.e...
Broad GCM_GSPT1	View Gene Set	0.003963	129	0.01026	165	Neighborhood of GSPT1	www.broad.mit.e...
Broad GCM_RAF1	View Gene Set	0.00403	34	0.01037	166	Neighborhood of RAF1	www.broad.mit.e...
Broad GCM_CHUK	View Gene Set	0.004162	61	0.01064	167	Neighborhood of CHUK	www.broad.mit.e...
Broad MORF_MBD4	View Gene Set	0.004368	76	0.0111	168	Neighborhood of MBD4	www.broad.mit.e...
Broad GCM_CSNK2B	View Gene Set	0.004901	88	0.01238	169	Neighborhood of CSNK2B	www.broad.mit.e...
Broad MORF_ORC1L	View Gene Set	0.006692	61	0.01681	170	Neighborhood of ORC1L	www.broad.mit.e...
Broad MORF_MAP2K2	View Gene Set	0.006868	123	0.01715	171	Neighborhood of MAP2K2	www.broad.mit.e...
Broad GCM_PRKAG1	View Gene Set	0.007374	49	0.01831	172	Neighborhood of PRKAG1	www.broad.mit.e...
Broad MORF_ATOX1	View Gene Set	0.007573	72	0.01869	173	Neighborhood of ATOX1	www.broad.mit.e...
Broad GCM_VAV1	View Gene Set	0.008275	46	0.02031	174	Neighborhood of VAV1	www.broad.mit.e...
Broad MORF_AP3D1	View Gene Set	0.008355	119	0.02039	175	Neighborhood of AP3D1	www.broad.mit.e...
Broad MORF_HEAB	View Gene Set	0.00991	71	0.02404	176	Neighborhood of HEAB	www.broad.mit.e...
Broad MORF_AP2M1	View Gene Set	0.01034	197	0.02495	177	Neighborhood of AP2M1	www.broad.mit.e...
Broad GCM_PPM1D	View Gene Set	0.01355	22	0.03251	178	Neighborhood of PPM1D	www.broad.mit.e...
Broad GCM_RBM8A	View Gene Set	0.01429	64	0.03409	179	Neighborhood of RBM8A	www.broad.mit.e...
Broad MORF_BMI1	View Gene Set	0.01469	71	0.03469	180	Neighborhood of BMI1	www.broad.mit.e...
Broad GCM_PFN1	View Gene Set	0.0147	47	0.03469	180	Neighborhood of PFN1	www.broad.mit.e...
Broad MORF_TPT1	View Gene Set	0.01576	100	0.03698	182	Neighborhood of TPT1	www.broad.mit.e...
Broad MORF_PPP2R5E	View Gene Set	0.01703	76	0.03973	183	Neighborhood of PPP2R5E	www.broad.mit.e...
Broad GCM_RAD21	View Gene Set	0.01846	30	0.04283	184	Neighborhood of RAD21	www.broad.mit.e...
Broad MORF_JUND	View Gene Set	0.01878	63	0.04326	185	Neighborhood of JUND	www.broad.mit.e...
Broad MORF_RAB11A	View Gene Set	0.01884	53	0.04326	185	Neighborhood of RAB11A	www.broad.mit.e...
Broad GCM_RING1	View Gene Set	0.02004	106	0.04576	187	Neighborhood of RING1	www.broad.mit.e...
Broad GCM_TPT1	View Gene Set	0.02147	69	0.04876	188	Neighborhood of TPT1	www.broad.mit.e...

Gene Set Collection: Broad.c4.CM

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c5.BP

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad module_252	View Gene Set	4.258e-14	224	1.933e-11	1	Genes in module_252	www.broad.mit.e...
Broad module_198	View Gene Set	9.883e-14	288	2.243e-11	2	Genes in module_198	www.broad.mit.e...
Broad module_98	View Gene Set	5.764e-13	375	8.722e-11	3	Genes in module_98	www.broad.mit.e...
Broad module_54	View Gene Set	3.259e-12	242	3.699e-10	4	Genes in module_54	www.broad.mit.e...
Broad module_183	View Gene Set	1.596e-11	52	1.449e-09	5	Genes in module_183	www.broad.mit.e...
Broad module_17	View Gene Set	1.246e-07	351	9.426e-06	6	Genes in module_17	www.broad.mit.e...
Broad module_403	View Gene Set	2.699e-07	44	1.751e-05	7	Genes in module_403	www.broad.mit.e...
Broad module_8	View Gene Set	8.23e-07	403	4.67e-05	8	Genes in module_8	www.broad.mit.e...
Broad module_57	View Gene Set	4.634e-06	54	0.0002338	9	Genes in module_57	www.broad.mit.e...
Broad module_91	View Gene Set	5.472e-06	37	0.0002456	10	Genes in module_91	www.broad.mit.e...
Broad module_158	View Gene Set	5.952e-06	41	0.0002456	10	Genes in module_158	www.broad.mit.e...
Broad module_125	View Gene Set	1.25e-05	42	0.000473	12	Genes in module_125	www.broad.mit.e...
Broad module_28	View Gene Set	2.021e-05	32	0.0007058	13	Genes in module_28	www.broad.mit.e...
Broad module_32	View Gene Set	2.436e-05	227	0.00079	14	Genes in module_32	www.broad.mit.e...
Broad module_197	View Gene Set	6.319e-05	170	0.001913	15	Genes in module_197	www.broad.mit.e...
Broad module_124	View Gene Set	9.605e-05	92	0.002725	16	Genes in module_124	www.broad.mit.e...
Broad module_337	View Gene Set	0.0001243	59	0.003319	17	Genes in module_337	www.broad.mit.e...
Broad module_18	View Gene Set	0.0001325	434	0.003341	18	Genes in module_18	www.broad.mit.e...
Broad module_451	View Gene Set	0.0001998	29	0.004774	19	Genes in module_451	www.broad.mit.e...
Broad module_126	View Gene Set	0.0002185	173	0.004959	20	Genes in module_126	www.broad.mit.e...
Broad module_352	View Gene Set	0.0002326	17	0.005029	21	Genes in module_352	www.broad.mit.e...
Broad module_320	View Gene Set	0.000625	19	0.0129	22	Genes in module_320	www.broad.mit.e...
Broad module_219	View Gene Set	0.0006537	26	0.0129	23	Genes in module_219	www.broad.mit.e...
Broad module_278	View Gene Set	0.000761	34	0.01382	24	Genes in module_278	www.broad.mit.e...
Broad module_397	View Gene Set	0.0007447	114	0.01382	24	Genes in module_397	www.broad.mit.e...
Broad module_315	View Gene Set	0.0009091	15	0.01587	26	Genes in module_315	www.broad.mit.e...
Broad module_3	View Gene Set	0.0013	374	0.02107	27	Genes in module_3	www.broad.mit.e...
Broad module_102	View Gene Set	0.001261	18	0.02107	27	Genes in module_102	www.broad.mit.e...
Broad module_42	View Gene Set	0.002706	25	0.03963	29	Genes in module_42	www.broad.mit.e...
Broad module_244	View Gene Set	0.002534	182	0.03963	29	Genes in module_244	www.broad.mit.e...
Broad module_388	View Gene Set	0.002638	17	0.03963	29	Genes in module_388	www.broad.mit.e...
Broad module_25	View Gene Set	0.003181	13	0.04513	32	Genes in module_25	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS	View Gene Set	7.142e-21	1197	5.892e-18	1	Genes annotated by the GO term GO:0006139. The chemical reactions and pathways involving nucleobases nucleosides nucleotides and nucleic acids.	www.broad.mit.e...
Broad RNA_METABOLIC_PROCESS	View Gene Set	1.527e-16	801	6.298e-14	2	Genes annotated by the GO term GO:0016070. The chemical reactions and pathways involving RNA ribonucleic acid one of the two main type of nucleic acid consisting of a long unbranched macromolecule formed from ribonucleotides joined in 3' 5'-phosphodiester linkage.	www.broad.mit.e...
Broad BIOPOLYMER_METABOLIC_PROCESS	View Gene Set	6.142e-13	1623	1.689e-10	3	Genes annotated by the GO term GO:0043283. The chemical reactions and pathways involving biopolymers long repeating chains of monomers found in nature e.g. polysaccharides and proteins.	www.broad.mit.e...
Broad RNA_PROCESSING	View Gene Set	1.533e-12	147	3.161e-10	4	Genes annotated by the GO term GO:0006396. Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.	www.broad.mit.e...
Broad MITOTIC_CELL_CYCLE	View Gene Set	3.59e-12	148	5.445e-10	5	Genes annotated by the GO term GO:0000278. Progression through the phases of the mitotic cell cycle the most common eukaryotic cell cycle which canonically comprises four successive phases called G1 S G2 and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division or G1 and G2 phases may be absent.	www.broad.mit.e...
Broad M_PHASE_OF_MITOTIC_CELL_CYCLE	View Gene Set	3.96e-12	83	5.445e-10	5	Genes annotated by the GO term GO:0000087. Progression through M phase the part of the mitotic cell cycle during which mitosis takes place.	www.broad.mit.e...
Broad M_PHASE	View Gene Set	9.301e-12	111	1.096e-09	7	Genes annotated by the GO term GO:0000279. Progression through M phase the part of the cell cycle comprising nuclear division.	www.broad.mit.e...
Broad CELL_CYCLE_PROCESS	View Gene Set	1.33e-11	187	1.372e-09	8	Genes annotated by the GO term GO:0022402. A cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events.	www.broad.mit.e...
Broad MITOSIS	View Gene Set	1.692e-11	81	1.551e-09	9	Genes annotated by the GO term GO:0007067. Progression through mitosis the division of the eukaryotic cell nucleus to produce two daughter nuclei that usually contain the identical chromosome complement to their mother.	www.broad.mit.e...
Broad CELL_CYCLE_PHASE	View Gene Set	4.751e-10	167	3.697e-08	10	Genes annotated by the GO term GO:0022403. A cell cycle process comprising the steps by which a cell progresses through one of the biochemical and morphological phases and events that occur during successive cell replication or nuclear replication events.	www.broad.mit.e...
Broad RNA_SPLICING	View Gene Set	4.929e-10	73	3.697e-08	10	Genes annotated by the GO term GO:0008380. The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.	www.broad.mit.e...
Broad DNA_METABOLIC_PROCESS	View Gene Set	1.043e-08	253	7.171e-07	12	Genes annotated by the GO term GO:0006259. The chemical reactions and pathways involving DNA deoxyribonucleic acid one of the two main types of nucleic acid consisting of a long unbranched macromolecule formed from one or more commonly two strands of linked deoxyribonucleotides.	www.broad.mit.e...
Broad TRANSCRIPTION	View Gene Set	2.565e-08	738	1.606e-06	13	Genes annotated by the GO term GO:0006350. The synthesis of either RNA on a template of DNA or DNA on a template of RNA.	www.broad.mit.e...
Broad CHROMOSOME_ORGANIZATION_AND_BIOGENESIS	View Gene Set	2.726e-08	117	1.606e-06	13	Genes annotated by the GO term GO:0051276. A process that is carried out at the cellular level that results in the formation arrangement of constituent parts or disassembly of chromosomes structures composed of a very long molecule of DNA and associated proteins that carries hereditary information.	www.broad.mit.e...
Broad CELL_CYCLE_GO_0007049	View Gene Set	6.796e-08	304	3.738e-06	15	Genes annotated by the GO term GO:0007049. The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.	www.broad.mit.e...
Broad REGULATION_OF_GENE_EXPRESSION	View Gene Set	7.422e-08	660	3.827e-06	16	Genes annotated by the GO term GO:0010468. Any process that modulates the frequency rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.	www.broad.mit.e...
Broad TRANSCRIPTION_DNA_DEPENDENT	View Gene Set	9.047e-08	623	4.146e-06	17	Genes annotated by the GO term GO:0006351. The synthesis of RNA on a template of DNA.	www.broad.mit.e...
Broad RNA_BIOSYNTHETIC_PROCESS	View Gene Set	8.655e-08	625	4.146e-06	17	Genes annotated by the GO term GO:0032774. The chemical reactions and pathways resulting in the formation of RNA ribonucleic acid one of the two main type of nucleic acid consisting of a long unbranched macromolecule formed from ribonucleotides joined in 3' 5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers.	www.broad.mit.e...
Broad REGULATION_OF_NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS	View Gene Set	2.552e-07	601	1.108e-05	19	Genes annotated by the GO term GO:0019219. Any process that modulates the frequency rate or extent of the chemical reactions and pathways involving nucleobases nucleosides nucleotides and nucleic acids.	www.broad.mit.e...
Broad REGULATION_OF_TRANSCRIPTION	View Gene Set	8.496e-07	555	3.504e-05	20	Genes annotated by the GO term GO:0045449. Any process that modulates the frequency rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.	www.broad.mit.e...
Broad REGULATION_OF_TRANSCRIPTIONDNA_DEPENDENT	View Gene Set	3.442e-06	452	0.0001352	21	Genes annotated by the GO term GO:0006355. Any process that modulates the frequency rate or extent of DNA-dependent transcription.	www.broad.mit.e...
Broad REGULATION_OF_RNA_METABOLIC_PROCESS	View Gene Set	4.502e-06	457	0.0001688	22	Genes annotated by the GO term GO:0051252. Any process that modulates the frequency rate or extent of the chemical reactions and pathways involving RNA.	www.broad.mit.e...
Broad REGULATION_OF_CELLULAR_METABOLIC_PROCESS	View Gene Set	6.146e-06	767	0.0002205	23	Genes annotated by the GO term GO:0031323. Any process that modulates the frequency rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.	www.broad.mit.e...
Broad REGULATION_OF_METABOLIC_PROCESS	View Gene Set	9.88e-06	779	0.0003396	24	Genes annotated by the GO term GO:0019222. Any process that modulates the frequency rate or extent of the chemical reactions and pathways within a cell or an organism.	www.broad.mit.e...
Broad MITOTIC_SPINDLE_ORGANIZATION_AND_BIOGENESIS	View Gene Set	1.448e-05	9	0.0004777	25	Genes annotated by the GO term GO:0007052. A process that is carried out at the cellular level which results in the formation arrangement of constituent parts or disassembly of the microtubule spindle during a mitotic cell cycle.	www.broad.mit.e...
Broad TRANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER	View Gene Set	1.784e-05	449	0.0005662	26	Genes annotated by the GO term GO:0006366. The synthesis of RNA from a DNA template by RNA polymerase II (Pol II) originating at a Pol II-specific promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs).	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_TRANSCRIPTION_DNA_DEPENDENT	View Gene Set	2.408e-05	127	0.000685	27	Genes annotated by the GO term GO:0045892. Any process that stops prevents or reduces the frequency rate or extent of DNA-dependent transcription.	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_RNA_METABOLIC_PROCESS	View Gene Set	2.408e-05	127	0.000685	27	Genes annotated by the GO term GO:0051253. Any process that stops prevents or reduces the frequency rate or extent of the chemical reactions and pathways involving RNA.	www.broad.mit.e...
Broad SPINDLE_ORGANIZATION_AND_BIOGENESIS	View Gene Set	2.304e-05	10	0.000685	27	Genes annotated by the GO term GO:0007051. A process that is carried out at the cellular level which results in the formation arrangement of constituent parts or disassembly of the spindle the array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during DNA segregation and serves to move the duplicated chromosomes apart.	www.broad.mit.e...
Broad MITOTIC_SISTER_CHROMATID_SEGREGATION	View Gene Set	3.068e-05	16	0.0008438	30	Genes annotated by the GO term GO:0000070. The cell cycle process whereby replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome composed of two sister chromatids aligns at the cell equator paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets.	www.broad.mit.e...
Broad SISTER_CHROMATID_SEGREGATION	View Gene Set	3.352e-05	17	0.000892	31	Genes annotated by the GO term GO:0000819. The process by which sister chromatids are organized and then physically separated and apportioned to two or more sets.	www.broad.mit.e...
Broad DNA_REPAIR	View Gene Set	3.879e-05	123	0.0009999	32	Genes annotated by the GO term GO:0006281. The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations chemical mutagens fungal and bacterial toxins etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal base excision repair nucleotide excision repair photoreactivation bypass double-strand break repair pathway and mismatch repair pathway.	www.broad.mit.e...
Broad ESTABLISHMENT_AND_OR_MAINTENANCE_OF_CHROMATIN_ARCHITECTURE	View Gene Set	4.336e-05	72	0.001084	33	Genes annotated by the GO term GO:0006325. The specification formation and maintenance of the physical structure of eukaryotic chromatin.	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS	View Gene Set	4.805e-05	205	0.001133	34	Genes annotated by the GO term GO:0045934. Any process that stops prevents or reduces the frequency rate or extent of the chemical reactions and pathways involving nucleobases nucleosides nucleotides and nucleic acids.	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_TRANSCRIPTION	View Gene Set	4.709e-05	185	0.001133	34	Genes annotated by the GO term GO:0016481. Any process that stops prevents or reduces the frequency rate or extent of transcription.	www.broad.mit.e...
Broad RESPONSE_TO_DNA_DAMAGE_STIMULUS	View Gene Set	5.774e-05	159	0.001323	36	Genes annotated by the GO term GO:0006974. A change in state or activity of a cell or an organism (in terms of movement secretion enzyme production gene expression etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_TRANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER	View Gene Set	5.946e-05	83	0.001326	37	Genes annotated by the GO term GO:0000122. Any process that stops prevents or reduces the frequency rate or extent of transcription from an RNA polymerase II promoter.	www.broad.mit.e...
Broad REGULATION_OF_TRANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER	View Gene Set	8.295e-05	285	0.001801	38	Genes annotated by the GO term GO:0006357. Any process that modulates the frequency rate or extent of transcription from an RNA polymerase II promoter.	www.broad.mit.e...
Broad TRANSLATION	View Gene Set	0.0001348	177	0.002852	39	Genes annotated by the GO term GO:0006412. The chemical reactions and pathways resulting in the formation of a protein. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein.	www.broad.mit.e...
Broad CHROMOSOME_SEGREGATION	View Gene Set	0.0001494	31	0.003081	40	Genes annotated by the GO term GO:0007059. The process by which genetic material in the form of chromosomes is organized and then physically separated and apportioned to two or more sets.	www.broad.mit.e...
Broad REGULATION_OF_VIRAL_REPRODUCTION	View Gene Set	0.0002052	12	0.004128	41	Genes annotated by the GO term GO:0050792. Any process that modulates the rate or extent of the viral life cycle the set of processes by which a virus reproduces and spreads among hosts.	www.broad.mit.e...
Broad REGULATION_OF_MITOSIS	View Gene Set	0.0002215	40	0.004351	42	Genes annotated by the GO term GO:0007088. Any process that modulates the frequency rate or extent of mitosis.	www.broad.mit.e...
Broad MRNA_PROCESSING_GO_0006397	View Gene Set	0.0002335	59	0.004481	43	Genes annotated by the GO term GO:0006397. Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.	www.broad.mit.e...
Broad RIBONUCLEOPROTEIN_COMPLEX_BIOGENESIS_AND_ASSEMBLY	View Gene Set	0.0003117	74	0.005845	44	Genes annotated by the GO term GO:0022613. The cellular process by which a complex containing RNA and proteins is synthesized aggregates and bonds together.	www.broad.mit.e...
Broad ANDROGEN_RECEPTOR_SIGNALING_PATHWAY	View Gene Set	0.0003371	12	0.006179	45	Genes annotated by the GO term GO:0030521. Any series of molecular signals generated as a consequence of an androgen binding to its receptor.	www.broad.mit.e...
Broad PROTEIN_RNA_COMPLEX_ASSEMBLY	View Gene Set	0.0003563	59	0.00639	46	Genes annotated by the GO term GO:0022618. The aggregation arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex.	www.broad.mit.e...
Broad PROTEIN_DNA_COMPLEX_ASSEMBLY	View Gene Set	0.00041	48	0.007197	47	Genes annotated by the GO term GO:0065004. The aggregation arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex.	www.broad.mit.e...
Broad TRANSCRIPTION_INITIATION	View Gene Set	0.0004716	35	0.008106	48	Genes annotated by the GO term GO:0006352. Processes involved in the assembly of the RNA polymerase complex at the promoter region of a DNA template resulting in the subsequent synthesis of RNA from that promoter.	www.broad.mit.e...
Broad TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER	View Gene Set	0.0005102	29	0.008591	49	Genes annotated by the GO term GO:0006367. Processes involved in starting transcription from the RNA polymerase II promoter.	www.broad.mit.e...
Broad CHROMATIN_REMODELING	View Gene Set	0.0005587	23	0.009218	50	Genes annotated by the GO term GO:0006338. Dynamic structural changes to eukaryotic chromatin occurring throughout the cell division cycle. These changes range from the local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation.	www.broad.mit.e...
Broad MRNA_SPLICE_SITE_SELECTION	View Gene Set	0.0007688	6	0.01244	51	Genes annotated by the GO term GO:0006376. Selection of a splice site by components of the assembling spliceosome.	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_CELLULAR_METABOLIC_PROCESS	View Gene Set	0.0009852	252	0.01478	52	Genes annotated by the GO term GO:0031324. Any process that stops prevents or reduces the frequency rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.	www.broad.mit.e...
Broad STEROID_HORMONE_RECEPTOR_SIGNALING_PATHWAY	View Gene Set	0.0009819	20	0.01478	52	Genes annotated by the GO term GO:0030518. Any series of molecular signals generated as a consequence of a steroid hormone binding to its receptor.	www.broad.mit.e...
Broad DNA_REPLICATION	View Gene Set	0.000968	101	0.01478	52	Genes annotated by the GO term GO:0006260. The process whereby new strands of DNA are synthesized. The template for replication can either be an existing DNA molecule or RNA.	www.broad.mit.e...
Broad INTRACELLULAR_RECEPTOR_MEDIATED_SIGNALING_PATHWAY	View Gene Set	0.0009819	21	0.01478	52	Genes annotated by the GO term GO:0030522. Any series of molecular signals initiated by a ligand entering the target cell where it binds to an intracellular receptor.	www.broad.mit.e...
Broad RESPONSE_TO_ENDOGENOUS_STIMULUS	View Gene Set	0.001094	197	0.01556	56	Genes annotated by the GO term GO:0009719. A change in state or activity of a cell or an organism (in terms of movement secretion enzyme production gene expression etc.) as a result of an endogenous stimulus.	www.broad.mit.e...
Broad NEGATIVE_REGULATION_OF_METABOLIC_PROCESS	View Gene Set	0.001091	255	0.01556	56	Genes annotated by the GO term GO:0009892. Any process that stops prevents or reduces the frequency rate or extent of the chemical reactions and pathways within a cell or an organism.	www.broad.mit.e...
Broad CHROMATIN_MODIFICATION	View Gene Set	0.00106	50	0.01556	56	Genes annotated by the GO term GO:0016568. The alteration of DNA or protein in chromatin which may result in changing the chromatin structure.	www.broad.mit.e...
Broad REGULATION_OF_GENE_EXPRESSION_EPIGENETIC	View Gene Set	0.001176	30	0.01644	59	Genes annotated by the GO term GO:0040029. Any process that modulates the frequency rate or extent of gene expression; the process is mitotically or meiotically heritable or is stably self-propagated in the cytoplasm of a resting cell and does not entail a change in DNA sequence.	www.broad.mit.e...
Broad DNA_RECOMBINATION	View Gene Set	0.001241	47	0.01707	60	Genes annotated by the GO term GO:0006310. The processes by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment intrachromosomal recombination or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation conjugation transduction or F-duction.	www.broad.mit.e...
Broad TRNA_METABOLIC_PROCESS	View Gene Set	0.001279	18	0.01729	61	Genes annotated by the GO term GO:0006399. The chemical reactions and pathways involving tRNA transfer RNA a class of relatively small RNA molecules responsible for mediating the insertion of amino acids into the sequence of nascent polypeptide chains during protein synthesis. Transfer RNA is characterized by the presence of many unusual minor bases the function of which has not been completely established.	www.broad.mit.e...
Broad MRNA_METABOLIC_PROCESS	View Gene Set	0.001325	70	0.01764	62	Genes annotated by the GO term GO:0016071. The chemical reactions and pathways involving mRNA messenger RNA which is responsible for carrying the coded genetic 'message' transcribed from DNA to sites of protein assembly at the ribosomes.	www.broad.mit.e...
Broad DOUBLE_STRAND_BREAK_REPAIR	View Gene Set	0.001566	22	0.02051	63	Genes annotated by the GO term GO:0006302. The repair of double-strand breaks in DNA via homologous and nonhomologous mechanisms to reform a continuous DNA helix.	www.broad.mit.e...
Broad MICROTUBULE_CYTOSKELETON_ORGANIZATION_AND_BIOGENESIS	View Gene Set	0.002439	34	0.03144	64	Genes annotated by the GO term GO:0000226. A process that is carried out at the cellular level which results in the formation arrangement of constituent parts or disassembly of cytoskeletal structures comprising microtubules and their associated proteins.	www.broad.mit.e...
Broad RNA_SPLICINGVIA_TRANSESTERIFICATION_REACTIONS	View Gene Set	0.003292	27	0.04179	65	Genes annotated by the GO term GO:0000375. Splicing of RNA via a series of two transesterification reactions.	www.broad.mit.e...

