AFA results for: tSAHAda4PC3

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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	3.8e-14	128	8.131e-12	1	Spliceosome	www.genome.jp/d...
KEGG 00970	View Gene Set	2.548e-12	41	2.727e-10	2	Aminoacyl-tRNA biosynthesis	www.genome.jp/d...
KEGG 01100	View Gene Set	1.705e-11	1120	1.216e-09	3	Metabolic pathways	www.genome.jp/d...
KEGG 05012	View Gene Set	1.334e-08	132	7.138e-07	4	Parkinson's disease	www.genome.jp/d...
KEGG 05016	View Gene Set	5.286e-07	184	2.263e-05	5	Huntington's disease	www.genome.jp/d...
KEGG 00290	View Gene Set	1.095e-05	11	0.0003906	6	Valine leucine and isoleucine biosynthesis	www.genome.jp/d...
KEGG 00240	View Gene Set	1.772e-05	99	0.0005419	7	Pyrimidine metabolism	www.genome.jp/d...
KEGG 00310	View Gene Set	3.021e-05	46	0.0008081	8	Lysine degradation	www.genome.jp/d...
KEGG 00670	View Gene Set	4.713e-05	17	0.001121	9	One carbon pool by folate	www.genome.jp/d...
KEGG 03020	View Gene Set	5.911e-05	29	0.001265	10	RNA polymerase	www.genome.jp/d...
KEGG 00190	View Gene Set	0.0001609	134	0.00313	11	Oxidative phosphorylation	www.genome.jp/d...
KEGG 03018	View Gene Set	0.00031	59	0.005528	12	RNA degradation	www.genome.jp/d...
KEGG 00230	View Gene Set	0.000974	161	0.01603	13	Purine metabolism	www.genome.jp/d...
KEGG 03410	View Gene Set	0.0011	34	0.01681	14	Base excision repair	www.genome.jp/d...
KEGG 00020	View Gene Set	0.001772	31	0.02528	15	Citrate cycle (TCA cycle)	www.genome.jp/d...
KEGG 00620	View Gene Set	0.002035	40	0.02722	16	Pyruvate metabolism	www.genome.jp/d...
KEGG 00010	View Gene Set	0.002263	64	0.02848	17	Glycolysis / Gluconeogenesis	www.genome.jp/d...
KEGG 03030	View Gene Set	0.002626	36	0.03054	18	DNA replication	www.genome.jp/d...
KEGG 03050	View Gene Set	0.002712	48	0.03054	18	Proteasome	www.genome.jp/d...
KEGG 00785	View Gene Set	0.003795	3	0.0406	20	Lipoic acid metabolism	www.genome.jp/d...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
GO GO:0006396	View Gene Set	6.118e-44	578	8.174e-40	1	RNA processing	amigo.geneontol...
GO GO:0005739	View Gene Set	4.786e-43	1274	3.197e-39	2	mitochondrion	amigo.geneontol...
GO GO:0031974	View Gene Set	2.527e-34	1917	1.126e-30	3	membrane-enclosed lumen	amigo.geneontol...
GO GO:0044429	View Gene Set	2.11e-32	619	7.047e-29	4	mitochondrial part	amigo.geneontol...
GO GO:0070013	View Gene Set	3.486e-32	1845	9.316e-29	5	intracellular organelle lumen	amigo.geneontol...
GO GO:0043233	View Gene Set	8.811e-32	1881	1.962e-28	6	organelle lumen	amigo.geneontol...
GO GO:0044428	View Gene Set	4.715e-30	1938	8.999e-27	7	nuclear part	amigo.geneontol...
GO GO:0034660	View Gene Set	7.403e-30	236	1.236e-26	8	ncRNA metabolic process	amigo.geneontol...
GO GO:0030529	View Gene Set	1.348e-28	504	2.002e-25	9	ribonucleoprotein complex	amigo.geneontol...
GO GO:0008380	View Gene Set	2.464e-27	300	3.292e-24	10	RNA splicing	amigo.geneontol...
GO GO:0003723	View Gene Set	3.204e-27	732	3.891e-24	11	RNA binding	amigo.geneontol...
GO GO:0022613	View Gene Set	3.879e-27	194	4.319e-24	12	ribonucleoprotein complex biogenesis	amigo.geneontol...
GO GO:0016071	View Gene Set	1.859e-23	381	1.911e-20	13	mRNA metabolic process	amigo.geneontol...
GO GO:0006399	View Gene Set	2.168e-23	118	2.069e-20	14	tRNA metabolic process	amigo.geneontol...
GO GO:0034470	View Gene Set	3.526e-23	193	3.141e-20	15	ncRNA processing	amigo.geneontol...
GO GO:0005759	View Gene Set	2.017e-22	223	1.585e-19	16	mitochondrial matrix	amigo.geneontol...
GO GO:0031980	View Gene Set	2.017e-22	223	1.585e-19	16	mitochondrial lumen	amigo.geneontol...
GO GO:0031981	View Gene Set	1.525e-21	1518	1.132e-18	18	nuclear lumen	amigo.geneontol...
GO GO:0006397	View Gene Set	7.12e-21	317	5.006e-18	19	mRNA processing	amigo.geneontol...
GO GO:0000375	View Gene Set	1.886e-19	106	1.26e-16	20	RNA splicing via transesterification reactions	amigo.geneontol...
GO GO:0005740	View Gene Set	2.084e-19	444	1.326e-16	21	mitochondrial envelope	amigo.geneontol...
GO GO:0031966	View Gene Set	6.251e-19	420	3.796e-16	22	mitochondrial membrane	amigo.geneontol...
GO GO:0031967	View Gene Set	7.425e-18	672	4.313e-15	23	organelle envelope	amigo.geneontol...
GO GO:0005743	View Gene Set	1.305e-17	305	7.263e-15	24	mitochondrial inner membrane	amigo.geneontol...
GO GO:0031975	View Gene Set	2.038e-17	685	1.089e-14	25	envelope	amigo.geneontol...
GO GO:0000377	View Gene Set	2.666e-17	97	1.319e-14	26	RNA splicing via transesterification reactions with bulged adenosine as nucleophile	amigo.geneontol...
GO GO:0000398	View Gene Set	2.666e-17	97	1.319e-14	26	nuclear mRNA splicing via spliceosome	amigo.geneontol...
GO GO:0019866	View Gene Set	3.902e-17	334	1.862e-14	28	organelle inner membrane	amigo.geneontol...
GO GO:0003676	View Gene Set	4.825e-17	2979	2.223e-14	29	nucleic acid binding	amigo.geneontol...
GO GO:0022618	View Gene Set	2.05e-16	76	9.128e-14	30	ribonucleoprotein complex assembly	amigo.geneontol...
GO GO:0005654	View Gene Set	2.576e-16	939	1.11e-13	31	nucleoplasm	amigo.geneontol...
GO GO:0034641	View Gene Set	3.763e-16	4584	1.571e-13	32	cellular nitrogen compound metabolic process	amigo.geneontol...
GO GO:0044237	View Gene Set	4.294e-16	7431	1.738e-13	33	cellular metabolic process	amigo.geneontol...
GO GO:0006807	View Gene Set	8.207e-16	4698	3.176e-13	34	nitrogen compound metabolic process	amigo.geneontol...
GO GO:0008033	View Gene Set	8.321e-16	78	3.176e-13	34	tRNA processing	amigo.geneontol...
GO GO:0005681	View Gene Set	2.07e-15	135	7.682e-13	36	spliceosomal complex	amigo.geneontol...
GO GO:0008152	View Gene Set	3.588e-15	8439	1.296e-12	37	metabolic process	amigo.geneontol...
GO GO:0042254	View Gene Set	4.597e-15	130	1.616e-12	38	ribosome biogenesis	amigo.geneontol...
GO GO:0010467	View Gene Set	5.07e-15	3806	1.737e-12	39	gene expression	amigo.geneontol...
GO GO:0005634	View Gene Set	5.69e-15	5198	1.901e-12	40	nucleus	amigo.geneontol...
GO GO:0090304	View Gene Set	1.646e-14	3724	5.365e-12	41	nucleic acid metabolic process	amigo.geneontol...
GO GO:0006412	View Gene Set	1.744e-14	412	5.548e-12	42	translation	amigo.geneontol...
GO GO:0043227	View Gene Set	5.941e-14	8383	1.846e-11	43	membrane-bounded organelle	amigo.geneontol...
GO GO:0043231	View Gene Set	9.985e-14	8376	3.032e-11	44	intracellular membrane-bounded organelle	amigo.geneontol...
GO GO:0044451	View Gene Set	2.261e-13	600	6.714e-11	45	nucleoplasm part	amigo.geneontol...
GO GO:0006139	View Gene Set	2.678e-13	4294	7.777e-11	46	nucleobase nucleoside nucleotide and nucleic acid metabolic process	amigo.geneontol...
GO GO:0044455	View Gene Set	2.933e-13	133	8.337e-11	47	mitochondrial membrane part	amigo.geneontol...
GO GO:0000166	View Gene Set	9.422e-13	2257	2.622e-10	48	nucleotide binding	amigo.geneontol...
GO GO:0044260	View Gene Set	9.934e-13	5699	2.708e-10	49	cellular macromolecule metabolic process	amigo.geneontol...
GO GO:0044446	View Gene Set	1.137e-12	5019	3.037e-10	50	intracellular organelle part	amigo.geneontol...
GO GO:0044422	View Gene Set	1.805e-12	5089	4.728e-10	51	organelle part	amigo.geneontol...
GO GO:0044238	View Gene Set	2.053e-12	7629	5.275e-10	52	primary metabolic process	amigo.geneontol...
GO GO:0032991	View Gene Set	6.841e-12	3237	1.725e-09	53	macromolecular complex	amigo.geneontol...
GO GO:0030554	View Gene Set	9.289e-12	1584	2.298e-09	54	adenyl nucleotide binding	amigo.geneontol...
GO GO:0005730	View Gene Set	9.947e-12	734	2.416e-09	55	nucleolus	amigo.geneontol...
GO GO:0000313	View Gene Set	1.046e-11	49	2.449e-09	56	organellar ribosome	amigo.geneontol...
GO GO:0005761	View Gene Set	1.046e-11	49	2.449e-09	56	mitochondrial ribosome	amigo.geneontol...
GO GO:0004812	View Gene Set	1.1e-11	46	2.449e-09	56	aminoacyl-tRNA ligase activity	amigo.geneontol...
GO GO:0016875	View Gene Set	1.1e-11	46	2.449e-09	56	ligase activity forming carbon-oxygen bonds	amigo.geneontol...
GO GO:0016876	View Gene Set	1.1e-11	46	2.449e-09	56	ligase activity forming aminoacyl-tRNA and related compounds	amigo.geneontol...
GO GO:0043170	View Gene Set	1.865e-11	6274	4.085e-09	61	macromolecule metabolic process	amigo.geneontol...
GO GO:0051276	View Gene Set	4.844e-11	548	1.044e-08	62	chromosome organization	amigo.geneontol...
GO GO:0016072	View Gene Set	9.99e-11	101	2.119e-08	63	rRNA metabolic process	amigo.geneontol...
GO GO:0003824	View Gene Set	1.023e-10	5198	2.136e-08	64	catalytic activity	amigo.geneontol...
GO GO:0006364	View Gene Set	1.51e-10	97	3.103e-08	65	rRNA processing	amigo.geneontol...
GO GO:0032559	View Gene Set	1.578e-10	1503	3.194e-08	66	adenyl ribonucleotide binding	amigo.geneontol...
GO GO:0006418	View Gene Set	1.792e-10	45	3.419e-08	67	tRNA aminoacylation for protein translation	amigo.geneontol...
GO GO:0016070	View Gene Set	1.744e-10	2596	3.419e-08	67	RNA metabolic process	amigo.geneontol...
GO GO:0043038	View Gene Set	1.792e-10	45	3.419e-08	67	amino acid activation	amigo.geneontol...
GO GO:0043039	View Gene Set	1.792e-10	45	3.419e-08	67	tRNA aminoacylation	amigo.geneontol...
GO GO:0005524	View Gene Set	2.135e-10	1480	4.017e-08	71	ATP binding	amigo.geneontol...
GO GO:0001883	View Gene Set	2.759e-10	1620	5.12e-08	72	purine nucleoside binding	amigo.geneontol...
GO GO:0005840	View Gene Set	3.503e-10	198	6.411e-08	73	ribosome	amigo.geneontol...
GO GO:0045333	View Gene Set	3.785e-10	100	6.834e-08	74	cellular respiration	amigo.geneontol...
GO GO:0001882	View Gene Set	5.896e-10	1630	1.05e-07	75	nucleoside binding	amigo.geneontol...
GO GO:0005694	View Gene Set	9.311e-10	507	1.637e-07	76	chromosome	amigo.geneontol...
GO GO:0000278	View Gene Set	1.381e-09	489	2.395e-07	77	mitotic cell cycle	amigo.geneontol...
GO GO:0000245	View Gene Set	1.901e-09	34	3.256e-07	78	spliceosome assembly	amigo.geneontol...
GO GO:0022904	View Gene Set	2.368e-09	65	4.004e-07	79	respiratory electron transport chain	amigo.geneontol...
GO GO:0043226	View Gene Set	3.313e-09	9360	5.532e-07	80	organelle	amigo.geneontol...
GO GO:0043229	View Gene Set	3.994e-09	9346	6.587e-07	81	intracellular organelle	amigo.geneontol...
GO GO:0044427	View Gene Set	5.917e-09	420	9.64e-07	82	chromosomal part	amigo.geneontol...
GO GO:0000387	View Gene Set	1.121e-08	31	1.74e-06	83	spliceosomal snRNP assembly	amigo.geneontol...
GO GO:0034622	View Gene Set	1.099e-08	393	1.74e-06	83	cellular macromolecular complex assembly	amigo.geneontol...
GO GO:0050657	View Gene Set	1.133e-08	102	1.74e-06	83	nucleic acid transport	amigo.geneontol...
GO GO:0050658	View Gene Set	1.133e-08	102	1.74e-06	83	RNA transport	amigo.geneontol...
GO GO:0051236	View Gene Set	1.133e-08	102	1.74e-06	83	establishment of RNA localization	amigo.geneontol...
GO GO:0015931	View Gene Set	1.75e-08	118	2.657e-06	88	nucleobase nucleoside nucleotide and nucleic acid transport	amigo.geneontol...
GO GO:0022402	View Gene Set	1.939e-08	676	2.888e-06	89	cell cycle process	amigo.geneontol...
GO GO:0034621	View Gene Set	1.945e-08	458	2.888e-06	89	cellular macromolecular complex subunit organization	amigo.geneontol...
GO GO:0051028	View Gene Set	2.251e-08	90	3.305e-06	91	mRNA transport	amigo.geneontol...
GO GO:0006520	View Gene Set	2.627e-08	231	3.815e-06	92	cellular amino acid metabolic process	amigo.geneontol...
GO GO:0030532	View Gene Set	2.999e-08	32	4.308e-06	93	small nuclear ribonucleoprotein complex	amigo.geneontol...
GO GO:0044106	View Gene Set	3.33e-08	314	4.732e-06	94	cellular amine metabolic process	amigo.geneontol...
GO GO:0006403	View Gene Set	3.791e-08	104	5.331e-06	95	RNA localization	amigo.geneontol...
GO GO:0000049	View Gene Set	4.686e-08	24	6.521e-06	96	tRNA binding	amigo.geneontol...
GO GO:0006261	View Gene Set	5.069e-08	74	6.982e-06	97	DNA-dependent DNA replication	amigo.geneontol...
GO GO:0043228	View Gene Set	5.381e-08	2690	7.262e-06	98	non-membrane-bounded organelle	amigo.geneontol...
GO GO:0043232	View Gene Set	5.381e-08	2690	7.262e-06	98	intracellular non-membrane-bounded organelle	amigo.geneontol...
GO GO:0070469	View Gene Set	6.869e-08	77	9.178e-06	100	respiratory chain	amigo.geneontol...
GO GO:0022900	View Gene Set	7.68e-08	115	1.016e-05	101	electron transport chain	amigo.geneontol...
GO GO:0006839	View Gene Set	7.807e-08	75	1.023e-05	102	mitochondrial transport	amigo.geneontol...
GO GO:0016604	View Gene Set	9.957e-08	198	1.292e-05	103	nuclear body	amigo.geneontol...
GO GO:0006325	View Gene Set	1.275e-07	425	1.638e-05	104	chromatin organization	amigo.geneontol...
GO GO:0007005	View Gene Set	1.385e-07	139	1.76e-05	105	mitochondrion organization	amigo.geneontol...
GO GO:0004386	View Gene Set	1.396e-07	144	1.76e-05	105	helicase activity	amigo.geneontol...
GO GO:0017076	View Gene Set	1.891e-07	1934	2.361e-05	107	purine nucleotide binding	amigo.geneontol...
GO GO:0006996	View Gene Set	2.085e-07	1501	2.51e-05	108	organelle organization	amigo.geneontol...
GO GO:0003954	View Gene Set	2.077e-07	44	2.51e-05	108	NADH dehydrogenase activity	amigo.geneontol...
GO GO:0008137	View Gene Set	2.077e-07	44	2.51e-05	108	NADH dehydrogenase (ubiquinone) activity	amigo.geneontol...
GO GO:0050136	View Gene Set	2.077e-07	44	2.51e-05	108	NADH dehydrogenase (quinone) activity	amigo.geneontol...
GO GO:0006519	View Gene Set	2.347e-07	371	2.8e-05	112	cellular amino acid and derivative metabolic process	amigo.geneontol...
GO GO:0009451	View Gene Set	2.379e-07	51	2.812e-05	113	RNA modification	amigo.geneontol...
GO GO:0042773	View Gene Set	2.585e-07	57	3.003e-05	114	ATP synthesis coupled electron transport	amigo.geneontol...
GO GO:0042775	View Gene Set	2.585e-07	57	3.003e-05	114	mitochondrial ATP synthesis coupled electron transport	amigo.geneontol...
GO GO:0048285	View Gene Set	2.701e-07	286	3.111e-05	116	organelle fission	amigo.geneontol...
GO GO:0022403	View Gene Set	3e-07	522	3.426e-05	117	cell cycle phase	amigo.geneontol...
GO GO:0000087	View Gene Set	3.517e-07	286	3.982e-05	118	M phase of mitotic cell cycle	amigo.geneontol...
GO GO:0071103	View Gene Set	3.933e-07	140	4.415e-05	119	DNA conformation change	amigo.geneontol...
GO GO:0044452	View Gene Set	4.322e-07	28	4.812e-05	120	nucleolar part	amigo.geneontol...
GO GO:0000279	View Gene Set	4.579e-07	406	5.056e-05	121	M phase	amigo.geneontol...
GO GO:0016741	View Gene Set	4.638e-07	179	5.079e-05	122	transferase activity transferring one-carbon groups	amigo.geneontol...
GO GO:0044249	View Gene Set	4.948e-07	4326	5.375e-05	123	cellular biosynthetic process	amigo.geneontol...
GO GO:0009058	View Gene Set	5.054e-07	4436	5.446e-05	124	biosynthetic process	amigo.geneontol...
GO GO:0007006	View Gene Set	5.28e-07	29	5.644e-05	125	mitochondrial membrane organization	amigo.geneontol...
GO GO:0000280	View Gene Set	5.582e-07	276	5.873e-05	126	nuclear division	amigo.geneontol...
GO GO:0007067	View Gene Set	5.582e-07	276	5.873e-05	126	mitosis	amigo.geneontol...
GO GO:0005746	View Gene Set	5.773e-07	70	6.026e-05	128	mitochondrial respiratory chain	amigo.geneontol...
GO GO:0003735	View Gene Set	6.06e-07	158	6.277e-05	129	structural constituent of ribosome	amigo.geneontol...
GO GO:0000428	View Gene Set	6.523e-07	24	6.652e-05	130	DNA-directed RNA polymerase complex	amigo.geneontol...
GO GO:0055029	View Gene Set	6.523e-07	24	6.652e-05	130	nuclear DNA-directed RNA polymerase complex	amigo.geneontol...
GO GO:0044085	View Gene Set	6.823e-07	1167	6.906e-05	132	cellular component biogenesis	amigo.geneontol...
GO GO:0006120	View Gene Set	8.228e-07	43	8.265e-05	133	mitochondrial electron transport NADH to ubiquinone	amigo.geneontol...
GO GO:0051186	View Gene Set	9.456e-07	215	9.428e-05	134	cofactor metabolic process	amigo.geneontol...
GO GO:0005747	View Gene Set	1.124e-06	46	0.0001096	135	mitochondrial respiratory chain complex I	amigo.geneontol...
GO GO:0030964	View Gene Set	1.124e-06	46	0.0001096	135	NADH dehydrogenase complex	amigo.geneontol...
GO GO:0045271	View Gene Set	1.124e-06	46	0.0001096	135	respiratory chain complex I	amigo.geneontol...
GO GO:0051188	View Gene Set	1.233e-06	112	0.0001194	138	cofactor biosynthetic process	amigo.geneontol...
GO GO:0008168	View Gene Set	1.334e-06	176	0.0001282	139	methyltransferase activity	amigo.geneontol...
GO GO:0016853	View Gene Set	1.366e-06	132	0.0001304	140	isomerase activity	amigo.geneontol...
GO GO:0006400	View Gene Set	1.468e-06	18	0.0001391	141	tRNA modification	amigo.geneontol...
GO GO:0030880	View Gene Set	1.58e-06	25	0.0001486	142	RNA polymerase complex	amigo.geneontol...
GO GO:0032553	View Gene Set	1.605e-06	1851	0.0001489	143	ribonucleotide binding	amigo.geneontol...
GO GO:0032555	View Gene Set	1.605e-06	1851	0.0001489	143	purine ribonucleotide binding	amigo.geneontol...