Gene Set Collection: Broad.c5.CC

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad NUCLEUS	View Gene Set	5.138e-25	1353	1.197e-22	1	Genes annotated by the GO term GO:0005634. A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells the nucleus contains all of the cell's chromosomes except the organellar chromosomes and is the site of RNA synthesis and processing. In some species or in specialized cell types RNA metabolism or DNA replication may be absent.	www.broad.mit.e...
Broad NUCLEAR_PART	View Gene Set	2.891e-19	543	3.368e-17	2	Genes annotated by the GO term GO:0044428. Any constituent part of the nucleus a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated.	www.broad.mit.e...
Broad RIBONUCLEOPROTEIN_COMPLEX	View Gene Set	7.211e-13	129	5.601e-11	3	Genes annotated by the GO term GO:0030529. A macromolecular complex containing both protein and RNA molecules.	www.broad.mit.e...
Broad INTRACELLULAR_ORGANELLE_PART	View Gene Set	4.259e-11	1144	2.481e-09	4	Genes annotated by the GO term GO:0044446. A constituent part of an intracellular organelle an organized structure of distinctive morphology and function occurring within the cell. Includes constituent parts of the nucleus mitochondria plastids vacuoles vesicles ribosomes and the cytoskeleton but excludes the plasma membrane.	www.broad.mit.e...
Broad CHROMOSOMAL_PART	View Gene Set	6.532e-11	95	3.044e-09	5	Genes annotated by the GO term GO:0044427. Any constituent part of a chromosome a structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.	www.broad.mit.e...
Broad ORGANELLE_PART	View Gene Set	9.513e-11	1149	3.318e-09	6	Genes annotated by the GO term GO:0044422. Any constituent part of an organelle an organized structure of distinctive morphology and function. Includes constituent parts of the nucleus mitochondria plastids vacuoles vesicles ribosomes and the cytoskeleton but excludes the plasma membrane.	www.broad.mit.e...
Broad CHROMOSOME	View Gene Set	9.968e-11	122	3.318e-09	6	Genes annotated by the GO term GO:0005694. A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.	www.broad.mit.e...
Broad ORGANELLE_LUMEN	View Gene Set	8.266e-10	434	2.14e-08	8	Genes annotated by the GO term GO:0043233. The volume enclosed by the membranes of a particular organelle e.g. endoplasmic reticulum lumen or the space between the two lipid bilayers of a double membrane surrounding an organelle e.g. nuclear membrane lumen.	www.broad.mit.e...
Broad MEMBRANE_ENCLOSED_LUMEN	View Gene Set	8.266e-10	434	2.14e-08	8	Genes annotated by the GO term GO:0031974. The enclosed volume within a sealed membrane or between two sealed membranes.	www.broad.mit.e...
Broad MACROMOLECULAR_COMPLEX	View Gene Set	1.68e-09	914	3.915e-08	10	Genes annotated by the GO term GO:0032991. A stable assembly of two or more macromolecules i.e. proteins nucleic acids carbohydrates or lipids in which the constituent parts function together.	www.broad.mit.e...
Broad CHROMOSOMEPERICENTRIC_REGION	View Gene Set	9.902e-09	31	2.097e-07	11	Genes annotated by the GO term GO:0000775. The central region of a chromosome that includes the centromere and associated proteins. In monocentric chromosomes this region corresponds to a single area of the chromosome whereas in holocentric chromosomes it is evenly distributed along the chromosome.	www.broad.mit.e...
Broad NUCLEAR_LUMEN	View Gene Set	1.43e-08	365	2.777e-07	12	Genes annotated by the GO term GO:0031981. The volume enclosed by the nuclear inner membrane.	www.broad.mit.e...
Broad SPLICEOSOME	View Gene Set	1.943e-07	44	3.482e-06	13	Genes annotated by the GO term GO:0005681. A ribonucleoprotein complex containing RNA and small nuclear ribonucleoproteins (snRNPs) that is assembled during the splicing of messenger RNA primary transcript to excise an intron.	www.broad.mit.e...
Broad KINETOCHORE	View Gene Set	1.085e-06	25	1.806e-05	14	Genes annotated by the GO term GO:0000776. A multisubunit complex that is located at the pericentric region of DNA and provides an attachment point for the spindle microtubules.	www.broad.mit.e...
Broad NUCLEOPLASM	View Gene Set	3.037e-06	266	4.718e-05	15	Genes annotated by the GO term GO:0005654. That part of the nuclear content other than the chromosomes or the nucleolus.	www.broad.mit.e...
Broad SPINDLE_MICROTUBULE	View Gene Set	4.28e-06	15	6.232e-05	16	Genes annotated by the GO term GO:0005876. Any microtubule that is part of a mitotic or meiotic spindle; anchored at one spindle pole.	www.broad.mit.e...
Broad CHROMATIN	View Gene Set	2.278e-05	35	0.0003014	17	Genes annotated by the GO term GO:0000785. The ordered and organized complex of DNA and protein that forms the chromosome.	www.broad.mit.e...
Broad NUCLEOLUS	View Gene Set	2.328e-05	116	0.0003014	17	Genes annotated by the GO term GO:0005730. A small dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein is not bounded by a limiting membrane and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA the processing of this RNA into 5.8S 18S and 28S components of ribosomal RNA and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.	www.broad.mit.e...
Broad SPINDLE	View Gene Set	3.672e-05	37	0.0004503	19	Genes annotated by the GO term GO:0005819. The array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart.	www.broad.mit.e...
Broad PROTEASOME_COMPLEX	View Gene Set	4.688e-05	23	0.0005462	20	Genes annotated by the GO term GO:0000502. A large multisubunit complex which catalyzes protein degradation. This complex consists of the barrel shaped proteasome core complex and one or two associated proteins or complexes that act in regulating entry into or exit from the core.	www.broad.mit.e...
Broad SMALL_NUCLEAR_RIBONUCLEOPROTEIN_COMPLEX	View Gene Set	5.839e-05	20	0.0006479	21	Genes annotated by the GO term GO:0030532. A complex composed of RNA of the small nuclear RNA (snRNA) class and protein found in the nucleus of a eukaryotic cell. These are typically named after the snRNA(s) they contain e.g. U1 snRNP or U4/U6 snRNP. Many but not all of these complexes are involved in splicing of nuclear mRNAs.	www.broad.mit.e...
Broad ORGANELLAR_RIBOSOME	View Gene Set	6.897e-05	22	0.0006987	22	Genes annotated by the GO term GO:0000313. A ribosome contained within a subcellular organelle.	www.broad.mit.e...
Broad MITOCHONDRIAL_RIBOSOME	View Gene Set	6.897e-05	22	0.0006987	22	Genes annotated by the GO term GO:0005761. A ribosome found in the mitochondrion of a eukaryotic cell; contains a characteristic set of proteins distinct from those of cytosolic ribosomes.	www.broad.mit.e...
Broad ENVELOPE	View Gene Set	7.514e-05	165	0.0007003	24	Genes annotated by the GO term GO:0031975. A multilayered structure surrounding all or part of a cell; encompasses one or more lipid bilayers and may include a cell wall layer also includes the space between layers.	www.broad.mit.e...
Broad ORGANELLE_ENVELOPE	View Gene Set	7.514e-05	165	0.0007003	24	Genes annotated by the GO term GO:0031967. A double membrane structure enclosing an organelle including two lipid bilayers and the region between them. In some cases an organelle envelope may have more than two membranes.	www.broad.mit.e...
Broad PROTEIN_COMPLEX	View Gene Set	0.0001226	799	0.001099	26	Genes annotated by the GO term GO:0043234. Any protein group composed of two or more subunits which may or may not be identical. Protein complexes may have other associated non-protein prosthetic groups such as nucleic acids metal ions or carbohydrate groups.	www.broad.mit.e...
Broad RIBOSOME	View Gene Set	0.0001513	39	0.001305	27	Genes annotated by the GO term GO:0005840. An intracellular organelle about 200 A in diameter consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits one large and one small each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients expressed in Svedberg units (symbol: S). Hence the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes eukaryotes mitochondria and chloroplasts have characteristically distinct ribosomal proteins.	www.broad.mit.e...
Broad NUCLEOPLASM_PART	View Gene Set	0.0001778	202	0.00148	28	Genes annotated by the GO term GO:0044451. Any constituent part of the nucleoplasm that part of the nuclear content other than the chromosomes or the nucleolus.	www.broad.mit.e...
Broad RIBOSOMAL_SUBUNIT	View Gene Set	0.0002009	20	0.001615	29	Genes annotated by the GO term GO:0033279. Either of the two ribonucleoprotein complexes that associate to form a ribosome.	www.broad.mit.e...
Broad CENTROSOME	View Gene Set	0.000265	55	0.002058	30	Genes annotated by the GO term GO:0005813. A structure comprised of a core structure (in most organisms a pair of centrioles) and peripheral material from which a microtubule-based structure such as a spindle apparatus is organized. Centrosomes occur close to the nucleus during interphase in many eukaryotic cells though in animal cells it changes continually during the cell-division cycle.	www.broad.mit.e...
Broad NUCLEAR_CHROMOSOME	View Gene Set	0.0002821	53	0.00212	31	Genes annotated by the GO term GO:0000228. A chromosome found in the nucleus of a eukaryotic cell.	www.broad.mit.e...
Broad ORGANELLAR_SMALL_RIBOSOMAL_SUBUNIT	View Gene Set	0.0003857	11	0.002643	32	Genes annotated by the GO term GO:0000314. The smaller of the two subunits of an organellar ribosome.	www.broad.mit.e...
Broad MITOCHONDRIAL_SMALL_RIBOSOMAL_SUBUNIT	View Gene Set	0.0003857	11	0.002643	32	Genes annotated by the GO term GO:0005763. The smaller of the two subunits of a mitochondrial ribosome.	www.broad.mit.e...
Broad SMALL_RIBOSOMAL_SUBUNIT	View Gene Set	0.0003857	11	0.002643	32	Genes annotated by the GO term GO:0015935. The smaller of the two subunits of a ribosome.	www.broad.mit.e...
Broad MITOCHONDRIAL_PART	View Gene Set	0.0004326	140	0.0028	35	Genes annotated by the GO term GO:0044429. Any constituent part of a mitochondrion a semiautonomous self replicating organelle that occurs in varying numbers shapes and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.	www.broad.mit.e...
Broad CONDENSED_CHROMOSOME	View Gene Set	0.0004247	32	0.0028	35	Genes annotated by the GO term GO:0000793. A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure.	www.broad.mit.e...
Broad MICROTUBULE_ORGANIZING_CENTER	View Gene Set	0.0007145	64	0.0045	37	Genes annotated by the GO term GO:0005815. A region in a eukaryotic cell such as a centrosome or basal body from which microtubules grow.	www.broad.mit.e...
Broad HETEROGENEOUS_NUCLEAR_RIBONUCLEOPROTEIN_COMPLEX	View Gene Set	0.001226	9	0.007515	38	Genes annotated by the GO term GO:0030530. Particulate complex of heterogeneous nuclear RNA (hnRNA; a heterogeneous mixture of RNA molecules of high Mr with a rapid turnover rate that occurs in cell nuclei during protein synthesis; it is the form of RNA synthesized in eukaryotes by RNA polymerase II that which is translated into protein) with protein which is cell-specific and heterogeneous. The protein component may play a role in the processing of the hnRNA to mRNA.	www.broad.mit.e...
Broad NUCLEAR_PORE	View Gene Set	0.00134	29	0.008007	39	Genes annotated by the GO term GO:0005643. Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell where the inner and outer nuclear membranes are joined.	www.broad.mit.e...
Broad DNA_DIRECTED_RNA_POLYMERASEII_HOLOENZYME	View Gene Set	0.001375	65	0.008007	40	Genes annotated by the GO term GO:0016591. Large protein complex composed of the RNA polymerase core complex and a variety of other proteins including transcription factor complexes TFIIA D E F and H which are required for promoter recognition and the Mediator subcomplex. Catalyzes the synthesis of eukaryotic pre-mRNA.	www.broad.mit.e...
Broad MITOCHONDRIAL_MEMBRANE	View Gene Set	0.001585	85	0.009009	41	Genes annotated by the GO term GO:0031966. Either of the lipid bilayers that surround the mitochondrion and form the mitochondrial envelope.	www.broad.mit.e...
Broad MITOCHONDRIAL_INNER_MEMBRANE	View Gene Set	0.002116	66	0.01174	42	Genes annotated by the GO term GO:0005743. The inner i.e. lumen-facing lipid bilayer of the mitochondrial envelope. It is highly folded to form cristae.	www.broad.mit.e...
Broad NUCLEAR_CHROMATIN	View Gene Set	0.002623	14	0.01421	43	Genes annotated by the GO term GO:0000790. The ordered and organized complex of DNA and protein that forms the chromosome in the nucleus.	www.broad.mit.e...
Broad MITOCHONDRION	View Gene Set	0.002782	335	0.01473	44	Genes annotated by the GO term GO:0005739. A semiautonomous self replicating organelle that occurs in varying numbers shapes and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.	www.broad.mit.e...
Broad TRANSCRIPTION_FACTOR_TFIID_COMPLEX	View Gene Set	0.002909	14	0.01506	45	Genes annotated by the GO term GO:0005669. A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II) TFIID is believed to recognize at least two distinct elements the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters.	www.broad.mit.e...
Broad NUCLEAR_BODY	View Gene Set	0.003143	31	0.01592	46	Genes annotated by the GO term GO:0016604. Extra-nucleolar nuclear domains usually visualized by confocal microscopy and fluorescent antibodies to specific proteins.	www.broad.mit.e...
Broad ORGANELLE_INNER_MEMBRANE	View Gene Set	0.003372	74	0.01656	47	Genes annotated by the GO term GO:0019866. The inner i.e. lumen-facing lipid bilayer of an organelle envelope; usually highly selective to most ions and metabolites.	www.broad.mit.e...
Broad PORE_COMPLEX	View Gene Set	0.003411	34	0.01656	47	Genes annotated by the GO term GO:0046930. Any small opening in a membrane that allows the passage of gases and/or liquids.	www.broad.mit.e...
Broad NON_MEMBRANE_BOUND_ORGANELLE	View Gene Set	0.00374	613	0.01743	49	Genes annotated by the GO term GO:0043228. Organized structure of distinctive morphology and function not bounded by a lipid bilayer membrane. Includes ribosomes the cytoskeleton and chromosomes.	www.broad.mit.e...
Broad INTRACELLULAR_NON_MEMBRANE_BOUND_ORGANELLE	View Gene Set	0.00374	613	0.01743	49	Genes annotated by the GO term GO:0043232. Organized structure of distinctive morphology and function not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes the cytoskeleton and chromosomes.	www.broad.mit.e...
Broad MITOCHONDRIAL_ENVELOPE	View Gene Set	0.004322	95	0.01974	51	Genes annotated by the GO term GO:0005740. The double lipid bilayer enclosing the mitochondrion and separating its contents from the cell cytoplasm; includes the intermembrane space.	www.broad.mit.e...
Broad EUKARYOTIC_TRANSLATION_INITIATION_FACTOR_3_COMPLEX	View Gene Set	0.004743	10	0.02104	52	Genes annotated by the GO term GO:0005852. A complex of several polypeptides that plays at least two important roles in protein synthesis: First eIF3 binds to the 40S ribosome and facilitates loading of the Met-tRNA/eIF2.GTP ternary complex to form the 43S preinitiation complex. Subsequently eIF3 apparently assists eIF4 in recruiting mRNAs to the 43S complex.	www.broad.mit.e...
Broad MITOCHONDRIAL_MEMBRANE_PART	View Gene Set	0.004786	52	0.02104	52	Genes annotated by the GO term GO:0044455. Any constituent part of the mitochondrial membrane either of the lipid bilayers that surround the mitochondrion and form the mitochondrial envelope.	www.broad.mit.e...
Broad TRANSCRIPTION_FACTOR_COMPLEX	View Gene Set	0.006342	84	0.02737	54	Genes annotated by the GO term GO:0005667. Any complex distinct from RNA polymerase including one or more polypeptides capable of binding DNA at promoters or at cis-acting regulatory sequences and regulating transcription.	www.broad.mit.e...
Broad NUCLEAR_ENVELOPE	View Gene Set	0.00667	71	0.02826	55	Genes annotated by the GO term GO:0005635. The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space a gap of width 20-40 nm (also called the perinuclear space).	www.broad.mit.e...
Broad NUCLEAR_MEMBRANE	View Gene Set	0.007872	48	0.03275	56	Genes annotated by the GO term GO:0031965. Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space.	www.broad.mit.e...
Broad NUCLEAR_CHROMOSOME_PART	View Gene Set	0.009298	33	0.03801	57	Genes annotated by the GO term GO:0044454. Any constituent part of a nuclear chromosome a chromosome found in the nucleus of a eukaryotic cell.	www.broad.mit.e...
Broad U12_DEPENDENT_SPLICEOSOME	View Gene Set	0.009495	7	0.03814	58	Genes annotated by the GO term GO:0005689. The minor (U12-dependent) spliceosome is composed of the snRNPs U11 U12 U4atac U6atac and U5 (which is also a component of the major spliceosome). This minor form of the spliceosome is responsible for the splicing of the majority of introns with atypical AT-AC terminal dinucleotides as well as other non-canonical introns. The entire splice site signal not just the terminal dinucleotides is involved in determining which spliceosome utilizes the site.	www.broad.mit.e...
Broad MEDIATOR_COMPLEX	View Gene Set	0.01096	18	0.0433	59	Genes annotated by the GO term GO:0000119. A protein complex that enables the RNA polymerase II-general RNA polymerase II transcription factor complex to react to transcriptional activator proteins; also enhances the level of basal transcription.	www.broad.mit.e...
Broad NUCLEAR_UBIQUITIN_LIGASE_COMPLEX	View Gene Set	0.01156	11	0.04488	60	Genes annotated by the GO term GO:0000152. A ubiquitin ligase complex found in the nucleus.	www.broad.mit.e...
Broad NADH_DEHYDROGENASE_COMPLEX	View Gene Set	0.01329	15	0.04915	61	Genes annotated by the GO term GO:0030964. An integral membrane complex that possesses NADH oxidoreductase activity. The complex is one of the components of the electron transport chain. It catalyses the transfer of a pair of electrons from NADH to a quinone.	www.broad.mit.e...
Broad MITOCHONDRIAL_RESPIRATORY_CHAIN_COMPLEX_I	View Gene Set	0.01329	15	0.04915	61	Genes annotated by the GO term GO:0005747. A part of the respiratory chain located in the mitochondrion. It contains about 25 different polypeptide subunits including NADH dehydrogenase (ubiquinone) flavin mononucleotide and several different iron-sulfur clusters containing non-heme iron. The iron undergoes oxidation-reduction between Fe(II) and Fe(III) and catalyzes proton translocation linked to the oxidation of NADH by ubiquinone.	www.broad.mit.e...
Broad RESPIRATORY_CHAIN_COMPLEX_I	View Gene Set	0.01329	15	0.04915	61	Genes annotated by the GO term GO:0045271. Respiratory chain complex I is an enzyme of the respiratory chain. It consists of at least 34 polypeptide chains and is L-shaped with a horizontal arm lying in the membrane and a vertical arm that projects into the matrix. The electrons of NADH enter the chain at this complex.	www.broad.mit.e...

Gene Set Collection: Broad.c5.MF

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: PMID

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad RNA_BINDING	View Gene Set	1.841e-11	236	7.292e-09	1	Genes annotated by the GO term GO:0003723. Interacting selectively with an RNA molecule or a portion thereof.	www.broad.mit.e...
Broad DNA_BINDING	View Gene Set	5.648e-07	587	0.0001118	2	Genes annotated by the GO term GO:0003677. Interacting selectively with DNA (deoxyribonucleic acid).	www.broad.mit.e...
Broad STRUCTURE_SPECIFIC_DNA_BINDING	View Gene Set	4.261e-06	55	0.0004263	3	Genes annotated by the GO term GO:0043566. Interacting selectively with DNA of a specific structure or configuration e.g. triplex DNA binding or bent DNA binding.	www.broad.mit.e...
Broad TRANSCRIPTION_FACTOR_BINDING	View Gene Set	6.459e-06	300	0.0004263	3	Genes annotated by the GO term GO:0008134. Interacting selectively with a transcription factor any protein required to initiate or regulate transcription.	www.broad.mit.e...
Broad HORMONE_RECEPTOR_BINDING	View Gene Set	4.683e-06	29	0.0004263	3	Genes annotated by the GO term GO:0051427. Interacting selectively with a receptor for hormones.	www.broad.mit.e...
Broad TRANSCRIPTION_COFACTOR_ACTIVITY	View Gene Set	5.447e-06	222	0.0004263	3	Genes annotated by the GO term GO:0003712. The function that links a sequence-specific transcription factor to the core RNA polymerase II complex but does not bind DNA itself.	www.broad.mit.e...
Broad NUCLEAR_HORMONE_RECEPTOR_BINDING	View Gene Set	8.132e-06	28	0.0004601	7	Genes annotated by the GO term GO:0035257. Interacting selectively with a nuclear hormone receptor a ligand-dependent receptor found in the nucleus of the cell.	www.broad.mit.e...
Broad RNA_SPLICING_FACTOR_ACTIVITYTRANSESTERIFICATION_MECHANISM	View Gene Set	1.261e-05	14	0.0005548	8	Genes annotated by the GO term GO:0031202. An activity which binds RNA and functions to assist splicing of substrate RNA(s) by facilitating the formation and stabilization of a catalytic conformation in which the splice junctions of the RNA(s) to be spliced are positioned for a transesterification reaction that occurs between two sites within the RNA(s) to be spliced.	www.broad.mit.e...
Broad TRANSCRIPTION_ACTIVATOR_ACTIVITY	View Gene Set	1.159e-05	169	0.0005548	8	Genes annotated by the GO term GO:0016563. Any transcription regulator activity required for initiation or upregulation of transcription.	www.broad.mit.e...
Broad CHROMATIN_BINDING	View Gene Set	2.213e-05	32	0.0008762	10	Genes annotated by the GO term GO:0003682. Interacting selectively with chromatin the network of fibers of DNA and protein that make up the chromosomes of the eukaryotic nucleus during interphase.	www.broad.mit.e...
Broad TRANSCRIPTION_COACTIVATOR_ACTIVITY	View Gene Set	2.452e-05	121	0.0008828	11	Genes annotated by the GO term GO:0003713. The function of a transcription cofactor that activates transcription from a RNA polymerase II promoter; does not bind DNA itself.	www.broad.mit.e...
Broad SINGLE_STRANDED_DNA_BINDING	View Gene Set	3.52e-05	34	0.001072	12	Genes annotated by the GO term GO:0003697. Interacting selectively with single-stranded DNA.	www.broad.mit.e...
Broad STEROID_HORMONE_RECEPTOR_BINDING	View Gene Set	3.28e-05	10	0.001072	12	Genes annotated by the GO term GO:0035258. Interacting selectively with a steroid hormone receptor.	www.broad.mit.e...
Broad DOUBLE_STRANDED_DNA_BINDING	View Gene Set	6.709e-05	32	0.001898	14	Genes annotated by the GO term GO:0003690. Interacting selectively with double-stranded DNA.	www.broad.mit.e...
Broad N_METHYLTRANSFERASE_ACTIVITY	View Gene Set	0.0003979	13	0.01051	15	Genes annotated by the GO term GO:0008170. Catalysis of the transfer of a methyl group to the nitrogen atom of an acceptor molecule.	www.broad.mit.e...
Broad RNA_POLYMERASE_II_TRANSCRIPTION_FACTOR_ACTIVITY	View Gene Set	0.0005062	182	0.01114	16	Genes annotated by the GO term GO:0003702. Functions to initiate or regulate RNA polymerase II transcription.	www.broad.mit.e...
Broad THYROID_HORMONE_RECEPTOR_BINDING	View Gene Set	0.0005063	17	0.01114	16	Genes annotated by the GO term GO:0046966. Interacting selectively with a thyroid hormone receptor.	www.broad.mit.e...
Broad GENERAL_RNA_POLYMERASE_II_TRANSCRIPTION_FACTOR_ACTIVITY	View Gene Set	0.0004566	32	0.01114	16	Genes annotated by the GO term GO:0016251. Any function that supports basal (unregulated) transcription of genes by core RNA polymerase II. Five general transcription factors are necessary and sufficient for such basal transcription in yeast: TFIIB TFIID TFIIE TFIIF TFIIH and TATA-binding protein (TBF).	www.broad.mit.e...
Broad HISTONE_METHYLTRANSFERASE_ACTIVITY	View Gene Set	0.0006366	11	0.01327	19	Genes annotated by the GO term GO:0042054. Catalysis of the transfer of a methyl group (CH3-) to a histone.	www.broad.mit.e...
Broad RNA_HELICASE_ACTIVITY	View Gene Set	0.001536	24	0.03041	20	Genes annotated by the GO term GO:0003724. Catalysis of the unwinding of an RNA helix.	www.broad.mit.e...
Broad ENDONUCLEASE_ACTIVITY_GO_0016893	View Gene Set	0.001709	11	0.03223	21	Genes annotated by the GO term GO:0016893. Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks to yield 5'-phosphomonoesters.	www.broad.mit.e...
Broad RNA_DEPENDENT_ATPASE_ACTIVITY	View Gene Set	0.00206	18	0.03708	22	Genes annotated by the GO term GO:0008186. Catalysis of the reaction: ATP + H2O = ADP + phosphate in the presence of RNA; drives another reaction.	www.broad.mit.e...
Broad ENDORIBONUCLEASE_ACTIVITY	View Gene Set	0.0022	13	0.03788	23	Genes annotated by the GO term GO:0004521. Catalysis of the hydrolysis of ester linkages within ribonucleic acid by creating internal breaks.	www.broad.mit.e...
Broad LIGASE_ACTIVITY_FORMING_CARBON_NITROGEN_BONDS	View Gene Set	0.002756	68	0.04366	24	Genes annotated by the GO term GO:0016879. Catalysis of the ligation of two substances via a carbon-nitrogen bond with concomitant breakage of a diphosphate linkage usually in a nucleoside triphosphate.	www.broad.mit.e...
Broad METHYLTRANSFERASE_ACTIVITY	View Gene Set	0.002704	36	0.04366	24	Genes annotated by the GO term GO:0008168. Catalysis of the transfer of a methyl group to an acceptor molecule.	www.broad.mit.e...
Broad LIGASE_ACTIVITY	View Gene Set	0.003148	97	0.04426	26	Genes annotated by the GO term GO:0016874. Catalysis of the ligation of two substances with concomitant breaking of a diphosphate linkage usually in a nucleoside triphosphate. Ligase is the systematic name for any enzyme of EC class 6.	www.broad.mit.e...
Broad RIBONUCLEASE_ACTIVITY	View Gene Set	0.003137	25	0.04426	26	Genes annotated by the GO term GO:0004540. Catalysis of the hydrolysis of phosphodiester bonds in chains of RNA.	www.broad.mit.e...
Broad TRANSLATION_FACTOR_ACTIVITY_NUCLEIC_ACID_BINDING	View Gene Set	0.003096	39	0.04426	26	Genes annotated by the GO term GO:0008135. Functions during translation by binding nucleic acids during polypeptide synthesis at the ribosome.	www.broad.mit.e...
Broad TRANSFERASE_ACTIVITY_TRANSFERRING_ONE_CARBON_GROUPS	View Gene Set	0.003241	37	0.04426	26	Genes annotated by the GO term GO:0016741. Catalysis of the transfer of a one-carbon group from one compound (donor) to another (acceptor).	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
PMID 15302935	View Gene Set	1.152e-21	773	2.889e-18	1	Large-scale characterization of HeLa cell nuclear phosphoproteins.	www.ncbi.nlm.ni...
PMID 15635413	View Gene Set	3.668e-19	421	4.598e-16	2	Nucleolar proteome dynamics.	www.ncbi.nlm.ni...
PMID 17643375	View Gene Set	6.734e-19	391	5.628e-16	3	Systematic analysis of the protein interaction network for the human transcription machinery reveals the identity of the 7SK capping enzyme.	www.ncbi.nlm.ni...
PMID 12226669	View Gene Set	6.518e-15	108	4.085e-12	4	Comprehensive proteomic analysis of the human spliceosome.	www.ncbi.nlm.ni...
PMID 11991638	View Gene Set	7.899e-13	74	3.301e-10	5	Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis.	www.ncbi.nlm.ni...
PMID 16964243	View Gene Set	7.792e-13	504	3.301e-10	5	A probability-based approach for high-throughput protein phosphorylation analysis and site localization.	www.ncbi.nlm.ni...
PMID 12706105	View Gene Set	4.019e-12	182	1.439e-09	7	Identification and characterization of over 100 mitochondrial ribosomal protein pseudogenes in the human genome.	www.ncbi.nlm.ni...
PMID 11790298	View Gene Set	2.57e-10	208	8.053e-08	8	Directed proteomic analysis of the human nucleolus.	www.ncbi.nlm.ni...
PMID 11543634	View Gene Set	7.434e-09	58	1.949e-06	9	The human mitochondrial ribosomal protein genes: mapping of 54 genes to the chromosomes and implications for human disorders.	www.ncbi.nlm.ni...
PMID 9731529	View Gene Set	7.776e-09	24	1.949e-06	9	Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex.	www.ncbi.nlm.ni...
PMID 16565220	View Gene Set	1.404e-08	210	3.2e-06	11	Phosphoproteome analysis of the human mitotic spindle.	www.ncbi.nlm.ni...
PMID 12429849	View Gene Set	2.198e-08	106	4.592e-06	12	Functional proteomic analysis of human nucleolus.	www.ncbi.nlm.ni...
PMID 14559993	View Gene Set	2.595e-08	51	5.004e-06	13	Regulation of alternative splicing by SRrp86 and its interacting proteins.	www.ncbi.nlm.ni...
PMID 11285280	View Gene Set	2.849e-08	62	5.102e-06	14	Anaphase-promoting complex/cyclosome-dependent proteolysis of human cyclin A starts at the beginning of mitosis and is not subject to the spindle assembly checkpoint.	www.ncbi.nlm.ni...
PMID 15231747	View Gene Set	2.279e-07	212	3.809e-05	15	A protein interaction framework for human mRNA degradation.	www.ncbi.nlm.ni...
PMID 12234937	View Gene Set	6.439e-07	34	0.0001009	16	Characterization of novel SF3b and 17S U2 snRNP proteins including a human Prp5p homologue and an SF3b DEAD-box protein.	www.ncbi.nlm.ni...
PMID 15029244	View Gene Set	7.424e-07	57	0.0001095	17	Mammalian Cdh1/Fzr mediates its own degradation.	www.ncbi.nlm.ni...
PMID 11279123	View Gene Set	8.896e-07	31	0.0001239	18	The small subunit of the mammalian mitochondrial ribosome. Identification of the full complement of ribosomal proteins present.	www.ncbi.nlm.ni...
PMID 15146077	View Gene Set	1.094e-06	32	0.0001443	19	The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome.	www.ncbi.nlm.ni...
PMID 20508983	View Gene Set	1.756e-06	102	0.0002201	20	Centrosome-related genes genetic variation and risk of breast cancer.	www.ncbi.nlm.ni...
PMID 11076961	View Gene Set	3.293e-06	14	0.0003931	21	Characterization of vertebrate cohesin complexes and their regulation in prophase.	www.ncbi.nlm.ni...
PMID 10810093	View Gene Set	3.99e-06	151	0.0004546	22	Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics.	www.ncbi.nlm.ni...
PMID 12791267	View Gene Set	4.342e-06	50	0.0004732	23	Prophase destruction of Emi1 by the SCF(betaTrCP/Slimb) ubiquitin ligase activates the anaphase promoting complex to allow progression beyond prometaphase.	www.ncbi.nlm.ni...
PMID 14564014	View Gene Set	8.255e-06	47	0.0008623	24	Induction of APOBEC3G ubiquitination and degradation by an HIV-1 Vif-Cul5-SCF complex.	www.ncbi.nlm.ni...
PMID 12837248	View Gene Set	9.859e-06	22	0.0009886	25	The chromatin-remodeling complex WINAC targets a nuclear receptor to promoters and is impaired in Williams syndrome.	www.ncbi.nlm.ni...
PMID 15504738	View Gene Set	1.13e-05	19	0.001089	26	Genes affecting the cell cycle growth maintenance and drug sensitivity are preferentially regulated by anti-HER2 antibody through phosphatidylinositol 3-kinase-AKT signaling.	www.ncbi.nlm.ni...
PMID 17148452	View Gene Set	1.173e-05	87	0.001089	26	Characterization of the interactome of the human MutL homologues MLH1 PMS1 and PMS2.	www.ncbi.nlm.ni...
PMID 11042152	View Gene Set	1.272e-05	315	0.001104	28	Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells.	www.ncbi.nlm.ni...
PMID 20516191	View Gene Set	1.277e-05	12	0.001104	28	A rational nomenclature for serine/arginine-rich protein splicing factors (SR proteins).	www.ncbi.nlm.ni...
PMID 12859895	View Gene Set	1.42e-05	47	0.00118	30	Species-specific exclusion of APOBEC3G from HIV-1 virions by Vif.	www.ncbi.nlm.ni...
PMID 18377426	View Gene Set	1.459e-05	20	0.00118	30	Interaction of antiproliferative protein Tob with the CCR4-NOT deadenylase complex.	www.ncbi.nlm.ni...
PMID 19710015	View Gene Set	1.592e-05	48	0.001247	32	The metastasis efficiency modifier ribosomal RNA processing 1 homolog B (RRP1B) is a chromatin-associated factor.	www.ncbi.nlm.ni...
PMID 20496165	View Gene Set	1.653e-05	68	0.001256	33	Comprehensive screen of genetic variation in DNA repair pathway genes and postmenopausal breast cancer risk.	www.ncbi.nlm.ni...
PMID 8811196	View Gene Set	1.94e-05	37	0.001431	34	Structure and functions of the 20S and 26S proteasomes.	www.ncbi.nlm.ni...
PMID 11500380	View Gene Set	2.374e-05	10	0.001517	35	A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site.	www.ncbi.nlm.ni...
PMID 11551941	View Gene Set	2.749e-05	26	0.001517	35	The large subunit of the mammalian mitochondrial ribosome. Analysis of the complement of ribosomal proteins present.	www.ncbi.nlm.ni...
PMID 12719574	View Gene Set	2.845e-05	42	0.001517	35	Comprehensive investigation of the molecular defect in vif-deficient human immunodeficiency virus type 1 virions.	www.ncbi.nlm.ni...
PMID 12750511	View Gene Set	2.845e-05	42	0.001517	35	Hypermutation of HIV-1 DNA in the absence of the Vif protein.	www.ncbi.nlm.ni...
PMID 12830140	View Gene Set	2.845e-05	42	0.001517	35	DNA deamination: not just a trigger for antibody diversification but also a mechanism for defense against retroviruses.	www.ncbi.nlm.ni...
PMID 12840737	View Gene Set	2.845e-05	42	0.001517	35	Good to CU.	www.ncbi.nlm.ni...
PMID 12914693	View Gene Set	2.845e-05	42	0.001517	35	Death by deamination: a novel host restriction system for HIV-1.	www.ncbi.nlm.ni...
PMID 12920286	View Gene Set	2.845e-05	42	0.001517	35	Virology. Weapons of mutational destruction.	www.ncbi.nlm.ni...
PMID 14614829	View Gene Set	2.845e-05	42	0.001517	35	The Vif protein of HIV triggers degradation of the human antiretroviral DNA deaminase APOBEC3G.	www.ncbi.nlm.ni...
PMID 18162579	View Gene Set	2.461e-05	22	0.001517	35	Identification of novel human Cdt1-binding proteins by a proteomics approach: proteolytic regulation by APC/CCdh1.	www.ncbi.nlm.ni...
PMID 20085707	View Gene Set	2.125e-05	42	0.001517	35	Aire's partners in the molecular control of immunological tolerance.	www.ncbi.nlm.ni...
PMID 9811770	View Gene Set	2.845e-05	42	0.001517	35	An endogenous inhibitor of human immunodeficiency virus in human lymphocytes is overcome by the viral Vif protein.	www.ncbi.nlm.ni...
PMID 9846577	View Gene Set	2.845e-05	42	0.001517	35	Evidence for a newly discovered cellular anti-HIV-1 phenotype.	www.ncbi.nlm.ni...
PMID 14667819	View Gene Set	2.912e-05	112	0.001521	48	Analysis of a high-throughput yeast two-hybrid system and its use to predict the function of intracellular proteins encoded within the human MHC class III region.	www.ncbi.nlm.ni...