GO GO:0009308	View Gene Set	1.716e-06	414	0.000156	145	amine metabolic process	amigo.geneontol...
GO GO:0016568	View Gene Set	1.712e-06	324	0.000156	145	chromatin modification	amigo.geneontol...
GO GO:0016740	View Gene Set	1.714e-06	1691	0.000156	145	transferase activity	amigo.geneontol...
GO GO:0005758	View Gene Set	1.762e-06	34	0.000159	148	mitochondrial intermembrane space	amigo.geneontol...
GO GO:0007049	View Gene Set	1.809e-06	1006	0.0001622	149	cell cycle	amigo.geneontol...
GO GO:0000785	View Gene Set	2.22e-06	213	0.0001977	150	chromatin	amigo.geneontol...
GO GO:0006259	View Gene Set	2.34e-06	592	0.0002044	151	DNA metabolic process	amigo.geneontol...
GO GO:0008026	View Gene Set	2.332e-06	105	0.0002044	151	ATP-dependent helicase activity	amigo.geneontol...
GO GO:0070035	View Gene Set	2.332e-06	105	0.0002044	151	purine NTP-dependent helicase activity	amigo.geneontol...
GO GO:0015030	View Gene Set	2.54e-06	43	0.0002204	154	Cajal body	amigo.geneontol...
GO GO:0006260	View Gene Set	2.765e-06	239	0.0002338	155	DNA replication	amigo.geneontol...
GO GO:0006732	View Gene Set	2.758e-06	164	0.0002338	155	coenzyme metabolic process	amigo.geneontol...
GO GO:0032392	View Gene Set	2.736e-06	19	0.0002338	155	DNA geometric change	amigo.geneontol...
GO GO:0032508	View Gene Set	2.736e-06	19	0.0002338	155	DNA duplex unwinding	amigo.geneontol...
GO GO:0016569	View Gene Set	2.823e-06	165	0.0002352	159	covalent chromatin modification	amigo.geneontol...
GO GO:0000315	View Gene Set	2.834e-06	18	0.0002352	159	organellar large ribosomal subunit	amigo.geneontol...
GO GO:0005762	View Gene Set	2.834e-06	18	0.0002352	159	mitochondrial large ribosomal subunit	amigo.geneontol...
GO GO:0016779	View Gene Set	3.006e-06	120	0.0002479	162	nucleotidyltransferase activity	amigo.geneontol...
GO GO:0044424	View Gene Set	3.734e-06	10976	0.000306	163	intracellular part	amigo.geneontol...
GO GO:0016570	View Gene Set	4.105e-06	162	0.0003324	164	histone modification	amigo.geneontol...
GO GO:0008135	View Gene Set	4.088e-06	86	0.0003324	164	translation factor activity nucleic acid binding	amigo.geneontol...
GO GO:0005643	View Gene Set	4.805e-06	71	0.0003867	166	nuclear pore	amigo.geneontol...
GO GO:0046930	View Gene Set	4.842e-06	85	0.0003873	167	pore complex	amigo.geneontol...
GO GO:0006473	View Gene Set	4.914e-06	61	0.0003907	168	protein amino acid acetylation	amigo.geneontol...
GO GO:0043933	View Gene Set	5.697e-06	836	0.0004504	169	macromolecular complex subunit organization	amigo.geneontol...
GO GO:0006974	View Gene Set	6.097e-06	412	0.0004791	170	response to DNA damage stimulus	amigo.geneontol...
GO GO:0043543	View Gene Set	7.962e-06	72	0.000622	171	protein amino acid acylation	amigo.geneontol...
GO GO:0006626	View Gene Set	9.049e-06	32	0.0006988	172	protein targeting to mitochondrion	amigo.geneontol...
GO GO:0070585	View Gene Set	9.049e-06	32	0.0006988	172	protein localization in mitochondrion	amigo.geneontol...
GO GO:0065003	View Gene Set	9.243e-06	763	0.0007097	174	macromolecular complex assembly	amigo.geneontol...
GO GO:0033279	View Gene Set	9.599e-06	121	0.0007328	175	ribosomal subunit	amigo.geneontol...
GO GO:0018130	View Gene Set	1.626e-05	63	0.001235	176	heterocycle biosynthetic process	amigo.geneontol...
GO GO:0000228	View Gene Set	1.899e-05	177	0.001433	177	nuclear chromosome	amigo.geneontol...
GO GO:0009982	View Gene Set	1.941e-05	14	0.001457	178	pseudouridine synthase activity	amigo.geneontol...
GO GO:0006383	View Gene Set	1.982e-05	32	0.001479	179	transcription from RNA polymerase III promoter	amigo.geneontol...
GO GO:0008652	View Gene Set	2.062e-05	50	0.001531	180	cellular amino acid biosynthetic process	amigo.geneontol...
GO GO:0006268	View Gene Set	2.086e-05	12	0.001531	181	DNA unwinding involved in replication	amigo.geneontol...
GO GO:0031970	View Gene Set	2.077e-05	40	0.001531	181	organelle envelope lumen	amigo.geneontol...
GO GO:0006725	View Gene Set	2.268e-05	145	0.001656	183	cellular aromatic compound metabolic process	amigo.geneontol...
GO GO:0003899	View Gene Set	2.365e-05	42	0.001708	184	DNA-directed RNA polymerase activity	amigo.geneontol...
GO GO:0034062	View Gene Set	2.365e-05	42	0.001708	184	RNA polymerase activity	amigo.geneontol...
GO GO:0006119	View Gene Set	2.519e-05	104	0.001809	186	oxidative phosphorylation	amigo.geneontol...
GO GO:0016573	View Gene Set	2.822e-05	56	0.002002	187	histone acetylation	amigo.geneontol...
GO GO:0005622	View Gene Set	2.833e-05	11329	0.002002	187	intracellular	amigo.geneontol...
GO GO:0016655	View Gene Set	2.819e-05	50	0.002002	187	oxidoreductase activity acting on NADH or NADPH quinone or similar compound as acceptor	amigo.geneontol...
GO GO:0009309	View Gene Set	2.967e-05	83	0.002086	190	amine biosynthetic process	amigo.geneontol...
GO GO:0006091	View Gene Set	3.425e-05	339	0.002396	191	generation of precursor metabolites and energy	amigo.geneontol...
GO GO:0000775	View Gene Set	3.475e-05	146	0.002418	192	chromosome centromeric region	amigo.geneontol...
GO GO:0009295	View Gene Set	3.764e-05	31	0.002592	193	nucleoid	amigo.geneontol...
GO GO:0042645	View Gene Set	3.764e-05	31	0.002592	193	mitochondrial nucleoid	amigo.geneontol...
GO GO:0006405	View Gene Set	4.009e-05	44	0.002747	195	RNA export from nucleus	amigo.geneontol...
GO GO:0006281	View Gene Set	4.136e-05	309	0.002819	196	DNA repair	amigo.geneontol...
GO GO:0005876	View Gene Set	4.305e-05	35	0.00292	197	spindle microtubule	amigo.geneontol...
GO GO:0051536	View Gene Set	4.398e-05	54	0.002953	198	iron-sulfur cluster binding	amigo.geneontol...
GO GO:0051540	View Gene Set	4.398e-05	54	0.002953	198	metal cluster binding	amigo.geneontol...
GO GO:0015980	View Gene Set	4.456e-05	163	0.002977	200	energy derivation by oxidation of organic compounds	amigo.geneontol...

Gene Set Collection: Broad.c1.CYTOBAND

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 Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad chr17q25	View Gene Set	6.32e-08	172	2.06e-05	1	Genes in cytogenetic band chr17q25	www.broad.mit.e...
Broad chr22q13	View Gene Set	3.992e-07	179	6.507e-05	2	Genes in cytogenetic band chr22q13	www.broad.mit.e...
Broad chr17p13	View Gene Set	1.448e-05	225	0.001573	3	Genes in cytogenetic band chr17p13	www.broad.mit.e...
Broad chr16p13	View Gene Set	8.66e-05	254	0.007057	4	Genes in cytogenetic band chr16p13	www.broad.mit.e...
Broad chr9q34	View Gene Set	0.000277	204	0.01806	5	Genes in cytogenetic band chr9q34	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_24HR_DN	View Gene Set	2.633e-73	920	6.299e-70	1	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 KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_DN	View Gene Set	1.203e-50	832	1.438e-47	2	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 MANALO_HYPOXIA_DN	View Gene Set	4.052e-47	276	3.231e-44	3	Genes down-regulated in response to both hypoxia and overexpression of an active form of HIF1A [Gene ID=3091].	www.broad.mit.e...
Broad PUJANA_CHEK2_PCC_NETWORK	View Gene Set	4.728e-45	744	2.827e-42	4	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 PUJANA_BRCA1_PCC_NETWORK	View Gene Set	4.061e-44	1582	1.943e-41	5	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 CAIRO_HEPATOBLASTOMA_CLASSES_UP	View Gene Set	6.956e-41	577	2.773e-38	6	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 WEI_MYCN_TARGETS_WITH_E_BOX	View Gene Set	2.805e-34	757	9.586e-32	7	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 WONG_EMBRYONIC_STEM_CELL_CORE	View Gene Set	4.887e-30	331	1.461e-27	8	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 MOOTHA_MITOCHONDRIA	View Gene Set	7.029e-30	433	1.868e-27	9	Mitochondrial genes	www.broad.mit.e...
Broad MOOTHA_HUMAN_MITODB_6_2002	View Gene Set	1.592e-24	420	3.807e-22	10	Mitochondrial genes; based on literature and sequence annotation resources and converted to Affymetrix HG-U133A probe sets.	www.broad.mit.e...
Broad SCHLOSSER_MYC_TARGETS_REPRESSED_BY_SERUM	View Gene Set	4.979e-22	154	1.083e-19	11	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 DODD_NASOPHARYNGEAL_CARCINOMA_DN	View Gene Set	6.421e-22	1253	1.28e-19	12	Genes down-regulated in nasopharyngeal carcinoma (NPC) compared to the normal tissue.	www.broad.mit.e...
Broad KINSEY_TARGETS_OF_EWSR1_FLII_FUSION_UP	View Gene Set	1.399e-20	1180	2.575e-18	13	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 MUELLER_PLURINET	View Gene Set	4.517e-17	294	7.718e-15	14	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	2.235e-16	415	3.564e-14	15	Genes down-regulated in Daudi cells (B lymphocytes) stably expressing CD5 [Gene ID=921] off a plasmid vector.	www.broad.mit.e...
Broad WONG_MITOCHONDRIA_GENE_MODULE	View Gene Set	1.152e-15	208	1.722e-13	16	Genes that comprise the mitochondria gene module	www.broad.mit.e...
Broad SCHUHMACHER_MYC_TARGETS_UP	View Gene Set	7.652e-15	68	1.077e-12	17	Genes up-regulated in P493-6 cells (Burkitt's lymphoma) induced to express MYC [Gene ID=4609].	www.broad.mit.e...
Broad WELCSH_BRCA1_TARGETS_1_DN	View Gene Set	5.041e-14	124	6.699e-12	18	Upregulated by induction of exogenous BRCA1 in EcR-293 cells	www.broad.mit.e...
Broad SCHLOSSER_MYC_TARGETS_AND_SERUM_RESPONSE_UP	View Gene Set	1.313e-13	45	1.653e-11	19	Cluster 5: genes up-regulated in B493-6 cells (B lymphocytes) by MYC [Gene ID=4609] alone or in combination with serum but not by serum alone.	www.broad.mit.e...
Broad PUJANA_BRCA2_PCC_NETWORK	View Gene Set	1.628e-13	410	1.947e-11	20	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 DANG_BOUND_BY_MYC	View Gene Set	4.369e-13	1045	4.976e-11	21	Genes whose promoters are bound by MYC [Gene ID=4609] according to MYC Target Gene Database.	www.broad.mit.e...
Broad TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C	View Gene Set	4.699e-12	436	5.109e-10	22	Genes down-regulated in HCT116 cells (colon cancer) upon expression of MIR34B or MIR34C [Gene ID=407041 407042] microRNAs.	www.broad.mit.e...
Broad GINESTIER_BREAST_CANCER_ZNF217_AMPLIFIED_DN	View Gene Set	9.741e-12	308	1.013e-09	23	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 GRADE_COLON_CANCER_UP	View Gene Set	1.494e-11	711	1.489e-09	24	Up-regulated genes in colon carcinoma tumors compared to the matched normal mucosa samples.	www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_14	View Gene Set	7.285e-11	131	6.97e-09	25	Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 14.	www.broad.mit.e...
Broad MONNIER_POSTRADIATION_TUMOR_ESCAPE_UP	View Gene Set	8.32e-11	359	7.655e-09	26	The postradiation tumor escape signature: genes up-regulated in tumors from irradiated stroma vs those from non-irradiated stroma.	www.broad.mit.e...
Broad TARTE_PLASMA_CELL_VS_PLASMABLAST_DN	View Gene Set	1.139e-10	303	1.009e-08	27	Genes down-regulated in mature plasma cells compared with plasmablastic B lymphocytes.	www.broad.mit.e...
Broad SCHLOSSER_MYC_TARGETS_AND_SERUM_RESPONSE_DN	View Gene Set	2.097e-10	46	1.792e-08	28	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 SCHLOSSER_MYC_AND_SERUM_RESPONSE_SYNERGY	View Gene Set	4.022e-10	31	3.317e-08	29	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 BERENJENO_TRANSFORMED_BY_RHOA_UP	View Gene Set	6.352e-10	485	5.064e-08	30	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 TIEN_INTESTINE_PROBIOTICS_24HR_UP	View Gene Set	2.504e-09	537	1.932e-07	31	Genes up-regulated in Caco-2 cells (intestinal epithelium) after coculture with the probiotic bacteria L. casei for 24h.	www.broad.mit.e...
Broad PUJANA_XPRSS_INT_NETWORK	View Gene Set	3.576e-09	164	2.673e-07	32	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 MOOTHA_VOXPHOS	View Gene Set	5.383e-09	82	3.902e-07	33	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 ELVIDGE_HYPOXIA_DN	View Gene Set	8.622e-09	136	6.066e-07	34	Genes down-regulated in MCF7 cells (breast cancer) under hypoxia conditions.	www.broad.mit.e...
Broad DANG_MYC_TARGETS_UP	View Gene Set	1.636e-08	127	1.118e-06	35	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 BENPORATH_MYC_MAX_TARGETS	View Gene Set	1.907e-08	768	1.267e-06	36	Set 'Myc targets2': targets of c-Myc [Gene ID=4609] and Max [Gene ID=4149] identified by ChIP on chip in a Burkitt???s lymphoma cell line; overlap set.	www.broad.mit.e...
Broad PUJANA_ATM_PCC_NETWORK	View Gene Set	2.533e-08	1375	1.637e-06	37	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 PUJANA_BRCA_CENTERED_NETWORK	View Gene Set	3.747e-08	92	2.359e-06	38	Genes constituting the BRCA-centered network (BCN).	www.broad.mit.e...
Broad GARCIA_TARGETS_OF_FLI1_AND_DAX1_DN	View Gene Set	4.068e-08	148	2.495e-06	39	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 ZHANG_RESPONSE_TO_CANTHARIDIN_DN	View Gene Set	7.816e-08	60	4.674e-06	40	Genes down-regulated in HL-60 cells (promyeloid leukemia) by cantharidin [PubChem=6708701].	www.broad.mit.e...
Broad CASORELLI_ACUTE_PROMYELOCYTIC_LEUKEMIA_DN	View Gene Set	8.518e-08	639	4.97e-06	41	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 STEIN_ESRRA_TARGETS_UP	View Gene Set	1.16e-07	368	6.607e-06	42	Genes up-regulated by ESRRA [Gene ID=2101] only.	www.broad.mit.e...
Broad PAL_PRMT5_TARGETS_UP	View Gene Set	1.42e-07	178	7.717e-06	43	Genes up-regulated in NIH-3T3 cells (fibroblast) after knockdown of PRMT5 [Gene ID=10419] by RNAi.	www.broad.mit.e...
Broad MOOTHA_PGC	View Gene Set	1.405e-07	329	7.717e-06	43	Genes up-regulated in differentiating C2C12 cells (myoblasts) upon expression of PPARGC1A [Gene ID=10891] off an adenoviral vector.	www.broad.mit.e...
Broad CHAUHAN_RESPONSE_TO_METHOXYESTRADIOL_UP	View Gene Set	2.361e-07	47	1.255e-05	45	Genes up-regulated by 2-methoxyestradiol (2ME2) [PubChem=1573] in the MM.1S cell line (multiple myeloma) sensitive to dexamethasone [PubChem=5743].	www.broad.mit.e...
Broad SHEDDEN_LUNG_CANCER_POOR_SURVIVAL_A6	View Gene Set	2.615e-07	435	1.36e-05	46	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 UDAYAKUMAR_MED1_TARGETS_UP	View Gene Set	2.987e-07	129	1.489e-05	47	Genes up-regulated in HeLa cells after knockdown of MED1 [Gene ID=5469] by RNAi.	www.broad.mit.e...
Broad CROONQUIST_IL6_DEPRIVATION_DN	View Gene Set	2.935e-07	80	1.489e-05	47	Genes down-regulated in the ANBL-6 cell line (multiple myeloma MM) after withdrawal of IL6 [Gene ID=3569].	www.broad.mit.e...
Broad RHEIN_ALL_GLUCOCORTICOID_THERAPY_DN	View Gene Set	4.366e-07	351	2.131e-05	49	Genes down-regulated in ALL (acute lymphoblastic leukemia) blasts after 1 week of treatment with glucocorticoids.	www.broad.mit.e...
Broad DAIRKEE_TERT_TARGETS_UP	View Gene Set	6.443e-07	317	3.082e-05	50	Genes up-regulated in non-spontaneously immortalizing (NSI) primary breast cancer tumor cultures upon expression of TERT [Gene ID=7015] off a retroviral vector.	www.broad.mit.e...
Broad MOREAUX_MULTIPLE_MYELOMA_BY_TACI_DN	View Gene Set	6.802e-07	121	3.19e-05	51	Genes distinguishing in multiple myeloma (MM) samples with lower expression of TACI [Gene ID=23495].	www.broad.mit.e...
Broad PENG_GLUTAMINE_DEPRIVATION_DN	View Gene Set	1.191e-06	84	5.376e-05	52	Genes down-regulated in BJAB cells (B-lymphoma) after glutamine [PubChem=738] deprivation.	www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_17	View Gene Set	1.188e-06	165	5.376e-05	52	Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 17.	www.broad.mit.e...
Broad PENG_RAPAMYCIN_RESPONSE_DN	View Gene Set	1.359e-06	69	5.912e-05	54	Genes down-regulated in BJUB cells (B-lymphoma) in response to rapamycin [PubChem=6610346] treatment.	www.broad.mit.e...
Broad BILD_MYC_ONCOGENIC_SIGNATURE	View Gene Set	1.358e-06	187	5.912e-05	54	Genes selected in supervised analyses to discriminate cells expressing c-Myc [Gene ID=4609] from control cells expressing GFP.	www.broad.mit.e...
Broad KIM_MYC_AMPLIFICATION_TARGETS_UP	View Gene Set	1.406e-06	155	6.007e-05	56	Genes positively correlated with amplifications of MYC [Gene ID=4609] in SCLC (small cell lung cancer) cell lines.	www.broad.mit.e...
Broad HESS_TARGETS_OF_HOXA9_AND_MEIS1_UP	View Gene Set	1.615e-06	59	6.779e-05	57	Genes up-regulated in hematopoietic precursor cells conditionally expressing HOXA9 and MEIS1 [Gene ID=3205 4211].	www.broad.mit.e...
Broad CROONQUIST_NRAS_SIGNALING_DN	View Gene Set	1.692e-06	62	6.977e-05	58	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 RODRIGUES_THYROID_CARCINOMA_POORLY_DIFFERENTIATED_UP	View Gene Set	1.868e-06	589	7.574e-05	59	Genes up-regulated in poorly differentiated thyroid carcinoma (PDTC) compared to normal thyroid tissue.	www.broad.mit.e...
Broad GOLDRATH_HOMEOSTATIC_PROLIFERATION	View Gene Set	2.226e-06	154	8.875e-05	60	Up-regulated in CD8+ [Gene ID=925] T lymphocytes undergoing homeostatic proliferation (HP) versus the naive cells; these genes are not up-regulated versus effector or memory cell population.	www.broad.mit.e...
Broad FRASOR_RESPONSE_TO_SERM_OR_FULVESTRANT_DN	View Gene Set	2.358e-06	43	9.245e-05	61	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 ZHONG_RESPONSE_TO_AZACITIDINE_AND_TSA_DN	View Gene Set	2.498e-06	61	9.639e-05	62	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 LI_WILMS_TUMOR_VS_FETAL_KIDNEY_1_DN	View Gene Set	2.678e-06	158	0.0001017	63	Genes down-regulated in Wilm's tumor samples compared to fetal kidney.	www.broad.mit.e...
Broad IVANOVA_HEMATOPOIESIS_EARLY_PROGENITOR	View Gene Set	2.899e-06	100	0.0001083	64	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 BLUM_RESPONSE_TO_SALIRASIB_DN	View Gene Set	3.361e-06	332	0.0001237	65	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 KAUFFMANN_DNA_REPLICATION_GENES	View Gene Set	3.441e-06	128	0.0001247	66	Genes involved in DNA replication compiled manually by the authors.	www.broad.mit.e...
Broad MORI_EMU_MYC_LYMPHOMA_BY_ONSET_TIME_UP	View Gene Set	4.48e-06	92	0.0001598	67	Genes correlated with the early tumor onset in the Emu-myc transgenic mouse lymphoma model.	www.broad.mit.e...