PMID 12167863	View Gene Set	3.883e-05	43	0.001708	49	Isolation of a human gene that inhibits HIV-1 infection and is suppressed by the viral Vif protein.	www.ncbi.nlm.ni...
PMID 12808465	View Gene Set	3.883e-05	43	0.001708	49	The cytidine deaminase CEM15 induces hypermutation in newly synthesized HIV-1 DNA.	www.ncbi.nlm.ni...
PMID 12808466	View Gene Set	3.883e-05	43	0.001708	49	Broad antiretroviral defence by human APOBEC3G through lethal editing of nascent reverse transcripts.	www.ncbi.nlm.ni...
PMID 12809610	View Gene Set	3.883e-05	43	0.001708	49	DNA deamination mediates innate immunity to retroviral infection.	www.ncbi.nlm.ni...
PMID 12970355	View Gene Set	3.883e-05	43	0.001708	49	The enzymatic activity of CEM15/Apobec-3G is essential for the regulation of the infectivity of HIV-1 virion but not a sole determinant of its antiviral activity.	www.ncbi.nlm.ni...
PMID 14527406	View Gene Set	3.883e-05	43	0.001708	49	HIV-1 Vif blocks the antiviral activity of APOBEC3G by impairing both its translation and intracellular stability.	www.ncbi.nlm.ni...
PMID 14528300	View Gene Set	3.883e-05	43	0.001708	49	The antiretroviral enzyme APOBEC3G is degraded by the proteasome in response to HIV-1 Vif.	www.ncbi.nlm.ni...
PMID 14528301	View Gene Set	3.883e-05	43	0.001708	49	HIV-1 Vif protein binds the editing enzyme APOBEC3G and induces its degradation.	www.ncbi.nlm.ni...
PMID 14557625	View Gene Set	3.883e-05	43	0.001708	49	The human immunodeficiency virus type 1 Vif protein reduces intracellular expression and inhibits packaging of APOBEC3G (CEM15) a cellular inhibitor of virus infectivity.	www.ncbi.nlm.ni...
PMID 10893419	View Gene Set	4.226e-05	41	0.001737	58	Degradation of HIV-1 integrase by the N-end rule pathway.	www.ncbi.nlm.ni...
PMID 12419264	View Gene Set	4.226e-05	41	0.001737	58	The RTP site shared by the HIV-1 Tat protein and the 11S regulator subunit alpha is crucial for their effects on proteasome function including antigen processing.	www.ncbi.nlm.ni...
PMID 14550573	View Gene Set	4.226e-05	41	0.001737	58	Human immunodeficiency virus-1 Tat protein interacts with distinct proteasomal alpha and beta subunits.	www.ncbi.nlm.ni...
PMID 9079628	View Gene Set	4.226e-05	41	0.001737	58	HIV-1 tat inhibits the 20 S proteasome and its 11 S regulator-mediated activation.	www.ncbi.nlm.ni...
PMID 19690177	View Gene Set	4.366e-05	31	0.001766	62	Polymorphic variants in hereditary pancreatic cancer genes are not associated with pancreatic cancer risk.	www.ncbi.nlm.ni...
PMID 18997788	View Gene Set	4.628e-05	10	0.001842	63	The APC/C maintains the spindle assembly checkpoint by targeting Cdc20 for destruction.	www.ncbi.nlm.ni...
PMID 9153318	View Gene Set	7.134e-05	11	0.002795	64	CCAAT binding NF-Y-TBP interactions: NF-YB and NF-YC require short domains adjacent to their histone fold motifs for association with TBP basic residues.	www.ncbi.nlm.ni...
PMID 10531003	View Gene Set	9.06e-05	15	0.003494	65	Newly assembled snRNPs associate with coiled bodies before speckles suggesting a nuclear snRNP maturation pathway.	www.ncbi.nlm.ni...
PMID 15502821	View Gene Set	0.0001186	12	0.004505	66	A conserved Mis12 centromere complex is linked to heterochromatic HP1 and outer kinetochore protein Zwint-1.	www.ncbi.nlm.ni...
PMID 18485873	View Gene Set	0.0001442	13	0.005395	67	Mechanism of ubiquitin-chain formation by the human anaphase-promoting complex.	www.ncbi.nlm.ni...
PMID 15456888	View Gene Set	0.0001748	24	0.006365	68	The WW domain-containing proteins interact with the early spliceosome and participate in pre-mRNA splicing in vivo.	www.ncbi.nlm.ni...
PMID 19237606	View Gene Set	0.0001777	84	0.006365	68	Genetic polymorphisms in 85 DNA repair genes and bladder cancer risk.	www.ncbi.nlm.ni...
PMID 9472028	View Gene Set	0.0001771	12	0.006365	68	SRPK2: a differentially expressed SR protein-specific kinase involved in mediating the interaction and localization of pre-mRNA splicing factors in mammalian cells.	www.ncbi.nlm.ni...
PMID 11734557	View Gene Set	0.0001829	12	0.00637	71	SYT associates with human SNF/SWI complexes and the C-terminal region of its fusion partner SSX1 targets histones.	www.ncbi.nlm.ni...
PMID 19060904	View Gene Set	0.000183	130	0.00637	71	An empirical framework for binary interactome mapping.	www.ncbi.nlm.ni...
PMID 11748230	View Gene Set	0.0001866	17	0.006375	73	Purification of native survival of motor neurons complexes and identification of Gemin6 as a novel component.	www.ncbi.nlm.ni...
PMID 15009096	View Gene Set	0.0001882	39	0.006375	73	Proteomics analysis of the centromere complex from HeLa interphase cells: UV-damaged DNA binding protein 1 (DDB-1) is a component of the CEN-complex while BMI-1 is transiently co-localized with the centromeric region in interphase.	www.ncbi.nlm.ni...
PMID 14580349	View Gene Set	0.0001959	14	0.00655	75	The TBN protein which is essential for early embryonic mouse development is an inducible TAFII implicated in adipogenesis.	www.ncbi.nlm.ni...
PMID 11101529	View Gene Set	0.0002442	34	0.008055	76	Functional analysis of the human CDC5L complex and identification of its components by mass spectrometry.	www.ncbi.nlm.ni...
PMID 17363900	View Gene Set	0.0002503	14	0.008149	77	The human Nup107-160 nuclear pore subcomplex contributes to proper kinetochore functions.	www.ncbi.nlm.ni...
PMID 20522537	View Gene Set	0.0002918	73	0.009378	78	Variation within DNA repair pathway genes and risk of multiple sclerosis.	www.ncbi.nlm.ni...
PMID 12601814	View Gene Set	0.0002974	12	0.009438	79	Novel subunits of the TATA binding protein free TAFII-containing transcription complex identified by matrix-assisted laser desorption/ionization-time of flight mass spectrometry following one-dimensional gel electrophoresis.	www.ncbi.nlm.ni...
PMID 10793135	View Gene Set	0.0003123	18	0.009786	80	Mitotic regulation of the APC activator proteins CDC20 and CDH1.	www.ncbi.nlm.ni...
PMID 15778465	View Gene Set	0.0003176	91	0.00983	81	Targeted proteomic analysis of 14-3-3 sigma a p53 effector commonly silenced in cancer.	www.ncbi.nlm.ni...
PMID 11535616	View Gene Set	0.0003451	18	0.01042	82	Checkpoint inhibition of the APC/C in HeLa cells is mediated by a complex of BUBR1 BUB3 CDC20 and MAD2.	www.ncbi.nlm.ni...
PMID 14593737	View Gene Set	0.0003451	18	0.01042	82	The mitotic checkpoint: a signaling pathway that allows a single unattached kinetochore to inhibit mitotic exit.	www.ncbi.nlm.ni...
PMID 15130578	View Gene Set	0.0003614	22	0.01078	84	Why do cells need an assembly machine for RNA-protein complexes?	www.ncbi.nlm.ni...
PMID 12171929	View Gene Set	0.0004078	31	0.01203	85	A proteomics approach to identify proliferating cell nuclear antigen (PCNA)-binding proteins in human cell lysates. Identification of the human CHL12/RFCs2-5 complex as a novel PCNA-binding protein.	www.ncbi.nlm.ni...
PMID 10983978	View Gene Set	0.0004436	10	0.01293	86	Direct coupling of transcription and mRNA processing through the thermogenic coactivator PGC-1.	www.ncbi.nlm.ni...
PMID 19047128	View Gene Set	0.0004616	19	0.01315	87	Single nucleotide polymorphisms of microRNA machinery genes modify the risk of renal cell carcinoma.	www.ncbi.nlm.ni...
PMID 19116388	View Gene Set	0.0004574	37	0.01315	87	A field synopsis on low-penetrance variants in DNA repair genes and cancer susceptibility.	www.ncbi.nlm.ni...
PMID 11416179	View Gene Set	0.0004796	12	0.01351	89	All kinesin superfamily protein KIF genes in mouse and human.	www.ncbi.nlm.ni...
PMID 8724849	View Gene Set	0.000499	41	0.0139	90	Prediction of the coding sequences of unidentified human genes. V. The coding sequences of 40 new genes (KIAA0161-KIAA0200) deduced by analysis of cDNA clones from human cell line KG-1.	www.ncbi.nlm.ni...
PMID 11078522	View Gene Set	0.0005186	12	0.01398	91	The human SWI/SNF-B chromatin-remodeling complex is related to yeast rsc and localizes at kinetochores of mitotic chromosomes.	www.ncbi.nlm.ni...
PMID 11564863	View Gene Set	0.0005156	23	0.01398	91	Human STAGA complex is a chromatin-acetylating transcription coactivator that interacts with pre-mRNA splicing and DNA damage-binding factors in vivo.	www.ncbi.nlm.ni...
PMID 16364912	View Gene Set	0.0005158	12	0.01398	91	Localization of the coactivator Cdh1 and the cullin subunit Apc2 in a cryo-electron microscopy model of vertebrate APC/C.	www.ncbi.nlm.ni...
PMID 19138993	View Gene Set	0.0005877	25	0.01567	94	Genetic variations in microRNA-related genes are novel susceptibility loci for esophageal cancer risk.	www.ncbi.nlm.ni...
PMID 10725331	View Gene Set	0.0006073	14	0.0157	95	Gemin4. A novel component of the SMN complex that is found in both gems and nucleoli.	www.ncbi.nlm.ni...
PMID 11205743	View Gene Set	0.0006066	15	0.0157	95	Polo-like kinase interacts with proteasomes and regulates their activity.	www.ncbi.nlm.ni...
PMID 14638676	View Gene Set	0.0006025	28	0.0157	95	A mammalian mediator subunit that shares properties with Saccharomyces cerevisiae mediator subunit Cse2.	www.ncbi.nlm.ni...
PMID 18826954	View Gene Set	0.0007059	10	0.01806	98	SCCRO (DCUN1D1) is an essential component of the E3 complex for neddylation.	www.ncbi.nlm.ni...
PMID 7933101	View Gene Set	0.0007369	17	0.01866	99	Role of flanking E box motifs in human immunodeficiency virus type 1 TATA element function.	www.ncbi.nlm.ni...
PMID 11402041	View Gene Set	0.0007609	16	0.01879	100	Proteomic analysis of the mammalian mitochondrial ribosome. Identification of protein components in the 28 S small subunit.	www.ncbi.nlm.ni...
PMID 12388589	View Gene Set	0.000756	17	0.01879	100	A receptor for activated C kinase is part of messenger ribonucleoprotein complexes associated with polyA-mRNAs in neurons.	www.ncbi.nlm.ni...
PMID 19596235	View Gene Set	0.0007643	85	0.01879	100	Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair.	www.ncbi.nlm.ni...
PMID 10318877	View Gene Set	0.0008028	10	0.01936	103	Characterization of the DOC1/APC10 subunit of the yeast and the human anaphase-promoting complex.	www.ncbi.nlm.ni...
PMID 11018012	View Gene Set	0.000803	11	0.01936	103	Functional selectivity of recombinant mammalian SWI/SNF subunits.	www.ncbi.nlm.ni...
PMID 15782174	View Gene Set	0.0008124	31	0.0194	105	Identifying and quantifying in vivo methylation sites by heavy methyl SILAC.	www.ncbi.nlm.ni...
PMID 10069390	View Gene Set	0.0008362	10	0.01978	106	Identification of caspases that cleave presenilin-1 and presenilin-2. Five presenilin-1 (PS1) mutations do not alter the sensitivity of PS1 to caspases.	www.ncbi.nlm.ni...
PMID 15647280	View Gene Set	0.00088	17	0.02062	107	The mammalian YL1 protein is a shared subunit of the TRRAP/TIP60 histone acetyltransferase and SRCAP complexes.	www.ncbi.nlm.ni...
PMID 10851237	View Gene Set	0.0009242	11	0.02145	108	Specific sequences of the Sm and Sm-like (Lsm) proteins mediate their interaction with the spinal muscular atrophy disease gene product (SMN).	www.ncbi.nlm.ni...
PMID 11406595	View Gene Set	0.0009881	16	0.02273	109	UV-damaged DNA-binding protein in the TFTC complex links DNA damage recognition to nucleosome acetylation.	www.ncbi.nlm.ni...
PMID 16387653	View Gene Set	0.001381	42	0.03148	110	ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation.	www.ncbi.nlm.ni...
PMID 17137291	View Gene Set	0.00146	10	0.03297	111	Physical interaction of two cancer-testis antigens MAGE-C1 (CT7) and NY-ESO-1 (CT6).	www.ncbi.nlm.ni...
PMID 12065586	View Gene Set	0.001582	14	0.03449	112	Identification and characterization of Gemin7 a novel component of the survival of motor neuron complex.	www.ncbi.nlm.ni...
PMID 15383276	View Gene Set	0.001578	67	0.03449	112	A protein interaction network links GIT1 an enhancer of huntingtin aggregation to Huntington's disease.	www.ncbi.nlm.ni...
PMID 18809582	View Gene Set	0.001562	25	0.03449	112	Nucleophosmin serves as a rate-limiting nuclear export chaperone for the Mammalian ribosome.	www.ncbi.nlm.ni...
PMID 8895581	View Gene Set	0.001567	12	0.03449	112	Purification and biochemical heterogeneity of the mammalian SWI-SNF complex.	www.ncbi.nlm.ni...
PMID 14578343	View Gene Set	0.001648	19	0.03562	116	Phosphopeptide binding specificities of BRCA1 COOH-terminal (BRCT) domains.	www.ncbi.nlm.ni...
PMID 10922056	View Gene Set	0.001729	12	0.03705	117	The RING-H2 finger protein APC11 and the E2 enzyme UBC4 are sufficient to ubiquitinate substrates of the anaphase-promoting complex.	www.ncbi.nlm.ni...
PMID 15146197	View Gene Set	0.001744	693	0.03705	118	Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation.	www.ncbi.nlm.ni...
PMID 11384984	View Gene Set	0.001864	12	0.03862	119	Muf1 a novel Elongin BC-interacting leucine-rich repeat protein that can assemble with Cul5 and Rbx1 to reconstitute a ubiquitin ligase.	www.ncbi.nlm.ni...
PMID 11604498	View Gene Set	0.001895	12	0.03862	119	The transcription elongation factor CA150 interacts with RNA polymerase II and the pre-mRNA splicing factor SF1.	www.ncbi.nlm.ni...
PMID 12956947	View Gene Set	0.00188	15	0.03862	119	TPR subunits of the anaphase-promoting complex mediate binding to the activator protein CDH1.	www.ncbi.nlm.ni...
PMID 14743216	View Gene Set	0.001883	132	0.03862	119	A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathway.	www.ncbi.nlm.ni...
PMID 9822659	View Gene Set	0.001859	11	0.03862	119	Characterization of cDNAs encoding the p44 and p35 subunits of human translation initiation factor eIF3.	www.ncbi.nlm.ni...
PMID 14567916	View Gene Set	0.001992	50	0.04026	124	Regulated release of L13a from the 60S ribosomal subunit as a mechanism of transcript-specific translational control.	www.ncbi.nlm.ni...
PMID 17466952	View Gene Set	0.002026	11	0.04064	125	Role of IKK and ERK pathways in intrinsic inflammation of cystic fibrosis airways.	www.ncbi.nlm.ni...
PMID 18701435	View Gene Set	0.002073	13	0.04125	126	Polygenic model of DNA repair genetic polymorphisms in human breast cancer risk.	www.ncbi.nlm.ni...
PMID 11714716	View Gene Set	0.002111	13	0.04168	127	Gemin5 a novel WD repeat protein component of the SMN complex that binds Sm proteins.	www.ncbi.nlm.ni...
PMID 12791985	View Gene Set	0.002354	37	0.04611	128	Sensing DNA damage through ATRIP recognition of RPA-ssDNA complexes.	www.ncbi.nlm.ni...
PMID 15142377	View Gene Set	0.002579	19	0.04973	129	Partner molecules of accessory protein Vpr of the human immunodeficiency virus type 1.	www.ncbi.nlm.ni...
PMID 20232390	View Gene Set	0.002562	15	0.04973	129	Genetic variations of DNA repair genes and their prognostic significance in patients with acute myeloid leukemia.	www.ncbi.nlm.ni...
PMID 17478428	View Gene Set	0.002611	10	0.04996	131	A proteomic analysis of ataxia telangiectasia-mutated (ATM)/ATM-Rad3-related (ATR) substrates identifies the ubiquitin-proteasome system as a regulator for DNA damage checkpoints.	www.ncbi.nlm.ni...