Broad HOSHIDA_LIVER_CANCER_SUBCLASS_S2	View Gene Set	4.543e-06	114	0.0001598	67	Genes from 'subtype S2' signature of hepatocellular carcinoma (HCC): proliferation MYC and AKT1 [Gene ID=4609 207] activation.	www.broad.mit.e...
Broad VECCHI_GASTRIC_CANCER_EARLY_UP	View Gene Set	5.419e-06	408	0.0001879	69	Up-regulated genes distinguishing between early gastric cancer (EGC) and normal tissue samples.	www.broad.mit.e...
Broad PUJANA_BREAST_CANCER_WITH_BRCA1_MUTATED_UP	View Gene Set	5.854e-06	53	0.0002001	70	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 DAIRKEE_CANCER_PRONE_RESPONSE_BPA	View Gene Set	6.24e-06	46	0.0002102	71	'Cancer prone response profile' (CPRP): genes changed in response to bisphenol A [PubChem=6623] in epithelial cell cultures from patients at high risk of breast cancer.	www.broad.mit.e...
Broad GARGALOVIC_RESPONSE_TO_OXIDIZED_PHOSPHOLIPIDS_TURQUOISE_DN	View Gene Set	6.504e-06	51	0.0002161	72	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 DANG_REGULATED_BY_MYC_UP	View Gene Set	7.82e-06	65	0.0002562	73	Genes up-regulated by MYC [Gene ID=4609] according to the MYC Target Gene Database.	www.broad.mit.e...
Broad COLDREN_GEFITINIB_RESISTANCE_UP	View Gene Set	1.256e-05	74	0.0004061	74	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 BENPORATH_MYC_TARGETS_WITH_EBOX	View Gene Set	1.653e-05	229	0.0005271	75	Set 'Myc targets1': targets of c-Myc [Gene ID=4609] identified by ChIP on chip in cultured cell lines focusing on E-box???containing genes; high affinity bound subset	www.broad.mit.e...
Broad LIU_SOX4_TARGETS_DN	View Gene Set	1.856e-05	297	0.0005768	76	Genes down-regulated in LNCaP cells (prostate cancer) by overexpression of SOX4 [Gene ID=6659] and up-regulated by its RNAi knockdown.	www.broad.mit.e...
Broad ELVIDGE_HIF1A_TARGETS_UP	View Gene Set	1.857e-05	64	0.0005768	76	Genes up-regulated in MCF7 cells (breast cancer) after knockdown of HIF1A [Gene ID=3091] by RNAi.	www.broad.mit.e...
Broad BERTUCCI_MEDULLARY_VS_DUCTAL_BREAST_CANCER_UP	View Gene Set	2.137e-05	190	0.0006554	78	Genes up-regulated in medullary breast cancer (MBC) relative to ductal breast cancer (DBD).	www.broad.mit.e...
Broad DIAZ_CHRONIC_MEYLOGENOUS_LEUKEMIA_UP	View Gene Set	2.588e-05	1353	0.0007837	79	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 MISSIAGLIA_REGULATED_BY_METHYLATION_DN	View Gene Set	2.964e-05	96	0.0008861	80	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 BASSO_B_LYMPHOCYTE_NETWORK	View Gene Set	3.15e-05	136	0.0009303	81	Genes which comprise the top 1% of highly interconnected genes (major hubs) that account for most of gene interactions in the reconstructed regulatory networks from expression profiles in B lymphocytes.	www.broad.mit.e...
Broad GINESTIER_BREAST_CANCER_20Q13_AMPLIFICATION_DN	View Gene Set	3.428e-05	160	0.0009999	82	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 RIZ_ERYTHROID_DIFFERENTIATION	View Gene Set	3.803e-05	71	0.001096	83	Selected gradually up-regulated genes in the TLX1 [Gene ID=3195] Tet On iEBHX15-4 cells (pro-erythroblasts).	www.broad.mit.e...
Broad BENPORATH_CYCLING_GENES	View Gene Set	4.012e-05	630	0.001142	84	Genes showing cell-cycle stage-specific expression [PMID=12058064].	www.broad.mit.e...
Broad STEIN_ESRRA_TARGETS	View Gene Set	4.723e-05	508	0.001329	85	Genes regulated by ESRRA [Gene ID=2101] in MCF-7 cells (breast cancer).	www.broad.mit.e...
Broad FERREIRA_EWINGS_SARCOMA_UNSTABLE_VS_STABLE_UP	View Gene Set	5.418e-05	144	0.001507	86	Genes up-regulated in genomically unstable Ewing's sarcoma tumors compared to the stable ones.	www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_16P13_AMPLICON	View Gene Set	5.491e-05	115	0.00151	87	Genes within amplicon 16p13 identified in a study of 191 breast tumor samples.	www.broad.mit.e...
Broad KOBAYASHI_EGFR_SIGNALING_24HR_DN	View Gene Set	6.399e-05	243	0.001739	88	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 RICKMAN_TUMOR_DIFFERENTIATED_MODERATELY_VS_POORLY_UP	View Gene Set	6.685e-05	36	0.001777	89	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	6.685e-05	36	0.001777	89	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 ELVIDGE_HYPOXIA_BY_DMOG_DN	View Gene Set	7.223e-05	56	0.001899	91	Genes down-regulated in MCF7 cells (breast cancer) treated with hypoxia mimetic DMOG [PubChem=3080614].	www.broad.mit.e...
Broad MITSIADES_RESPONSE_TO_APLIDIN_DN	View Gene Set	8.513e-05	241	0.002213	92	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 SOTIRIOU_BREAST_CANCER_GRADE_1_VS_3_UP	View Gene Set	9.824e-05	143	0.002527	93	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 WONG_PROTEASOME_GENE_MODULE	View Gene Set	0.0001013	46	0.002551	94	Genes that comprise the proteasome gene module	www.broad.mit.e...
Broad WINNEPENNINCKX_MELANOMA_METASTASIS_UP	View Gene Set	0.0001009	152	0.002551	94	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 BENPORATH_ES_1	View Gene Set	0.0001091	367	0.002718	96	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 SONG_TARGETS_OF_IE86_CMV_PROTEIN	View Gene Set	0.0001218	49	0.003004	97	Cellular genes up-regulated in forskin fibroblasts by expression of CMV EI86 protein off an adenovirus vector.	www.broad.mit.e...
Broad FERRANDO_T_ALL_WITH_MLL_ENL_FUSION_DN	View Gene Set	0.000132	76	0.003223	98	Top 100 genes positively (UP) and negatively (DN) associated with T-cell acute lymphoblastic leukemia MLL T-ALL) expressing MLL-ENL fusion [Gene ID=4297 4298].	www.broad.mit.e...
Broad GAJATE_RESPONSE_TO_TRABECTEDIN_DN	View Gene Set	0.0001776	16	0.004291	99	Genes down-regulated in HeLa cells (cervical carcinoma) by trabectedin [PubChem=3199].	www.broad.mit.e...
Broad WHITEFORD_PEDIATRIC_CANCER_MARKERS	View Gene Set	0.0001831	92	0.004381	100	Differentially expressed genes in a panel of xenografts representing 8 common pediatric tumors compared to the normal tissues.	www.broad.mit.e...
Broad ROSTY_CERVICAL_CANCER_PROLIFERATION_CLUSTER	View Gene Set	0.0002389	138	0.005621	101	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 BENPORATH_PROLIFERATION	View Gene Set	0.0002397	140	0.005621	101	Set 'Proliferation Cluster': genes defined in human breast tumor expression data.	www.broad.mit.e...
Broad MENSSEN_MYC_TARGETS	View Gene Set	0.0003018	16	0.007004	103	Genes up-regulated by adenoviral expression of c-MYC [Gene ID=4609] in HUVEC cells (umbilical vein endothelium).	www.broad.mit.e...
Broad KIM_GASTRIC_CANCER_CHEMOSENSITIVITY	View Gene Set	0.0003045	97	0.007004	103	Genes up-regulated in gastric cancer patients refractory to chemotherapy treatment with 5-fluorouracil and cisplatin [PubChem=3385 2767] compared to the sensitive state.	www.broad.mit.e...
Broad GRADE_COLON_AND_RECTAL_CANCER_UP	View Gene Set	0.0003141	213	0.007155	105	Up-regulated genes in both rectal and colon carcinoma compared to normal mucosa samples.	www.broad.mit.e...
Broad NUTT_GBM_VS_AO_GLIOMA_DN	View Gene Set	0.000359	43	0.0081	106	Top 50 marker genes for anaplastic oligodendroglioma (AO) a class of high grade glioma.	www.broad.mit.e...
Broad KAUFFMANN_DNA_REPAIR_GENES	View Gene Set	0.0003863	205	0.008635	107	Genes involved in DNA repair compiled manually by the authors.	www.broad.mit.e...
Broad RAMALHO_STEMNESS_UP	View Gene Set	0.0004001	192	0.008861	108	Genes enriched in embryonic neural and hematopoietic stem cells.	www.broad.mit.e...
Broad SPIELMAN_LYMPHOBLAST_EUROPEAN_VS_ASIAN_UP	View Gene Set	0.0005045	469	0.01107	109	Genes up-regulated in lymphoblastoid cells from the European population compared to those from the Asian population.	www.broad.mit.e...
Broad MATTIOLI_MGUS_VS_PCL	View Gene Set	0.0006202	109	0.01336	110	Genes changed in MGUS (monoclonal gammopathy of undetermined significance) compared to PCL (plasma cell leukemia) samples.	www.broad.mit.e...
Broad BHATTACHARYA_EMBRYONIC_STEM_CELL	View Gene Set	0.0006149	76	0.01336	110	The 'stemnes' signature: genes up-regulated and common to 6 human embryonic stem cell lines tested.	www.broad.mit.e...
Broad LOCKWOOD_AMPLIFIED_IN_LUNG_CANCER	View Gene Set	0.0006465	167	0.01381	112	Overexpressed genes with amplified copy number across 27 non-small cell lung cancer (NSCLC) cell lines.	www.broad.mit.e...
Broad NUYTTEN_EZH2_TARGETS_DN	View Gene Set	0.0006679	859	0.01414	113	Genes down-regulated in PC3 cells (prostate cancer) after knockdown of EZH2 [Gene ID=2146] by RNAi.	www.broad.mit.e...
Broad GALE_APL_WITH_FLT3_MUTATED_UP	View Gene Set	0.0006764	52	0.01419	114	Genes up-regulated in acute promyelocytic leukemia (APL) patients with mutated FLT3 [Gene ID=2322].	www.broad.mit.e...
Broad APPIERTO_RESPONSE_TO_FENRETINIDE_DN	View Gene Set	0.0007556	40	0.01572	115	Genes down-regulated in A2780 cells (ovarian carcinoma) exposed to fenretinide [PubChem=1744].	www.broad.mit.e...
Broad NAKAMURA_CANCER_MICROENVIRONMENT_DN	View Gene Set	0.0007833	45	0.01615	116	Genes down-regulated in pancreatic cancer cells grown in orthotopic xenograft tumors compared to those grown in vitro.	www.broad.mit.e...