Gene Set Collection: Prosite

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Enzyme

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.BIND

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.BioGRID

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.HPRD

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.anyDB

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null PS50102	View Gene Set	4.845e-26	229	3.561e-23	1	RRM	expasy.org/pros...
Null PS50157	View Gene Set	2.428e-14	811	8.922e-12	2	ZINC_FINGER_C2H2_2	expasy.org/pros...
Null PS00028	View Gene Set	4.599e-14	830	1.127e-11	3	ZINC_FINGER_C2H2_1	expasy.org/pros...
Null PS50014	View Gene Set	5.691e-06	41	0.001046	4	BROMODOMAIN_2	expasy.org/pros...
Null PS50805	View Gene Set	9.315e-06	415	0.001369	5	KRAB	expasy.org/pros...
Null PS51192	View Gene Set	2.985e-05	112	0.003134	6	HELICASE_ATP_BIND_1	expasy.org/pros...
Null PS51194	View Gene Set	2.561e-05	113	0.003134	6	HELICASE_CTER	expasy.org/pros...
Null PS50051	View Gene Set	5.548e-05	8	0.005097	8	MCM_2	expasy.org/pros...
Null PS00847	View Gene Set	0.0001774	6	0.01336	9	MCM_1	expasy.org/pros...
Null PS51195	View Gene Set	0.0001817	37	0.01336	9	Q_MOTIF	expasy.org/pros...
Null PS50280	View Gene Set	0.0002326	47	0.01554	11	SET	expasy.org/pros...
Null PS50166	View Gene Set	0.0002737	13	0.01677	12	IMPORTIN_B_NT	expasy.org/pros...
Null PS00633	View Gene Set	0.0003091	26	0.01748	13	BROMODOMAIN_1	expasy.org/pros...
Null PS50868	View Gene Set	0.0003786	16	0.01987	14	POST_SET	expasy.org/pros...
Null PS50171	View Gene Set	0.0004769	9	0.02337	15	ZF_MATRIN	expasy.org/pros...
Null PS50800	View Gene Set	0.0005926	23	0.02722	16	SAP	expasy.org/pros...
Null PS50172	View Gene Set	0.001093	21	0.04727	17	BRCT	expasy.org/pros...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null EC:2.1.1.43	View Gene Set	3.561e-06	19	0.0005627	1	Histone-lysine N-methyltransferase	expasy.org/enzy...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.CFLAR	View Gene Set	9.483e-05	6	0.01792	1	Protein-protein-interaction for CFLAR	www.ncbi.nlm.ni...
Null ppi.1460853	View Gene Set	0.0003758	6	0.03551	2	Protein-protein-interaction for 1460853	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.155871	View Gene Set	7.147e-13	236	1.642e-09	1	Protein-protein-interaction for 155871	www.ncbi.nlm.ni...
Null ppi.MEPCE	View Gene Set	2.494e-12	147	2.865e-09	2	Protein-protein-interaction for MEPCE	www.ncbi.nlm.ni...
Null ppi.SRRM1	View Gene Set	3.808e-09	64	2.916e-06	3	Protein-protein-interaction for SRRM1	www.ncbi.nlm.ni...
Null ppi.WBP4	View Gene Set	6.715e-09	35	3.856e-06	4	Protein-protein-interaction for WBP4	www.ncbi.nlm.ni...
Null ppi.SRRM2	View Gene Set	9.842e-08	101	4.521e-05	5	Protein-protein-interaction for SRRM2	www.ncbi.nlm.ni...
Null ppi.HIST1H4A	View Gene Set	8.201e-07	28	0.000314	6	Protein-protein-interaction for HIST1H4A	www.ncbi.nlm.ni...
Null ppi.PRPF40A	View Gene Set	2.756e-06	53	0.0009044	7	Protein-protein-interaction for PRPF40A	www.ncbi.nlm.ni...
Null ppi.KHDRBS2	View Gene Set	4.273e-06	46	0.00109	8	Protein-protein-interaction for KHDRBS2	www.ncbi.nlm.ni...
Null ppi.UCHL5	View Gene Set	3.937e-06	33	0.00109	8	Protein-protein-interaction for UCHL5	www.ncbi.nlm.ni...
Null ppi.PSMD13	View Gene Set	1.1e-05	20	0.002526	10	Protein-protein-interaction for PSMD13	www.ncbi.nlm.ni...
Null ppi.72462	View Gene Set	1.514e-05	42	0.003161	11	Protein-protein-interaction for 72462	www.ncbi.nlm.ni...
Null ppi.PAAF1	View Gene Set	1.779e-05	20	0.003405	12	Protein-protein-interaction for PAAF1	www.ncbi.nlm.ni...
Null ppi.RNU12-2P	View Gene Set	2.539e-05	18	0.003713	13	Protein-protein-interaction for RNU12-2P	www.ncbi.nlm.ni...
Null ppi.RNU11	View Gene Set	2.539e-05	18	0.003713	13	Protein-protein-interaction for RNU11	www.ncbi.nlm.ni...
Null ppi.ING5	View Gene Set	2.586e-05	20	0.003713	13	Protein-protein-interaction for ING5	www.ncbi.nlm.ni...
Null ppi.USP14	View Gene Set	2.566e-05	22	0.003713	13	Protein-protein-interaction for USP14	www.ncbi.nlm.ni...
Null ppi.CHEK2	View Gene Set	3.372e-05	19	0.004303	17	Protein-protein-interaction for CHEK2	www.ncbi.nlm.ni...
Null ppi.CDC16	View Gene Set	3.356e-05	10	0.004303	17	Protein-protein-interaction for CDC16	www.ncbi.nlm.ni...
Null ppi.CDC7	View Gene Set	4.935e-05	7	0.005967	19	Protein-protein-interaction for CDC7	www.ncbi.nlm.ni...
Null ppi.CBX5	View Gene Set	6.739e-05	38	0.007739	20	Protein-protein-interaction for CBX5	www.ncbi.nlm.ni...
Null ppi.SF3B3	View Gene Set	8.011e-05	16	0.008762	21	Protein-protein-interaction for SF3B3	www.ncbi.nlm.ni...
Null ppi.PSMD10	View Gene Set	9.778e-05	14	0.01012	22	Protein-protein-interaction for PSMD10	www.ncbi.nlm.ni...
Null ppi.MCPH1	View Gene Set	0.0001013	17	0.01012	22	Protein-protein-interaction for MCPH1	www.ncbi.nlm.ni...
Null ppi.NUP153	View Gene Set	0.0001089	11	0.01043	24	Protein-protein-interaction for NUP153	www.ncbi.nlm.ni...
Null ppi.PSMD14	View Gene Set	0.0001497	16	0.01375	25	Protein-protein-interaction for PSMD14	www.ncbi.nlm.ni...
Null ppi.MIS12	View Gene Set	0.0001869	9	0.01651	26	Protein-protein-interaction for MIS12	www.ncbi.nlm.ni...
Null ppi.BCL7C	View Gene Set	0.0002002	11	0.01685	27	Protein-protein-interaction for BCL7C	www.ncbi.nlm.ni...
Null ppi.PSMD6	View Gene Set	0.0002054	21	0.01685	27	Protein-protein-interaction for PSMD6	www.ncbi.nlm.ni...
Null ppi.CTCF	View Gene Set	0.0002289	6	0.01753	29	Protein-protein-interaction for CTCF	www.ncbi.nlm.ni...
Null ppi.RNPS1	View Gene Set	0.0002242	38	0.01753	29	Protein-protein-interaction for RNPS1	www.ncbi.nlm.ni...
Null ppi.ZEB1	View Gene Set	0.0002413	6	0.01788	31	Protein-protein-interaction for ZEB1	www.ncbi.nlm.ni...
Null ppi.HSPA8	View Gene Set	0.0003313	21	0.02378	32	Protein-protein-interaction for HSPA8	www.ncbi.nlm.ni...
Null ppi.855836	View Gene Set	0.0003682	8	0.02487	33	Protein-protein-interaction for 855836	www.ncbi.nlm.ni...
Null ppi.PRPF4	View Gene Set	0.0003612	11	0.02487	33	Protein-protein-interaction for PRPF4	www.ncbi.nlm.ni...
Null ppi.ANAPC7	View Gene Set	0.0003791	12	0.02488	35	Protein-protein-interaction for ANAPC7	www.ncbi.nlm.ni...
Null ppi.SSRP1	View Gene Set	0.0004056	15	0.02588	36	Protein-protein-interaction for SSRP1	www.ncbi.nlm.ni...
Null ppi.DCUN1D1	View Gene Set	0.0004321	8	0.02683	37	Protein-protein-interaction for DCUN1D1	www.ncbi.nlm.ni...
Null ppi.ORC2L	View Gene Set	0.0005111	12	0.03089	38	Protein-protein-interaction for ORC2L	www.ncbi.nlm.ni...
Null ppi.CDT1	View Gene Set	0.0005519	37	0.03251	39	Protein-protein-interaction for CDT1	www.ncbi.nlm.ni...
Null ppi.TCEAL1	View Gene Set	0.000627	10	0.03601	40	Protein-protein-interaction for TCEAL1	www.ncbi.nlm.ni...
Null ppi.PRPF19	View Gene Set	0.000644	9	0.03608	41	Protein-protein-interaction for PRPF19	www.ncbi.nlm.ni...
Null ppi.KLF1	View Gene Set	0.0006871	13	0.0367	42	Protein-protein-interaction for KLF1	www.ncbi.nlm.ni...
Null ppi.RPA1	View Gene Set	0.0006778	23	0.0367	42	Protein-protein-interaction for RPA1	www.ncbi.nlm.ni...
Null ppi.CDCA5	View Gene Set	0.0007292	6	0.03764	44	Protein-protein-interaction for CDCA5	www.ncbi.nlm.ni...
Null ppi.DSN1	View Gene Set	0.0007375	8	0.03764	44	Protein-protein-interaction for DSN1	www.ncbi.nlm.ni...
Null ppi.XPO5	View Gene Set	0.0007826	11	0.03901	46	Protein-protein-interaction for XPO5	www.ncbi.nlm.ni...
Null ppi.TAF10	View Gene Set	0.0007982	27	0.03901	46	Protein-protein-interaction for TAF10	www.ncbi.nlm.ni...
Null ppi.ANAPC1	View Gene Set	0.0008247	15	0.03947	48	Protein-protein-interaction for ANAPC1	www.ncbi.nlm.ni...
Null ppi.CBX3	View Gene Set	0.0008535	23	0.03989	49	Protein-protein-interaction for CBX3	www.ncbi.nlm.ni...
Null ppi.24831	View Gene Set	0.0008683	11	0.03989	49	Protein-protein-interaction for 24831	www.ncbi.nlm.ni...
Null ppi.PSMD7	View Gene Set	0.0009243	12	0.04006	51	Protein-protein-interaction for PSMD7	www.ncbi.nlm.ni...
Null ppi.TAF12	View Gene Set	0.000902	10	0.04006	51	Protein-protein-interaction for TAF12	www.ncbi.nlm.ni...
Null ppi.SEH1L	View Gene Set	0.0009182	6	0.04006	51	Protein-protein-interaction for SEH1L	www.ncbi.nlm.ni...
Null ppi.USP39	View Gene Set	0.001052	15	0.04396	54	Protein-protein-interaction for USP39	www.ncbi.nlm.ni...
Null ppi.BRCC3	View Gene Set	0.001053	22	0.04396	54	Protein-protein-interaction for BRCC3	www.ncbi.nlm.ni...
Null ppi.TCERG1	View Gene Set	0.001184	35	0.04599	56	Protein-protein-interaction for TCERG1	www.ncbi.nlm.ni...
Null ppi.USP12	View Gene Set	0.001199	15	0.04599	56	Protein-protein-interaction for USP12	www.ncbi.nlm.ni...
Null ppi.LSM1	View Gene Set	0.001201	13	0.04599	56	Protein-protein-interaction for LSM1	www.ncbi.nlm.ni...
Null ppi.KPNA2	View Gene Set	0.001157	14	0.04599	56	Protein-protein-interaction for KPNA2	www.ncbi.nlm.ni...
Null ppi.ATG4C	View Gene Set	0.001154	10	0.04599	56	Protein-protein-interaction for ATG4C	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.SFRS12	View Gene Set	2.6e-08	49	6.171e-05	1	Protein-protein-interaction for SFRS12	www.ncbi.nlm.ni...
Null ppi.PRPF40A	View Gene Set	1.262e-05	55	0.01498	2	Protein-protein-interaction for PRPF40A	www.ncbi.nlm.ni...
Null ppi.SF3B1	View Gene Set	4.426e-05	9	0.02884	3	Protein-protein-interaction for SF3B1	www.ncbi.nlm.ni...
Null ppi.TAF11	View Gene Set	6.074e-05	12	0.02884	3	Protein-protein-interaction for TAF11	www.ncbi.nlm.ni...
Null ppi.CDC16	View Gene Set	5.844e-05	10	0.02884	3	Protein-protein-interaction for CDC16	www.ncbi.nlm.ni...
Null ppi.NAA38	View Gene Set	7.567e-05	20	0.02981	6	Protein-protein-interaction for NAA38	www.ncbi.nlm.ni...
Null ppi.RAN	View Gene Set	8.789e-05	14	0.02981	6	Protein-protein-interaction for RAN	www.ncbi.nlm.ni...
Null ppi.ECSIT	View Gene Set	0.000131	7	0.03455	8	Protein-protein-interaction for ECSIT	www.ncbi.nlm.ni...
Null ppi.XPO5	View Gene Set	0.0001271	9	0.03455	8	Protein-protein-interaction for XPO5	www.ncbi.nlm.ni...
Null ppi.NUP50	View Gene Set	0.0001863	6	0.03697	10	Protein-protein-interaction for NUP50	www.ncbi.nlm.ni...
Null ppi.DBF4	View Gene Set	0.0001869	8	0.03697	10	Protein-protein-interaction for DBF4	www.ncbi.nlm.ni...
Null ppi.COMMD1	View Gene Set	0.0001585	14	0.03697	10	Protein-protein-interaction for COMMD1	www.ncbi.nlm.ni...