Broad LEE_METASTASIS_AND_RNA_PROCESSING_UP	View Gene Set	0.0008886	15	0.01801	117	Components of RNA post-transcriptional modification machinery up-regulated in MDA-MB-435 cells (breast cancer) whose metastatic potential has been reduced by expression of NME1 [Gene ID=4830].	www.broad.mit.e...
Broad ACEVEDO_NORMAL_TISSUE_ADJACENT_TO_LIVER_TUMOR_DN	View Gene Set	0.0008864	346	0.01801	117	Genes down-regulated in normal tissue adjacent to liver tumor compared to the normal liver samples.	www.broad.mit.e...
Broad CASTELLANO_HRAS_AND_NRAS_TARGETS_UP	View Gene Set	0.0009234	5	0.01856	119	Genes up-regulated in MEF cells (embryonic fibroblasts) isolated from HRAS [Gene ID=3265] and NRAS [Gene ID=4893] double knockout mice.	www.broad.mit.e...
Broad FOURNIER_ACINAR_DEVELOPMENT_LATE_2	View Gene Set	0.0009684	265	0.0193	120	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 RICKMAN_TUMOR_DIFFERENTIATED_WELL_VS_POORLY_UP	View Gene Set	0.001001	220	0.01978	121	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 LY_AGING_OLD_DN	View Gene Set	0.001023	47	0.02005	122	Genes up-regulated in fibroblasts from old individuals compared to those from young donors.	www.broad.mit.e...
Broad DAIRKEE_CANCER_PRONE_RESPONSE_BPA_E2	View Gene Set	0.001071	111	0.02084	123	'Cancer prone response profile' (CPRP): genes common to estradiol and bisphenol A [PubChem=5757 6623] response of epithelial cell cultures from patients at high risk of breast cancer.	www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_11	View Gene Set	0.001092	93	0.02107	124	Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 11.	www.broad.mit.e...
Broad ZHAN_MULTIPLE_MYELOMA_SUBGROUPS	View Gene Set	0.001116	28	0.02136	125	Top genes up-regulated in MM4 vs MM1 subgroup of multiple myeloma samples.	www.broad.mit.e...
Broad ELVIDGE_HIF1A_AND_HIF2A_TARGETS_UP	View Gene Set	0.001165	38	0.02212	126	Genes up-regulated in MCF7 cells (breast cancer) after knockdown of both HIF1A and HIF2A [Gene ID=3091 2034] by RNAi.	www.broad.mit.e...
Broad PUJANA_BREAST_CANCER_LIT_INT_NETWORK	View Gene Set	0.001234	100	0.02323	127	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 JIANG_TIP30_TARGETS_DN	View Gene Set	0.001252	23	0.02339	128	Down-regulated genes in HepG2 cells (liver cancer) overexpressing an oncogenic variant of tumor suppressor TIP30 [Gene ID=10553] compared to its wild type form.	www.broad.mit.e...
Broad CHANG_CORE_SERUM_RESPONSE_UP	View Gene Set	0.001286	66	0.02384	129	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 MARKEY_RB1_ACUTE_LOF_DN	View Gene Set	0.001385	201	0.02549	130	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 TONG_INTERACT_WITH_PTTG1	View Gene Set	0.001468	53	0.02681	131	Proteins that interact with PTTG1 [Gene ID=9232] based on protein array.	www.broad.mit.e...
Broad DOUGLAS_BMI1_TARGETS_UP	View Gene Set	0.001507	497	0.02732	132	Genes up-regulated in A4573 cells (Ewing's sarcoma ESFT) after knockdown of BMI1 [Gene ID=648] by RNAi.	www.broad.mit.e...
Broad WAKASUGI_HAVE_ZNF143_BINDING_SITES	View Gene Set	0.001541	55	0.02771	133	DNA repair genes whose promoters contain putative ZNF143 [Gene ID=7702] binding sites.	www.broad.mit.e...
Broad ZHAN_MULTIPLE_MYELOMA_UP	View Gene Set	0.001592	52	0.02842	134	Genes most significantly up-regulated in multiple myeloma samples compared to normal bone marrow plasma cells.	www.broad.mit.e...
Broad BIDUS_METASTASIS_UP	View Gene Set	0.001861	203	0.03233	135	Genes up-regulated in endometroid endometrial tumors from patients with lymph node metastases compared to those without the metastases.	www.broad.mit.e...
Broad EGUCHI_CELL_CYCLE_RB1_TARGETS	View Gene Set	0.001837	19	0.03233	135	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 VANTVEER_BREAST_CANCER_BRCA1_UP	View Gene Set	0.001861	32	0.03233	135	Up-regulated genes from the optimal set of 100 markers discriminating ER(-) breast cancer tumors by BRCA1 [Gene ID=672] mutation status.	www.broad.mit.e...
Broad BROWNE_HCMV_INFECTION_14HR_UP	View Gene Set	0.001865	150	0.03233	135	Genes up-regulated in primary fibroblast cell culture after infection with HCMV (AD169 strain) at 14 h time point that were not up-regulated at the previous time point 12 h.	www.broad.mit.e...
Broad MORI_LARGE_PRE_BII_LYMPHOCYTE_UP	View Gene Set	0.001995	52	0.03424	139	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 ZHAN_MULTIPLE_MYELOMA_CD2_DN	View Gene Set	0.002004	43	0.03424	139	Top 50 down-regulated genes in cluster CD-2 of multiple myeloma samples with the charachteristic expression spike of CCND3 [Gene ID=896].	www.broad.mit.e...
Broad YU_MYC_TARGETS_UP	View Gene Set	0.002113	37	0.03585	141	Genes up-regulated in B cell lymphoma tumors expressing an activated form of MYC [Gene ID=4609].	www.broad.mit.e...
Broad CHEMNITZ_RESPONSE_TO_PROSTAGLANDIN_E2_UP	View Gene Set	0.002153	135	0.03617	142	Genes up-regulated in CD4+ [Gene ID=920] T lymphocytes after stimulation with prostaglandin E2 [PubChem=5280360].	www.broad.mit.e...
Broad KAUFFMANN_MELANOMA_RELAPSE_UP	View Gene Set	0.002162	57	0.03617	142	DNA repair and replication genes up-regulated in melanoma patients who will relapse vs patients who will not.	www.broad.mit.e...
Broad MOREAUX_B_LYMPHOCYTE_MATURATION_BY_TACI_DN	View Gene Set	0.002402	42	0.0399	144	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 COLLER_MYC_TARGETS_UP	View Gene Set	0.002594	12	0.04278	145	Genes regulated by forced expression of MYC [Gene ID=4609] in 293T (transformed fetal renal cell).	www.broad.mit.e...
Broad GRATIAS_RETINOBLASTOMA_16Q24	View Gene Set	0.002611	17	0.04278	145	Genes from 16q24 region up-regulated in retinoblastoma tumors with 16q24 LOH (loss of heterozygocity) compared to those without the LOH.	www.broad.mit.e...
Broad GRAHAM_CML_DIVIDING_VS_NORMAL_QUIESCENT_UP	View Gene Set	0.002718	180	0.04423	147	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 ZHANG_BREAST_CANCER_PROGENITORS_UP	View Gene Set	0.002762	370	0.04465	148	Genes changed in cancer stem cells isolated from mammary tumors compared to the non-tumorigenic cells.	www.broad.mit.e...
Broad FUJII_YBX1_TARGETS_DN	View Gene Set	0.002822	139	0.0453	149	Genes down-regulated in MCF-7 cells (breast cancer) after knockdown of YBX1 [Gene ID=4904] by RNAi.	www.broad.mit.e...
Broad CAFFAREL_RESPONSE_TO_THC_DN	View Gene Set	0.002876	25	0.04586	150	Genes down-regulated in EVSA-T cells (breast cancer) treated THC (delta-9-tetrahydrocannabinol) [PubChem=6610319].	www.broad.mit.e...
Broad CHUANG_OXIDATIVE_STRESS_RESPONSE_DN	View Gene Set	0.003012	10	0.04771	151	Genes down-regulated in MCF7 cells (breast cancer) after treatment with the oxydants: hydrogen peroxyde menadione and t-butyl hydroperoxyde [PubChem=784 4055 6410].	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_ATRBRCA_PATHWAY	View Gene Set	5.557e-05	21	0.01206	1	Role of BRCA1 BRCA2 and ATR in Cancer Susceptibility	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad KEGG_AMINOACYL_TRNA_BIOSYNTHESIS	View Gene Set	2.548e-12	41	2.695e-10	1	Aminoacyl-tRNA biosynthesis	www.broad.mit.e...
Broad KEGG_SPLICEOSOME	View Gene Set	2.898e-12	118	2.695e-10	1	Spliceosome	www.broad.mit.e...
Broad KEGG_PARKINSONS_DISEASE	View Gene Set	1.334e-08	133	8.272e-07	3	Parkinson's disease	www.broad.mit.e...
Broad KEGG_HUNTINGTONS_DISEASE	View Gene Set	5.286e-07	185	2.458e-05	4	Huntington's disease	www.broad.mit.e...
Broad KEGG_VALINE_LEUCINE_AND_ISOLEUCINE_BIOSYNTHESIS	View Gene Set	1.095e-05	11	0.0004074	5	Valine leucine and isoleucine biosynthesis	www.broad.mit.e...
Broad KEGG_PYRIMIDINE_METABOLISM	View Gene Set	1.772e-05	98	0.0005495	6	Pyrimidine metabolism	www.broad.mit.e...
Broad KEGG_ONE_CARBON_POOL_BY_FOLATE	View Gene Set	4.713e-05	17	0.001252	7	One carbon pool by folate	www.broad.mit.e...
Broad KEGG_RNA_POLYMERASE	View Gene Set	5.911e-05	29	0.001374	8	RNA polymerase	www.broad.mit.e...
Broad KEGG_LYSINE_DEGRADATION	View Gene Set	9.285e-05	44	0.001919	9	Lysine degradation	www.broad.mit.e...
Broad KEGG_OXIDATIVE_PHOSPHORYLATION	View Gene Set	0.0001609	135	0.002992	10	Oxidative phosphorylation	www.broad.mit.e...
Broad KEGG_RNA_DEGRADATION	View Gene Set	0.00031	59	0.005241	11	RNA degradation	www.broad.mit.e...
Broad KEGG_BASE_EXCISION_REPAIR	View Gene Set	0.0011	35	0.01704	12	Base excision repair	www.broad.mit.e...
Broad KEGG_PURINE_METABOLISM	View Gene Set	0.00143	157	0.02046	13	Purine metabolism	www.broad.mit.e...
Broad KEGG_CITRATE_CYCLE_TCA_CYCLE	View Gene Set	0.001772	32	0.02354	14	Citrate cycle (TCA cycle)	www.broad.mit.e...
Broad KEGG_PYRUVATE_METABOLISM	View Gene Set	0.002035	40	0.02524	15	Pyruvate metabolism	www.broad.mit.e...
Broad KEGG_DNA_REPLICATION	View Gene Set	0.002626	36	0.02967	16	DNA replication	www.broad.mit.e...
Broad KEGG_PROTEASOME	View Gene Set	0.002712	48	0.02967	16	Proteasome	www.broad.mit.e...
Broad KEGG_GLYCOLYSIS_GLUCONEOGENESIS	View Gene Set	0.003169	62	0.03274	18	Glycolysis / Gluconeogenesis	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA	View Gene Set	1.622e-16	128	6.973e-14	1	Genes involved in Processing of Capped Intron-Containing Pre-mRNA	www.broad.mit.e...
Broad REACTOME_GENE_EXPRESSION	View Gene Set	4.515e-16	415	9.708e-14	2	Genes involved in Gene Expression	www.broad.mit.e...
Broad REACTOME_MRNA_SPLICING	View Gene Set	1.467e-14	97	2.103e-12	3	Genes involved in mRNA Splicing	www.broad.mit.e...
Broad REACTOME_ELONGATION_AND_PROCESSING_OF_CAPPED_TRANSCRIPTS	View Gene Set	2.067e-12	124	2.222e-10	4	Genes involved in Elongation and Processing of Capped Transcripts	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_RNA	View Gene Set	7.629e-12	95	6.561e-10	5	Genes involved in Metabolism of RNA	www.broad.mit.e...
Broad REACTOME_FORMATION_AND_MATURATION_OF_MRNA_TRANSCRIPT	View Gene Set	3.049e-11	142	1.875e-09	6	Genes involved in Formation and Maturation of mRNA Transcript	www.broad.mit.e...
Broad REACTOME_GLUCOSE_REGULATION_OF_INSULIN_SECRETION	View Gene Set	3.053e-11	161	1.875e-09	6	Genes involved in Glucose Regulation of Insulin Secretion	www.broad.mit.e...
Broad REACTOME_SNRNP_ASSEMBLY	View Gene Set	7.482e-10	50	3.587e-08	8	Genes involved in snRNP Assembly	www.broad.mit.e...
Broad REACTOME_TRNA_AMINOACYLATION	View Gene Set	7.509e-10	40	3.587e-08	8	Genes involved in tRNA Aminoacylation	www.broad.mit.e...
Broad REACTOME_TRANSCRIPTION	View Gene Set	4.29e-09	188	1.845e-07	10	Genes involved in Transcription	www.broad.mit.e...
Broad REACTOME_CELL_CYCLE_MITOTIC	View Gene Set	7.381e-09	306	2.885e-07	11	Genes involved in Cell Cycle Mitotic	www.broad.mit.e...
Broad REACTOME_MITOTIC_M_M_G1_PHASES	View Gene Set	9.089e-09	157	3.257e-07	12	Genes involved in Mitotic M-M/G1 phases	www.broad.mit.e...
Broad REACTOME_MRNA_SPLICING_MINOR_PATHWAY	View Gene Set	1.967e-08	38	6.507e-07	13	Genes involved in mRNA Splicing - Minor Pathway	www.broad.mit.e...
Broad REACTOME_TELOMERE_MAINTENANCE	View Gene Set	4.453e-08	77	1.368e-06	14	Genes involved in Telomere Maintenance	www.broad.mit.e...
Broad REACTOME_PACKAGING_OF_TELOMERE_ENDS	View Gene Set	1.893e-07	49	5.426e-06	15	Genes involved in Packaging Of Telomere Ends	www.broad.mit.e...
Broad REACTOME_ELECTRON_TRANSPORT_CHAIN	View Gene Set	2.145e-07	75	5.765e-06	16	Genes involved in Electron Transport Chain	www.broad.mit.e...
Broad REACTOME_INTEGRATION_OF_ENERGY_METABOLISM	View Gene Set	5.138e-07	229	1.3e-05	17	Genes involved in Integration of energy metabolism	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_I_III_AND_MITOCHONDRIAL_TRANSCRIPTION	View Gene Set	5.842e-07	120	1.396e-05	18	Genes involved in RNA Polymerase I RNA Polymerase III and Mitochondrial Transcription	www.broad.mit.e...
Broad REACTOME_MITOCHONDRIAL_TRNA_AMINOACYLATION	View Gene Set	8.961e-07	20	2.028e-05	19	Genes involved in Mitochondrial tRNA aminoacylation	www.broad.mit.e...
Broad REACTOME_TRANSPORT_OF_MATURE_MRNA_DERIVED_FROM_AN_INTRON_CONTAINING_TRANSCRIPT	View Gene Set	1.268e-06	42	2.725e-05	20	Genes involved in Transport of Mature mRNA derived from an Intron-Containing Transcript	www.broad.mit.e...
Broad REACTOME_CYTOSOLIC_TRNA_AMINOACYLATION	View Gene Set	3.671e-06	23	7.517e-05	21	Genes involved in Cytosolic tRNA aminoacylation	www.broad.mit.e...
Broad REACTOME_REGULATION_OF_INSULIN_SECRETION	View Gene Set	1.478e-05	212	0.000289	22	Genes involved in Regulation of Insulin Secretion	www.broad.mit.e...
Broad REACTOME_MITOTIC_PROMETAPHASE	View Gene Set	1.688e-05	92	0.0003157	23	Genes involved in Mitotic Prometaphase	www.broad.mit.e...
Broad REACTOME_DNA_REPAIR	View Gene Set	1.781e-05	102	0.000319	24	Genes involved in DNA Repair	www.broad.mit.e...
Broad REACTOME_HIV_INFECTION	View Gene Set	2.573e-05	183	0.0004426	25	Genes involved in HIV Infection	www.broad.mit.e...
Broad REACTOME_NUCLEAR_IMPORT_OF_REV_PROTEIN	View Gene Set	2.836e-05	30	0.000469	26	Genes involved in Nuclear import of Rev protein	www.broad.mit.e...
Broad REACTOME_MICRORNA_BIOGENESIS	View Gene Set	4.591e-05	18	0.0007312	27	Genes involved in MicroRNA biogenesis	www.broad.mit.e...
Broad REACTOME_HIV_LIFE_CYCLE	View Gene Set	7.046e-05	103	0.001045	28	Genes involved in HIV Life Cycle	www.broad.mit.e...
Broad REACTOME_LATE_PHASE_OF_HIV_LIFE_CYCLE	View Gene Set	6.882e-05	90	0.001045	28	Genes involved in Late Phase of HIV Life Cycle	www.broad.mit.e...
Broad REACTOME_M_G1_TRANSITION	View Gene Set	7.519e-05	61	0.001059	30	Genes involved in M/G1 Transition	www.broad.mit.e...
Broad REACTOME_REV_MEDIATED_NUCLEAR_EXPORT_OF_HIV1_RNA	View Gene Set	7.637e-05	31	0.001059	30	Genes involved in Rev-mediated nuclear export of HIV-1 RNA	www.broad.mit.e...
Broad REACTOME_DNA_REPLICATION_PRE_INITIATION	View Gene Set	8.937e-05	76	0.001164	32	Genes involved in DNA Replication Pre-Initiation	www.broad.mit.e...
Broad REACTOME_NEP_NS2_INTERACTS_WITH_THE_CELLULAR_EXPORT_MACHINERY	View Gene Set	8.714e-05	29	0.001164	32	Genes involved in NEP/NS2 Interacts with the Cellular Export Machinery	www.broad.mit.e...
Broad REACTOME_MRNA_3_END_PROCESSING	View Gene Set	0.0001194	25	0.001478	34	Genes involved in mRNA 3-end processing	www.broad.mit.e...
Broad REACTOME_TRANSPORT_OF_THE_SLBP_INDEPENDENT_MATURE_MRNA	View Gene Set	0.0001203	32	0.001478	34	Genes involved in Transport of the SLBP independent Mature mRNA	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_I_PROMOTER_CLEARANCE	View Gene Set	0.0001254	82	0.001498	36	Genes involved in RNA PolymerasePromoter Clearance	www.broad.mit.e...
Broad REACTOME_REGULATION_OF_GLUCOKINASE_BY_GLUCOKINASE_REGULATORY_PROTEIN	View Gene Set	0.00016	29	0.001859	37	Genes involved in Regulation of Glucokinase by Glucokinase Regulatory Protein	www.broad.mit.e...
Broad REACTOME_HOMOLOGOUS_RECOMBINATION_REPAIR	View Gene Set	0.0002108	15	0.002386	38	Genes involved in Homologous Recombination Repair	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_CARBOHYDRATES	View Gene Set	0.0002835	119	0.003047	39	Genes involved in Metabolism of carbohydrates	www.broad.mit.e...
Broad REACTOME_SYNTHESIS_OF_DNA	View Gene Set	0.0002805	89	0.003047	39	Genes involved in Synthesis of DNA	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_MRNA	View Gene Set	0.0003064	45	0.003213	41	Genes involved in Metabolism of mRNA	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_III_TRANSCRIPTION_INITIATION_FROM_TYPE_2_PROMOTER	View Gene Set	0.0003646	20	0.003733	42	Genes involved in RNA Polymerase III Transcription Initiation From Type 2 Promoter	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_II_TRANSCRIPTION	View Gene Set	0.0003934	83	0.003934	43	Genes involved in RNA Polymerase II Transcription	www.broad.mit.e...
Broad REACTOME_CELL_CYCLE_CHECKPOINTS	View Gene Set	0.0004134	110	0.00404	44	Genes involved in Cell Cycle Checkpoints	www.broad.mit.e...
Broad REACTOME_FORMATION_OF_ATP_BY_CHEMIOSMOTIC_COUPLING	View Gene Set	0.0004354	15	0.00416	45	Genes involved in Formation of ATP by chemiosmotic coupling	www.broad.mit.e...
Broad REACTOME_TRANSPORT_OF_RIBONUCLEOPROTEINS_INTO_THE_HOST_NUCLEUS	View Gene Set	0.0004564	29	0.004255	46	Genes involved in Transport of Ribonucleoproteins into the Host Nucleus	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_I_PROMOTER_OPENING	View Gene Set	0.0004651	59	0.004255	46	Genes involved in RNA Polymerase I Promoter Opening	www.broad.mit.e...
Broad REACTOME_HOST_INTERACTIONS_OF_HIV_FACTORS	View Gene Set	0.0004841	120	0.004336	48	Genes involved in Host Interactions of HIV factors	www.broad.mit.e...
Broad REACTOME_ORC1_REMOVAL_FROM_CHROMATIN	View Gene Set	0.0005191	63	0.004555	49	Genes involved in Orc1 removal from chromatin	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_AMINO_ACIDS	View Gene Set	0.0005701	162	0.004903	50	Genes involved in Metabolism of amino acids	www.broad.mit.e...
Broad REACTOME_DOUBLE_STRAND_BREAK_REPAIR	View Gene Set	0.000583	21	0.004916	51	Genes involved in Double-Strand Break Repair	www.broad.mit.e...
Broad REACTOME_VPR_MEDIATED_NUCLEAR_IMPORT_OF_PICS	View Gene Set	0.0007093	31	0.005865	52	Genes involved in Vpr-mediated nuclear import of PICs	www.broad.mit.e...