Null ppi.TAF10	View Gene Set	0.0002109	13	0.03851	13	Protein-protein-interaction for TAF10	www.ncbi.nlm.ni...
Null ppi.PARP2	View Gene Set	0.0002803	7	0.03919	14	Protein-protein-interaction for PARP2	www.ncbi.nlm.ni...
Null ppi.RAD51	View Gene Set	0.0002827	14	0.03919	14	Protein-protein-interaction for RAD51	www.ncbi.nlm.ni...
Null ppi.RFX1	View Gene Set	0.0003136	11	0.03919	14	Protein-protein-interaction for RFX1	www.ncbi.nlm.ni...
Null ppi.ZEB1	View Gene Set	0.0002976	6	0.03919	14	Protein-protein-interaction for ZEB1	www.ncbi.nlm.ni...
Null ppi.MDC1	View Gene Set	0.0002927	11	0.03919	14	Protein-protein-interaction for MDC1	www.ncbi.nlm.ni...
Null ppi.TGS1	View Gene Set	0.0002429	6	0.03919	14	Protein-protein-interaction for TGS1	www.ncbi.nlm.ni...
Null ppi.ANAPC10	View Gene Set	0.0003633	8	0.03945	20	Protein-protein-interaction for ANAPC10	www.ncbi.nlm.ni...
Null ppi.SCRIB	View Gene Set	0.0003804	7	0.03945	20	Protein-protein-interaction for SCRIB	www.ncbi.nlm.ni...
Null ppi.SCAND1	View Gene Set	0.0003557	8	0.03945	20	Protein-protein-interaction for SCAND1	www.ncbi.nlm.ni...
Null ppi.XRN1	View Gene Set	0.0003988	24	0.03945	20	Protein-protein-interaction for XRN1	www.ncbi.nlm.ni...
Null ppi.MED9	View Gene Set	0.0003935	19	0.03945	20	Protein-protein-interaction for MED9	www.ncbi.nlm.ni...
Null ppi.MIS12	View Gene Set	0.0004491	8	0.04264	25	Protein-protein-interaction for MIS12	www.ncbi.nlm.ni...
Null ppi.TAF1	View Gene Set	0.000537	16	0.04904	26	Protein-protein-interaction for TAF1	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.155871	View Gene Set	2.416e-13	251	8.682e-10	1	Protein-protein-interaction for 155871	www.ncbi.nlm.ni...
Null ppi.MEPCE	View Gene Set	2.494e-12	147	4.482e-09	2	Protein-protein-interaction for MEPCE	www.ncbi.nlm.ni...
Null ppi.SRRM1	View Gene Set	8.134e-09	66	5.846e-06	3	Protein-protein-interaction for SRRM1	www.ncbi.nlm.ni...
Null ppi.WBP4	View Gene Set	6.715e-09	35	5.846e-06	3	Protein-protein-interaction for WBP4	www.ncbi.nlm.ni...
Null ppi.PRPF40A	View Gene Set	8.128e-09	96	5.846e-06	3	Protein-protein-interaction for PRPF40A	www.ncbi.nlm.ni...
Null ppi.SFRS12	View Gene Set	1.498e-08	50	8.976e-06	6	Protein-protein-interaction for SFRS12	www.ncbi.nlm.ni...
Null ppi.SRRM2	View Gene Set	9.842e-08	101	5.053e-05	7	Protein-protein-interaction for SRRM2	www.ncbi.nlm.ni...
Null ppi.HIST1H4A	View Gene Set	9.565e-07	31	0.0004297	8	Protein-protein-interaction for HIST1H4A	www.ncbi.nlm.ni...
Null ppi.UCHL5	View Gene Set	3.758e-06	34	0.001501	9	Protein-protein-interaction for UCHL5	www.ncbi.nlm.ni...
Null ppi.KHDRBS2	View Gene Set	7.949e-06	48	0.002857	10	Protein-protein-interaction for KHDRBS2	www.ncbi.nlm.ni...
Null ppi.CDC16	View Gene Set	9.105e-06	14	0.002975	11	Protein-protein-interaction for CDC16	www.ncbi.nlm.ni...
Null ppi.PSMD13	View Gene Set	1.1e-05	20	0.003293	12	Protein-protein-interaction for PSMD13	www.ncbi.nlm.ni...
Null ppi.TAF11	View Gene Set	1.248e-05	19	0.00345	13	Protein-protein-interaction for TAF11	www.ncbi.nlm.ni...
Null ppi.72462	View Gene Set	1.514e-05	42	0.003886	14	Protein-protein-interaction for 72462	www.ncbi.nlm.ni...
Null ppi.PAAF1	View Gene Set	1.779e-05	20	0.004262	15	Protein-protein-interaction for PAAF1	www.ncbi.nlm.ni...
Null ppi.RNU12-2P	View Gene Set	2.539e-05	18	0.005123	16	Protein-protein-interaction for RNU12-2P	www.ncbi.nlm.ni...
Null ppi.RNU11	View Gene Set	2.539e-05	18	0.005123	16	Protein-protein-interaction for RNU11	www.ncbi.nlm.ni...
Null ppi.USP14	View Gene Set	2.566e-05	22	0.005123	16	Protein-protein-interaction for USP14	www.ncbi.nlm.ni...
Null ppi.RAN	View Gene Set	3.749e-05	15	0.007092	19	Protein-protein-interaction for RAN	www.ncbi.nlm.ni...
Null ppi.NUP153	View Gene Set	4.833e-05	16	0.008686	20	Protein-protein-interaction for NUP153	www.ncbi.nlm.ni...
Null ppi.SSRP1	View Gene Set	5.321e-05	21	0.009106	21	Protein-protein-interaction for SSRP1	www.ncbi.nlm.ni...
Null ppi.SF3B1	View Gene Set	8.75e-05	31	0.01258	22	Protein-protein-interaction for SF3B1	www.ncbi.nlm.ni...
Null ppi.CBX5	View Gene Set	8.137e-05	46	0.01258	22	Protein-protein-interaction for CBX5	www.ncbi.nlm.ni...
Null ppi.PSMD10	View Gene Set	7.739e-05	16	0.01258	22	Protein-protein-interaction for PSMD10	www.ncbi.nlm.ni...
Null ppi.XPO5	View Gene Set	8.726e-05	14	0.01258	22	Protein-protein-interaction for XPO5	www.ncbi.nlm.ni...
Null ppi.COMMD1	View Gene Set	0.0001023	15	0.01347	26	Protein-protein-interaction for COMMD1	www.ncbi.nlm.ni...
Null ppi.PBRM1	View Gene Set	0.0001049	7	0.01347	26	Protein-protein-interaction for PBRM1	www.ncbi.nlm.ni...
Null ppi.MCPH1	View Gene Set	0.0001013	17	0.01347	26	Protein-protein-interaction for MCPH1	www.ncbi.nlm.ni...
Null ppi.SF3B3	View Gene Set	0.000112	19	0.01387	29	Protein-protein-interaction for SF3B3	www.ncbi.nlm.ni...
Null ppi.PSMD14	View Gene Set	0.0001497	16	0.01793	30	Protein-protein-interaction for PSMD14	www.ncbi.nlm.ni...
Null ppi.TPX2	View Gene Set	0.0001649	5	0.01874	31	Protein-protein-interaction for TPX2	www.ncbi.nlm.ni...
Null ppi.NAA38	View Gene Set	0.0001669	28	0.01874	31	Protein-protein-interaction for NAA38	www.ncbi.nlm.ni...
Null ppi.XRN1	View Gene Set	0.0001804	25	0.01919	33	Protein-protein-interaction for XRN1	www.ncbi.nlm.ni...
Null ppi.MIS12	View Gene Set	0.0001869	9	0.01919	33	Protein-protein-interaction for MIS12	www.ncbi.nlm.ni...
Null ppi.CDT1	View Gene Set	0.0001849	42	0.01919	33	Protein-protein-interaction for CDT1	www.ncbi.nlm.ni...
Null ppi.BCL7C	View Gene Set	0.0002002	11	0.01999	36	Protein-protein-interaction for BCL7C	www.ncbi.nlm.ni...
Null ppi.ANAPC10	View Gene Set	0.0002268	11	0.02145	37	Protein-protein-interaction for ANAPC10	www.ncbi.nlm.ni...
Null ppi.ANAPC7	View Gene Set	0.0002253	15	0.02145	37	Protein-protein-interaction for ANAPC7	www.ncbi.nlm.ni...
Null ppi.CHEK2	View Gene Set	0.0002464	33	0.02265	39	Protein-protein-interaction for CHEK2	www.ncbi.nlm.ni...
Null ppi.MDC1	View Gene Set	0.0002521	24	0.02265	39	Protein-protein-interaction for MDC1	www.ncbi.nlm.ni...
Null ppi.1460853	View Gene Set	0.0003758	6	0.03216	41	Protein-protein-interaction for 1460853	www.ncbi.nlm.ni...
Null ppi.855836	View Gene Set	0.0003682	8	0.03216	41	Protein-protein-interaction for 855836	www.ncbi.nlm.ni...
Null ppi.TAF12	View Gene Set	0.000393	16	0.03285	43	Protein-protein-interaction for TAF12	www.ncbi.nlm.ni...
Null ppi.ECSIT	View Gene Set	0.0004068	8	0.03323	44	Protein-protein-interaction for ECSIT	www.ncbi.nlm.ni...
Null ppi.TGS1	View Gene Set	0.0004269	8	0.0341	45	Protein-protein-interaction for TGS1	www.ncbi.nlm.ni...
Null ppi.PSMD7	View Gene Set	0.0004502	13	0.03517	46	Protein-protein-interaction for PSMD7	www.ncbi.nlm.ni...
Null ppi.ORC1L	View Gene Set	0.0005443	11	0.04162	47	Protein-protein-interaction for ORC1L	www.ncbi.nlm.ni...
Null ppi.CTCF	View Gene Set	0.0005913	11	0.04419	48	Protein-protein-interaction for CTCF	www.ncbi.nlm.ni...
Null ppi.SF3A3	View Gene Set	0.000646	8	0.04419	48	Protein-protein-interaction for SF3A3	www.ncbi.nlm.ni...
Null ppi.CDCA5	View Gene Set	0.0007292	6	0.04419	48	Protein-protein-interaction for CDCA5	www.ncbi.nlm.ni...
Null ppi.TAF8	View Gene Set	0.0007378	14	0.04419	48	Protein-protein-interaction for TAF8	www.ncbi.nlm.ni...
Null ppi.PRPF19	View Gene Set	0.000644	9	0.04419	48	Protein-protein-interaction for PRPF19	www.ncbi.nlm.ni...
Null ppi.LSM2	View Gene Set	0.0006848	26	0.04419	48	Protein-protein-interaction for LSM2	www.ncbi.nlm.ni...
Null ppi.UPF1	View Gene Set	0.0006399	8	0.04419	48	Protein-protein-interaction for UPF1	www.ncbi.nlm.ni...
Null ppi.SNRPA	View Gene Set	0.000659	6	0.04419	48	Protein-protein-interaction for SNRPA	www.ncbi.nlm.ni...
Null ppi.ZEB1	View Gene Set	0.0006924	8	0.04419	48	Protein-protein-interaction for ZEB1	www.ncbi.nlm.ni...
Null ppi.YY1	View Gene Set	0.0007065	39	0.04419	48	Protein-protein-interaction for YY1	www.ncbi.nlm.ni...
Null ppi.USP7	View Gene Set	0.0006841	32	0.04419	48	Protein-protein-interaction for USP7	www.ncbi.nlm.ni...
Null ppi.DSN1	View Gene Set	0.0007375	8	0.04419	48	Protein-protein-interaction for DSN1	www.ncbi.nlm.ni...
Null ppi.PSMD6	View Gene Set	0.0006657	23	0.04419	48	Protein-protein-interaction for PSMD6	www.ncbi.nlm.ni...
Null ppi.NUP50	View Gene Set	0.0008792	8	0.04755	61	Protein-protein-interaction for NUP50	www.ncbi.nlm.ni...
Null ppi.SF3B2	View Gene Set	0.0009057	12	0.04755	61	Protein-protein-interaction for SF3B2	www.ncbi.nlm.ni...
Null ppi.24831	View Gene Set	0.0008683	11	0.04755	61	Protein-protein-interaction for 24831	www.ncbi.nlm.ni...
Null ppi.LSM1	View Gene Set	0.0008073	18	0.04755	61	Protein-protein-interaction for LSM1	www.ncbi.nlm.ni...
Null ppi.CPSF1	View Gene Set	0.0009151	14	0.04755	61	Protein-protein-interaction for CPSF1	www.ncbi.nlm.ni...
Null ppi.COPS7A	View Gene Set	0.0008446	19	0.04755	61	Protein-protein-interaction for COPS7A	www.ncbi.nlm.ni...
Null ppi.NXF3	View Gene Set	0.0009262	6	0.04755	61	Protein-protein-interaction for NXF3	www.ncbi.nlm.ni...
Null ppi.ANAPC1	View Gene Set	0.0008247	15	0.04755	61	Protein-protein-interaction for ANAPC1	www.ncbi.nlm.ni...
Null ppi.CDK5RAP3	View Gene Set	0.0008599	14	0.04755	61	Protein-protein-interaction for CDK5RAP3	www.ncbi.nlm.ni...
Null ppi.SEH1L	View Gene Set	0.0009182	6	0.04755	61	Protein-protein-interaction for SEH1L	www.ncbi.nlm.ni...
Null ppi.ING5	View Gene Set	0.0009397	25	0.04757	71	Protein-protein-interaction for ING5	www.ncbi.nlm.ni...
Null ppi.TXNRD2	View Gene Set	0.0009596	6	0.0479	72	Protein-protein-interaction for TXNRD2	www.ncbi.nlm.ni...
Null ppi.EAPP	View Gene Set	0.001063	6	0.0491	73	Protein-protein-interaction for EAPP	www.ncbi.nlm.ni...
Null ppi.PTMA	View Gene Set	0.001034	21	0.0491	73	Protein-protein-interaction for PTMA	www.ncbi.nlm.ni...
Null ppi.TAF10	View Gene Set	0.001066	29	0.0491	73	Protein-protein-interaction for TAF10	www.ncbi.nlm.ni...
Null ppi.BRCC3	View Gene Set	0.001053	22	0.0491	73	Protein-protein-interaction for BRCC3	www.ncbi.nlm.ni...
Null ppi.PRPF4	View Gene Set	0.001008	12	0.0491	73	Protein-protein-interaction for PRPF4	www.ncbi.nlm.ni...
Null ppi.SRSF2IP	View Gene Set	0.001063	8	0.0491	73	Protein-protein-interaction for SRSF2IP	www.ncbi.nlm.ni...
Null ppi.ZNF8	View Gene Set	0.001092	6	0.04969	79	Protein-protein-interaction for ZNF8	www.ncbi.nlm.ni...

Gene Set Collection: pathwayCommons.cell-map

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: pathwayCommons.nci-nature

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: pathwayCommons.reactome

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null TNF alpha/NF-kB	View Gene Set	0.00105	170	0.0105	1	CELL_MAP - TNF alpha/NF-kB gene set	www.pathwaycomm...
Null AndrogenReceptor	View Gene Set	0.00276	78	0.0138	2	CELL_MAP - AndrogenReceptor gene set	www.pathwaycomm...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null Aurora B signaling	View Gene Set	1.499e-05	41	0.002787	1	NCI_NATURE - Aurora B signaling gene set	www.pathwaycomm...
Null Validated targets of C-MYC transcriptional activation	View Gene Set	0.0001888	80	0.0117	2	NCI_NATURE - Validated targets of C-MYC transcriptional activation gene set	www.pathwaycomm...
Null PLK1 signaling events	View Gene Set	0.0001511	104	0.0117	2	NCI_NATURE - PLK1 signaling events gene set	www.pathwaycomm...
Null Signaling by Aurora kinases	View Gene Set	0.0002879	98	0.01339	4	NCI_NATURE - Signaling by Aurora kinases gene set	www.pathwaycomm...
Null Polo-like kinase signaling events in the cell cycle	View Gene Set	0.000464	109	0.01726	5	NCI_NATURE - Polo-like kinase signaling events in the cell cycle gene set	www.pathwaycomm...
Null BARD1 signaling events	View Gene Set	0.0009672	29	0.02998	6	NCI_NATURE - BARD1 signaling events gene set	www.pathwaycomm...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null Gene Expression	View Gene Set	1.158e-18	381	1.294e-15	1	REACTOME - Gene Expression gene set	www.pathwaycomm...
Null DNA Replication	View Gene Set	3.228e-16	200	1.803e-13	2	REACTOME - DNA Replication gene set	www.pathwaycomm...
Null Mitotic M-M/G1 phases	View Gene Set	1.047e-15	180	3.897e-13	3	REACTOME - Mitotic M-M/G1 phases gene set	www.pathwaycomm...
Null Processing of Capped Intron-Containing Pre-mRNA	View Gene Set	4.355e-15	138	1.216e-12	4	REACTOME - Processing of Capped Intron-Containing Pre-mRNA gene set	www.pathwaycomm...
Null mRNA Splicing - Major Pathway	View Gene Set	1.826e-14	107	3.4e-12	5	REACTOME - mRNA Splicing - Major Pathway gene set	www.pathwaycomm...
Null mRNA Splicing	View Gene Set	1.826e-14	107	3.4e-12	5	REACTOME - mRNA Splicing gene set	www.pathwaycomm...
Null Formation and Maturation of mRNA Transcript	View Gene Set	4.243e-14	185	6.618e-12	7	REACTOME - Formation and Maturation of mRNA Transcript gene set	www.pathwaycomm...
Null Cell Cycle Mitotic	View Gene Set	4.74e-14	312	6.618e-12	7	REACTOME - Cell Cycle Mitotic gene set	www.pathwaycomm... Mitotic&format=...
Null mRNA Processing	View Gene Set	3.802e-13	158	4.719e-11	9	REACTOME - mRNA Processing gene set	www.pathwaycomm...
Null M Phase	View Gene Set	1.111e-11	90	1.241e-09	10	REACTOME - M Phase gene set	www.pathwaycomm...
Null Mitotic Prometaphase	View Gene Set	1.474e-10	86	1.497e-08	11	REACTOME - Mitotic Prometaphase gene set	www.pathwaycomm...
Null Metabolism of RNA	View Gene Set	1.856e-10	174	1.728e-08	12	REACTOME - Metabolism of RNA gene set	www.pathwaycomm...
Null Cell Cycle Checkpoints	View Gene Set	2.794e-09	124	2.401e-07	13	REACTOME - Cell Cycle Checkpoints gene set	www.pathwaycomm...
Null Activation of APC/C and APC/C:Cdc20 mediated degradation of mitotic proteins	View Gene Set	1.819e-08	86	1.451e-06	14	REACTOME - Activation of APC/C and APC/C:Cdc20 mediated degradation of mitotic proteins gene set	www.pathwaycomm...
Null Regulation of mitotic cell cycle	View Gene Set	2.533e-08	95	1.768e-06	15	REACTOME - Regulation of mitotic cell cycle gene set	www.pathwaycomm...
Null APC/C-mediated degradation of cell cycle proteins	View Gene Set	2.533e-08	95	1.768e-06	15	REACTOME - APC/C-mediated degradation of cell cycle proteins gene set	www.pathwaycomm...
Null Post-Elongation Processing of the Transcript	View Gene Set	3.236e-08	43	1.902e-06	17	REACTOME - Post-Elongation Processing of the Transcript gene set	www.pathwaycomm...
Null Cleavage of Growing Transcript in the Termination Region	View Gene Set	3.236e-08	43	1.902e-06	17	REACTOME - Cleavage of Growing Transcript in the Termination Region gene set	www.pathwaycomm...
Null RNA Polymerase II Transcription Termination	View Gene Set	3.236e-08	43	1.902e-06	17	REACTOME - RNA Polymerase II Transcription Termination gene set	www.pathwaycomm...
Null Regulation of APC/C activators between G1/S and early anaphase	View Gene Set	7.832e-08	88	4.374e-06	20	REACTOME - Regulation of APC/C activators between G1/S and early anaphase gene set	www.pathwaycomm...
Null Post-Elongation Processing of Intron-Containing pre-mRNA	View Gene Set	9.944e-08	34	5.049e-06	21	REACTOME - Post-Elongation Processing of Intron-Containing pre-mRNA gene set	www.pathwaycomm...
Null mRNA 3'-end processing	View Gene Set	9.944e-08	34	5.049e-06	21	REACTOME - mRNA 3'-end processing gene set	www.pathwaycomm...
Null Transport of Mature mRNA derived from an Intron-Containing Transcript	View Gene Set	3.353e-07	51	1.628e-05	23	REACTOME - Transport of Mature mRNA derived from an Intron-Containing Transcript gene set	www.pathwaycomm...
Null Metabolism of mRNA	View Gene Set	4.473e-07	125	2.082e-05	24	REACTOME - Metabolism of mRNA gene set	www.pathwaycomm...
Null Transcription	View Gene Set	5.729e-07	178	2.56e-05	25	REACTOME - Transcription gene set	www.pathwaycomm...
Null Phosphorylation of the APC/C	View Gene Set	1.072e-06	26	4.604e-05	26	REACTOME - Phosphorylation of the APC/C gene set	www.pathwaycomm...
Null APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1	View Gene Set	1.718e-06	77	6.862e-05	27	REACTOME - APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1 gene set	www.pathwaycomm...
Null Deadenylation-dependent mRNA decay	View Gene Set	1.72e-06	46	6.862e-05	27	REACTOME - Deadenylation-dependent mRNA decay gene set	www.pathwaycomm...
Null DNA Replication Pre-Initiation	View Gene Set	2.4e-06	90	8.936e-05	29	REACTOME - DNA Replication Pre-Initiation gene set	www.pathwaycomm...
Null M/G1 Transition	View Gene Set	2.4e-06	90	8.936e-05	29	REACTOME - M/G1 Transition gene set	www.pathwaycomm...
Null Transport of Mature Transcript to Cytoplasm	View Gene Set	2.91e-06	55	0.0001016	31	REACTOME - Transport of Mature Transcript to Cytoplasm gene set	www.pathwaycomm...
Null Cdc20:Phospho-APC/C mediated degradation of Cyclin A	View Gene Set	2.826e-06	75	0.0001016	31	REACTOME - Cdc20:Phospho-APC/C mediated degradation of Cyclin A gene set	www.pathwaycomm...
Null APC/C:Cdc20 mediated degradation of mitotic proteins	View Gene Set	3.124e-06	77	0.0001057	33	REACTOME - APC/C:Cdc20 mediated degradation of mitotic proteins gene set	www.pathwaycomm...
Null G1/S Transition	View Gene Set	3.247e-06	104	0.0001067	34	REACTOME - G1/S Transition gene set	www.pathwaycomm...
Null Deadenylation of mRNA	View Gene Set	5.586e-06	22	0.0001783	35	REACTOME - Deadenylation of mRNA gene set	www.pathwaycomm...
Null Autodegradation of Cdh1 by Cdh1:APC/C	View Gene Set	6.407e-06	67	0.0001988	36	REACTOME - Autodegradation of Cdh1 by Cdh1:APC/C gene set	www.pathwaycomm...
Null Mitotic G1-G1/S phases	View Gene Set	1.063e-05	113	0.0003209	37	REACTOME - Mitotic G1-G1/S phases gene set	www.pathwaycomm...
Null Phosphorylation of Emi1	View Gene Set	1.143e-05	12	0.000336	38	REACTOME - Phosphorylation of Emi1 gene set	www.pathwaycomm...
Null Assembly of the pre-replicative complex	View Gene Set	1.552e-05	75	0.0004334	39	REACTOME - Assembly of the pre-replicative complex gene set	www.pathwaycomm...
Null S Phase	View Gene Set	1.544e-05	113	0.0004334	39	REACTOME - S Phase gene set	www.pathwaycomm...
Null HIV Infection	View Gene Set	1.613e-05	194	0.0004396	41	REACTOME - HIV Infection gene set	www.pathwaycomm...
Null Synthesis of DNA	View Gene Set	1.677e-05	102	0.0004461	42	REACTOME - Synthesis of DNA gene set	www.pathwaycomm...
Null Host Interactions of HIV factors	View Gene Set	1.791e-05	132	0.0004653	43	REACTOME - Host Interactions of HIV factors gene set	www.pathwaycomm...
Null snRNP Assembly	View Gene Set	1.921e-05	50	0.0004767	44	REACTOME - snRNP Assembly gene set	www.pathwaycomm...
Null Metabolism of non-coding RNA	View Gene Set	1.921e-05	50	0.0004767	44	REACTOME - Metabolism of non-coding RNA gene set	www.pathwaycomm...
Null RNA Polymerase II Transcription	View Gene Set	2.024e-05	101	0.0004915	46	REACTOME - RNA Polymerase II Transcription gene set	www.pathwaycomm...
Null p53-Independent G1/S DNA damage checkpoint	View Gene Set	2.574e-05	62	0.000599	47	REACTOME - p53-Independent G1/S DNA damage checkpoint gene set	www.pathwaycomm...
Null p53-Independent DNA Damage Response	View Gene Set	2.574e-05	62	0.000599	47	REACTOME - p53-Independent DNA Damage Response gene set	www.pathwaycomm...
Null G1/S DNA Damage Checkpoints	View Gene Set	3.018e-05	68	0.0006742	49	REACTOME - G1/S DNA Damage Checkpoints gene set	www.pathwaycomm...
Null Regulation of DNA replication	View Gene Set	2.995e-05	81	0.0006742	49	REACTOME - Regulation of DNA replication gene set	www.pathwaycomm...
Null APC/C:Cdc20 mediated degradation of Securin	View Gene Set	4.67e-05	72	0.001023	51	REACTOME - APC/C:Cdc20 mediated degradation of Securin gene set	www.pathwaycomm...
Null Ubiquitin Mediated Degradation of Phosphorylated Cdc25A	View Gene Set	5.317e-05	61	0.001138	52	REACTOME - Ubiquitin Mediated Degradation of Phosphorylated Cdc25A gene set	www.pathwaycomm...
Null Mitotic Telophase /Cytokinesis	View Gene Set	5.398e-05	10	0.001138	52	REACTOME - Mitotic Telophase /Cytokinesis gene set	www.pathwaycomm...
Null Removal of licensing factors from origins	View Gene Set	7.699e-05	78	0.001593	54	REACTOME - Removal of licensing factors from origins gene set	www.pathwaycomm...
Null Vif-mediated degradation of APOBEC3G	View Gene Set	9.82e-05	61	0.00199	55	REACTOME - Vif-mediated degradation of APOBEC3G gene set	www.pathwaycomm...
Null G2/M Checkpoints	View Gene Set	9.979e-05	43	0.00199	55	REACTOME - G2/M Checkpoints gene set	www.pathwaycomm...
Null Ubiquitin-dependent degradation of Cyclin D1	View Gene Set	0.0001104	59	0.002126	57	REACTOME - Ubiquitin-dependent degradation of Cyclin D1 gene set	www.pathwaycomm...
Null Ubiquitin-dependent degradation of Cyclin D	View Gene Set	0.0001104	59	0.002126	57	REACTOME - Ubiquitin-dependent degradation of Cyclin D gene set	www.pathwaycomm...
Null Polo-like kinase mediated events	View Gene Set	0.0001163	10	0.002203	59	REACTOME - Polo-like kinase mediated events gene set	www.pathwaycomm...
Null Interactions of Rev with host cellular proteins	View Gene Set	0.0001302	33	0.002384	60	REACTOME - Interactions of Rev with host cellular proteins gene set	www.pathwaycomm...
Null Stabilization of p53	View Gene Set	0.0001295	61	0.002384	60	REACTOME - Stabilization of p53 gene set	www.pathwaycomm...
Null Influenza Infection	View Gene Set	0.0001506	143	0.002714	62	REACTOME - Influenza Infection gene set	www.pathwaycomm...
Null SCF(Skp2)-mediated degradation of p27/p21	View Gene Set	0.0001691	52	0.002998	63	REACTOME - SCF(Skp2)-mediated degradation of p27/p21 gene set	www.pathwaycomm...
Null Autodegradation of the E3 ubiquitin ligase COP1	View Gene Set	0.0001934	60	0.003376	64	REACTOME - Autodegradation of the E3 ubiquitin ligase COP1 gene set	www.pathwaycomm...
Null Switching of origins to a post-replicative state	View Gene Set	0.0002004	76	0.003392	65	REACTOME - Switching of origins to a post-replicative state gene set	www.pathwaycomm...
Null Orc1 removal from chromatin	View Gene Set	0.0002004	76	0.003392	65	REACTOME - Orc1 removal from chromatin gene set	www.pathwaycomm...
Null Mitotic Metaphase/Anaphase Transition	View Gene Set	0.0002199	8	0.003667	67	REACTOME - Mitotic Metaphase/Anaphase Transition gene set	www.pathwaycomm...
Null Pyrimidine biosynthesis	View Gene Set	0.0002975	6	0.004886	68	REACTOME - Pyrimidine biosynthesis gene set	www.pathwaycomm...
Null G2/M DNA damage checkpoint	View Gene Set	0.0003093	29	0.004981	69	REACTOME - G2/M DNA damage checkpoint gene set	www.pathwaycomm...
Null p53-Dependent G1/S DNA damage checkpoint	View Gene Set	0.0003166	64	0.004981	69	REACTOME - p53-Dependent G1/S DNA damage checkpoint gene set	www.pathwaycomm...
Null p53-Dependent G1 DNA Damage Response	View Gene Set	0.0003166	64	0.004981	69	REACTOME - p53-Dependent G1 DNA Damage Response gene set	www.pathwaycomm...
Null Regulation of activated PAK-2p34 by proteasome mediated degradation	View Gene Set	0.0003466	57	0.005151	72	REACTOME - Regulation of activated PAK-2p34 by proteasome mediated degradation gene set	www.pathwaycomm...
Null Rev-mediated nuclear export of HIV-1 RNA	View Gene Set	0.000334	32	0.005151	72	REACTOME - Rev-mediated nuclear export of HIV-1 RNA gene set	www.pathwaycomm...
Null Inhibition of the proteolytic activity of APC/C required for the onset of anaphase by mitotic spindle checkpoint components	View Gene Set	0.0003451	18	0.005151	72	REACTOME - Inhibition of the proteolytic activity of APC/C required for the onset of anaphase by mitotic spindle checkpoint components gene set	www.pathwaycomm...
Null Inactivation of APC/C via direct inhibition of the APC/C complex	View Gene Set	0.0003451	18	0.005151	72	REACTOME - Inactivation of APC/C via direct inhibition of the APC/C complex gene set	www.pathwaycomm...
Null DNA strand elongation	View Gene Set	0.0003505	31	0.005151	72	REACTOME - DNA strand elongation gene set	www.pathwaycomm...
Null Degradation of beta-catenin by the destruction complex	View Gene Set	0.0004646	56	0.006645	77	REACTOME - Degradation of beta-catenin by the destruction complex gene set	www.pathwaycomm...
Null Signaling by Wnt	View Gene Set	0.0004646	56	0.006645	77	REACTOME - Signaling by Wnt gene set	www.pathwaycomm...
Null Vpu mediated degradation of CD4	View Gene Set	0.0004699	57	0.006645	77	REACTOME - Vpu mediated degradation of CD4 gene set	www.pathwaycomm...
Null Destabilization of mRNA by AUF1 (hnRNP D0)	View Gene Set	0.0004774	63	0.006665	80	REACTOME - Destabilization of mRNA by AUF1 (hnRNP D0) gene set	www.pathwaycomm...
Null Influenza Life Cycle	View Gene Set	0.0004971	138	0.006856	81	REACTOME - Influenza Life Cycle gene set	www.pathwaycomm...
Null Double-Strand Break Repair	View Gene Set	0.0005185	27	0.007063	82	REACTOME - Double-Strand Break Repair gene set	www.pathwaycomm...
Null tRNA Aminoacylation	View Gene Set	0.0005269	42	0.007091	83	REACTOME - tRNA Aminoacylation gene set	www.pathwaycomm...
Null mRNA Splicing - Minor Pathway	View Gene Set	0.0005674	42	0.007512	84	REACTOME - mRNA Splicing - Minor Pathway gene set	www.pathwaycomm...
Null Translation	View Gene Set	0.0005716	120	0.007512	84	REACTOME - Translation gene set	www.pathwaycomm...
Null GTP hydrolysis and joining of the 60S ribosomal subunit	View Gene Set	0.000597	106	0.007754	86	REACTOME - GTP hydrolysis and joining of the 60S ribosomal subunit gene set	www.pathwaycomm...
Null Cyclin A:Cdk2-associated events at S phase entry	View Gene Set	0.000613	62	0.00787	87	REACTOME - Cyclin A:Cdk2-associated events at S phase entry gene set	www.pathwaycomm...
Null SCF-beta-TrCP mediated degradation of Emi1	View Gene Set	0.0006295	60	0.00799	88	REACTOME - SCF-beta-TrCP mediated degradation of Emi1 gene set	www.pathwaycomm...
Null Cap-dependent Translation Initiation	View Gene Set	0.0006772	113	0.008405	89	REACTOME - Cap-dependent Translation Initiation gene set	www.pathwaycomm...
Null Eukaryotic Translation Initiation	View Gene Set	0.0006772	113	0.008405	89	REACTOME - Eukaryotic Translation Initiation gene set	www.pathwaycomm...
Null Nuclear import of Rev protein	View Gene Set	0.0007059	30	0.008664	91	REACTOME - Nuclear import of Rev protein gene set	www.pathwaycomm...
Null 3' -UTR-mediated translational regulation	View Gene Set	0.0008563	105	0.01029	92	REACTOME - 3' -UTR-mediated translational regulation gene set	www.pathwaycomm...
Null L13a-mediated translational silencing of Ceruloplasmin expression	View Gene Set	0.0008563	105	0.01029	92	REACTOME - L13a-mediated translational silencing of Ceruloplasmin expression gene set	www.pathwaycomm...
Null Mitotic G2-G2/M phases	View Gene Set	0.0008698	98	0.01034	94	REACTOME - Mitotic G2-G2/M phases gene set	www.pathwaycomm...
Null HIV Life Cycle	View Gene Set	0.0009872	103	0.01161	95	REACTOME - HIV Life Cycle gene set	www.pathwaycomm...
Null Transport of Ribonucleoproteins into the Host Nucleus	View Gene Set	0.001139	29	0.01325	96	REACTOME - Transport of Ribonucleoproteins into the Host Nucleus gene set	www.pathwaycomm...
Null TRAF3-dependent IRF activation pathway	View Gene Set	0.001166	10	0.01338	97	REACTOME - TRAF3-dependent IRF activation pathway gene set	www.pathwaycomm...
Null NEP/NS2 Interacts with the Cellular Export Machinery	View Gene Set	0.001174	29	0.01338	97	REACTOME - NEP/NS2 Interacts with the Cellular Export Machinery gene set	www.pathwaycomm...
Null Metabolism of nucleotides	View Gene Set	0.001255	66	0.01416	99	REACTOME - Metabolism of nucleotides gene set	www.pathwaycomm...
Null CDT1 association with the CDC6:ORC:origin complex	View Gene Set	0.0013	66	0.01452	100	REACTOME - CDT1 association with the CDC6:ORC:origin complex gene set	www.pathwaycomm...
Null Cyclin E associated events during G1/S transition	View Gene Set	0.001399	64	0.01547	101	REACTOME - Cyclin E associated events during G1/S transition gene set	www.pathwaycomm...
Null Pyrimidine metabolism	View Gene Set	0.00146	23	0.01599	102	REACTOME - Pyrimidine metabolism gene set	www.pathwaycomm...
Null DNA Repair	View Gene Set	0.001489	108	0.01599	103	REACTOME - DNA Repair gene set	www.pathwaycomm...
Null Recruitment of NuMA to mitotic centrosomes	View Gene Set	0.001486	14	0.01599	103	REACTOME - Recruitment of NuMA to mitotic centrosomes gene set	www.pathwaycomm...
Null Mitotic Spindle Checkpoint	View Gene Set	0.001566	19	0.0165	105	REACTOME - Mitotic Spindle Checkpoint gene set	www.pathwaycomm...
Null Formation of a pool of free 40S subunits	View Gene Set	0.001558	95	0.0165	105	REACTOME - Formation of a pool of free 40S subunits gene set	www.pathwaycomm...
Null Homologous Recombination Repair	View Gene Set	0.001786	22	0.01831	107	REACTOME - Homologous Recombination Repair gene set	www.pathwaycomm...
Null Homologous recombination repair of replication-independent double-strand breaks	View Gene Set	0.001786	22	0.01831	107	REACTOME - Homologous recombination repair of replication-independent double-strand breaks gene set	www.pathwaycomm...
Null CDK-mediated phosphorylation and removal of Cdc6	View Gene Set	0.001758	58	0.01831	107	REACTOME - CDK-mediated phosphorylation and removal of Cdc6 gene set	www.pathwaycomm...
Null G2/M Transition	View Gene Set	0.001848	96	0.01876	110	REACTOME - G2/M Transition gene set	www.pathwaycomm...
Null Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase	View Gene Set	0.002061	16	0.02074	111	REACTOME - Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase gene set	www.pathwaycomm...
Null Chromosome Maintenance	View Gene Set	0.002286	69	0.0228	112	REACTOME - Chromosome Maintenance gene set	www.pathwaycomm...
Null Activation of ATR in response to replication stress	View Gene Set	0.002354	37	0.02327	113	REACTOME - Activation of ATR in response to replication stress gene set	www.pathwaycomm...
Null Late Phase of HIV Life Cycle	View Gene Set	0.002722	92	0.02667	114	REACTOME - Late Phase of HIV Life Cycle gene set	www.pathwaycomm...
Null Regulation of Apoptosis	View Gene Set	0.003045	66	0.02933	115	REACTOME - Regulation of Apoptosis gene set	www.pathwaycomm...
Null Post-Elongation Processing of Intronless pre-mRNA	View Gene Set	0.003072	23	0.02933	115	REACTOME - Post-Elongation Processing of Intronless pre-mRNA gene set	www.pathwaycomm...
Null Processing of Capped Intronless Pre-mRNA	View Gene Set	0.003072	23	0.02933	115	REACTOME - Processing of Capped Intronless Pre-mRNA gene set	www.pathwaycomm...
Null Regulation of mRNA Stability by Proteins that Bind AU-rich Elements	View Gene Set	0.003269	95	0.03095	118	REACTOME - Regulation of mRNA Stability by Proteins that Bind AU-rich Elements gene set	www.pathwaycomm...
Null Regulation of ornithine decarboxylase (ODC)	View Gene Set	0.003369	62	0.03163	119	REACTOME - Regulation of ornithine decarboxylase (ODC) gene set	www.pathwaycomm...
Null Mitochondrial tRNA aminoacylation	View Gene Set	0.003462	21	0.03223	120	REACTOME - Mitochondrial tRNA aminoacylation gene set	www.pathwaycomm...
Null Eukaryotic Translation Termination	View Gene Set	0.003513	85	0.03243	121	REACTOME - Eukaryotic Translation Termination gene set	www.pathwaycomm...
Null Export of Viral Ribonucleoproteins from Nucleus	View Gene Set	0.003695	31	0.03383	122	REACTOME - Export of Viral Ribonucleoproteins from Nucleus gene set	www.pathwaycomm...
Null Activation of the pre-replicative complex	View Gene Set	0.003989	30	0.03622	123	REACTOME - Activation of the pre-replicative complex gene set	www.pathwaycomm...
Null Telomere C-strand (Lagging Strand) Synthesis	View Gene Set	0.004213	22	0.03795	124	REACTOME - Telomere C-strand (Lagging Strand) Synthesis gene set	www.pathwaycomm...
Null Chaperonin-mediated protein folding	View Gene Set	0.004624	16	0.04107	125	REACTOME - Chaperonin-mediated protein folding gene set	www.pathwaycomm...
Null Insulin Synthesis and Processing	View Gene Set	0.004632	132	0.04107	125	REACTOME - Insulin Synthesis and Processing gene set	www.pathwaycomm...
Null Viral mRNA Translation	View Gene Set	0.004737	85	0.04166	127	REACTOME - Viral mRNA Translation gene set	www.pathwaycomm...
Null Prefoldin mediated transfer of substrate to CCT/TriC	View Gene Set	0.005411	14	0.04722	128	REACTOME - Prefoldin mediated transfer of substrate to CCT/TriC gene set	www.pathwaycomm...
Null NS1 Mediated Effects on Host Pathways	View Gene Set	0.005522	3	0.04781	129	REACTOME - NS1 Mediated Effects on Host Pathways gene set	www.pathwaycomm...
Null Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex	View Gene Set	0.00558	6	0.04794	130	REACTOME - Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex gene set	www.pathwaycomm...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null hsa-miR-548b-5p	View Gene Set	6.384e-06	818	0.004539	1	microRNA targets for hsa-miR-548b-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-196a*	View Gene Set	2.55e-05	526	0.009067	2	microRNA targets for hsa-miR-196a* from mirbase.targets	www.mirbase.org...
Null hsa-miR-495	View Gene Set	7.397e-05	796	0.01753	3	microRNA targets for hsa-miR-495 from mirbase.targets	www.mirbase.org...
Null hsa-miR-23a	View Gene Set	0.0001656	807	0.02943	4	microRNA targets for hsa-miR-23a from mirbase.targets	www.mirbase.org...
Null hsa-miR-190	View Gene Set	0.0002746	668	0.03027	5	microRNA targets for hsa-miR-190 from mirbase.targets	www.mirbase.org...
Null hsa-miR-28-3p	View Gene Set	0.0003264	712	0.03027	5	microRNA targets for hsa-miR-28-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-548d-5p	View Gene Set	0.0003406	795	0.03027	5	microRNA targets for hsa-miR-548d-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-590-3p	View Gene Set	0.0003148	742	0.03027	5	microRNA targets for hsa-miR-590-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-101*	View Gene Set	0.000422	605	0.03334	9	microRNA targets for hsa-miR-101* from mirbase.targets	www.mirbase.org...
Null hsa-miR-548c-5p	View Gene Set	0.0005319	801	0.03782	10	microRNA targets for hsa-miR-548c-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-494	View Gene Set	0.0006741	637	0.04357	11	microRNA targets for hsa-miR-494 from mirbase.targets	www.mirbase.org...

Results

AFA results for: TSA1-e07.ls

Gene Set Collection: KEGG

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: GO

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c2.CGP

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c2.CP.BIOCARTA

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c2.CP.KEGG

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c2.CP.REACTOME

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c3.TFT

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c4.CGN

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c4.CM

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c5.BP

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c5.CC

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Broad.c5.MF

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: PMID

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Prosite

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: Enzyme

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.BIND

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.BioGRID

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.HPRD

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: ppi.anyDB

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: pathwayCommons.cell-map

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: pathwayCommons.nci-nature

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: pathwayCommons.reactome

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: mirbase.targets

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down

Gene Set Collection: tfbsK3Z3

Arguments: refPop=all, featureType=featureNames, colname=WilcoxDOWN, ranks.only=TRUE, absolute=FALSE, alternative=down