Broad REACTOME_UNWINDING_OF_DNA	View Gene Set	0.0007273	11	0.005901	53	Genes involved in Unwinding of DNA	www.broad.mit.e...
Broad REACTOME_ACTIVATION_OF_ATR_IN_RESPONSE_TO_REPLICATION_STRESS	View Gene Set	0.0009319	37	0.007421	54	Genes involved in Activation of ATR in response to replication stress	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_III_TRANSCRIPTION_INITIATION	View Gene Set	0.0009721	29	0.0076	55	Genes involved in RNA Polymerase III Transcription Initiation	www.broad.mit.e...
Broad REACTOME_GLUCOSE_TRANSPORT	View Gene Set	0.001374	38	0.01055	56	Genes involved in Glucose transport	www.broad.mit.e...
Broad REACTOME_GLUCONEOGENESIS	View Gene Set	0.00144	31	0.01086	57	Genes involved in Gluconeogenesis	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_III_TRANSCRIPTION	View Gene Set	0.0016	34	0.01166	58	Genes involved in RNA Polymerase III Transcription	www.broad.mit.e...
Broad REACTOME_MRNA_DECAY_BY_3_TO_5_EXORIBONUCLEASE	View Gene Set	0.00158	11	0.01166	58	Genes involved in mRNA Decay by 3' to 5' Exoribonuclease	www.broad.mit.e...
Broad REACTOME_P53_INDEPENDENT_DNA_DAMAGE_RESPONSE	View Gene Set	0.001767	43	0.01266	60	Genes involved in p53-Independent DNA Damage Response	www.broad.mit.e...
Broad REACTOME_G2_M_CHECKPOINTS	View Gene Set	0.001857	43	0.01309	61	Genes involved in G2/M Checkpoints	www.broad.mit.e...
Broad REACTOME_METAL_ION_SLC_TRANSPORTERS	View Gene Set	0.002145	23	0.01487	62	Genes involved in Metal ion SLC transporters	www.broad.mit.e...
Broad REACTOME_CDT1_ASSOCIATION_WITH_THE_CDC6_ORC_ORIGIN_COMPLEX	View Gene Set	0.002385	52	0.01628	63	Genes involved in CDT1 association with the CDC6:ORC:origin complex	www.broad.mit.e...
Broad REACTOME_CENTROSOME_MATURATION	View Gene Set	0.00248	72	0.01666	64	Genes involved in Centrosome maturation	www.broad.mit.e...
Broad REACTOME_G2_M_TRANSITION	View Gene Set	0.002548	84	0.01684	65	Genes involved in G2/M Transition	www.broad.mit.e...
Broad REACTOME_REGULATION_OF_ORNITHINE_DECARBOXYLASE	View Gene Set	0.002584	47	0.01684	65	Genes involved in Regulation of ornithine decarboxylase (ODC)	www.broad.mit.e...
Broad REACTOME_FORMATION_OF_TUBULIN_FOLDING_INTERMEDIATES_BY_CCT_TRIC	View Gene Set	0.00292	22	0.01874	67	Genes involved in Formation of tubulin folding intermediates by CCT/TriC	www.broad.mit.e...
Broad REACTOME_VIF_MEDIATED_DEGRADATION_OF_APOBEC3G	View Gene Set	0.003109	47	0.01966	68	Genes involved in Vif-mediated degradation of APOBEC3G	www.broad.mit.e...
Broad REACTOME_ASSOCIATION_OF_TRIC_CCT_WITH_TARGET_PROTEINS_DURING_BIOSYNTHESIS	View Gene Set	0.003278	29	0.02043	69	Genes involved in Association of TriC/CCT with target proteins during biosynthesis	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_III_TRANSCRIPTION_INITIATION_FROM_TYPE_3_PROMOTER	View Gene Set	0.003479	22	0.02107	70	Genes involved in RNA Polymerase III Transcription Initiation From Type 3 Promoter	www.broad.mit.e...
Broad REACTOME_STABILIZATION_OF_P53	View Gene Set	0.003473	46	0.02107	70	Genes involved in Stabilization of p53	www.broad.mit.e...
Broad REACTOME_S_PHASE	View Gene Set	0.003716	103	0.02219	72	Genes involved in S Phase	www.broad.mit.e...
Broad REACTOME_ACTIVATION_OF_THE_PRE_REPLICATIVE_COMPLEX	View Gene Set	0.003834	30	0.02259	73	Genes involved in Activation of the pre-replicative complex	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_III_CHAIN_ELONGATION	View Gene Set	0.003986	12	0.02316	74	Genes involved in RNA Polymerase III Chain Elongation	www.broad.mit.e...
Broad REACTOME_CHAPERONIN_MEDIATED_PROTEIN_FOLDING	View Gene Set	0.004162	50	0.02386	75	Genes involved in Chaperonin-mediated protein folding	www.broad.mit.e...
Broad REACTOME_METABLISM_OF_NUCLEOTIDES	View Gene Set	0.004568	71	0.02585	76	Genes involved in Metablism of nucleotides	www.broad.mit.e...
Broad REACTOME_GLUCOSE_METABOLISM	View Gene Set	0.004703	56	0.02626	77	Genes involved in Glucose metabolism	www.broad.mit.e...
Broad REACTOME_PYRUVATE_METABOLISM_AND_TCA_CYCLE	View Gene Set	0.004768	36	0.02629	78	Genes involved in Pyruvate metabolism and TCA cycle	www.broad.mit.e...
Broad REACTOME_CDC20_PHOSPHO_APC_MEDIATED_DEGRADATION_OF_CYCLIN_A	View Gene Set	0.004832	63	0.0263	79	Genes involved in Cdc20:Phospho-APC/C mediated degradation of Cyclin A	www.broad.mit.e...
Broad REACTOME_ABORTIVE_ELONGATION_OF_HIV1_TRANSCRIPT_IN_THE_ABSENCE_OF_TAT	View Gene Set	0.004931	23	0.02651	80	Genes involved in Abortive elongation of HIV-1 transcript in the absence of Tat	www.broad.mit.e...
Broad REACTOME_DEADENYLATION_OF_MRNA	View Gene Set	0.005082	21	0.02698	81	Genes involved in Deadenylation of mRNA	www.broad.mit.e...
Broad REACTOME_G1_S_TRANSITION	View Gene Set	0.005306	102	0.02782	82	Genes involved in G1/S Transition	www.broad.mit.e...
Broad REACTOME_AUTODEGRADATION_OF_CDH1_BY_CDH1_APC	View Gene Set	0.005499	57	0.02849	83	Genes involved in Autodegradation of Cdh1 by Cdh1:APC/C	www.broad.mit.e...
Broad REACTOME_MTORC1_MEDIATED_SIGNALLING	View Gene Set	0.006232	11	0.03152	84	Genes involved in mTORC1-mediated signalling	www.broad.mit.e...
Broad REACTOME_VIRAL_MESSENGER_RNA_SYNTHESIS	View Gene Set	0.00616	14	0.03152	84	Genes involved in Viral Messenger RNA Synthesis	www.broad.mit.e...
Broad REACTOME_TRANSLATION	View Gene Set	0.006475	120	0.03237	86	Genes involved in Translation	www.broad.mit.e...
Broad REACTOME_CITRIC_ACID_CYCLE	View Gene Set	0.0066	19	0.03262	87	Genes involved in Citric acid cycle (TCA cycle)	www.broad.mit.e...
Broad REACTOME_DNA_STRAND_ELONGATION	View Gene Set	0.007007	31	0.03424	88	Genes involved in DNA strand elongation	www.broad.mit.e...
Broad REACTOME_BRANCHED_CHAIN_AMINO_ACID_CATABOLISM	View Gene Set	0.007183	17	0.03471	89	Genes involved in Branched-chain amino acid catabolism	www.broad.mit.e...
Broad REACTOME_TRANSCRIPTION_COUPLED_NER	View Gene Set	0.008605	44	0.04111	90	Genes involved in Transcription-coupled NER (TC-NER)	www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_III_TRANSCRIPTION_TERMINATION	View Gene Set	0.008935	17	0.04176	91	Genes involved in RNA Polymerase III Transcription Termination	www.broad.mit.e...
Broad REACTOME_PURINE_RIBONUCLEOSIDE_MONOPHOSPHATE_BIOSYNTHESIS	View Gene Set	0.008935	11	0.04176	91	Genes involved in Purine ribonucleoside monophosphate biosynthesis	www.broad.mit.e...
Broad REACTOME_DIABETES_PATHWAYS	View Gene Set	0.009334	383	0.04315	93	Genes involved in Diabetes pathways	www.broad.mit.e...
Broad REACTOME_NUCLEOTIDE_EXCISION_REPAIR	View Gene Set	0.009432	49	0.04315	93	Genes involved in Nucleotide Excision Repair	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_PROTEINS	View Gene Set	0.009624	215	0.04356	95	Genes involved in Metabolism of proteins	www.broad.mit.e...
Broad REACTOME_BASE_EXCISION_REPAIR	View Gene Set	0.00982	18	0.0436	96	Genes involved in Base Excision Repair	www.broad.mit.e...
Broad REACTOME_SCF_BETA_TRCP_MEDIATED_DEGRADATION_OF_EMI1	View Gene Set	0.009913	48	0.0436	96	Genes involved in SCF-beta-TrCP mediated degradation of Emi1	www.broad.mit.e...
Broad REACTOME_AMINO_ACID_SYNTHESIS_AND_INTERCONVERSION	View Gene Set	0.009937	12	0.0436	96	Genes involved in Amino acid synthesis and interconversion (transamination)	www.broad.mit.e...
Broad REACTOME_FORMATION_OF_THE_EARLY_ELONGATION_COMPLEX	View Gene Set	0.01056	32	0.04586	99	Genes involved in Formation of the Early Elongation Complex	www.broad.mit.e...
Broad REACTOME_HIV1_TRANSCRIPTION_ELONGATION	View Gene Set	0.01157	41	0.04977	100	Genes involved in HIV-1 Transcription Elongation	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 CACGTG_V$MYC_Q2	View Gene Set	3.07e-09	734	1.888e-06	1	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif CACGTG which matches annotation for MYC: v-myc myelocytomatosis viral oncogene homolog (avian)	www.broad.mit.e...
Broad V$NMYC_01	View Gene Set	1.254e-06	201	0.0003855	2	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NNCCACGTGNNN which matches annotation for MYCN: v-myc myelocytomatosis viral related oncogene neuroblastoma derived (avian)	www.broad.mit.e...
Broad V$MYCMAX_01	View Gene Set	2.093e-06	189	0.0004291	3	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NNACCACGTGGTNN which matches annotation for MYC: v-myc myelocytomatosis viral oncogene homolog (avian)<br> MAX: MYC associated factor X	www.broad.mit.e...
Broad V$E2F_Q4_01	View Gene Set	2.09e-05	171	0.003208	4	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$E2F1_Q6_01	View Gene Set	2.608e-05	177	0.003208	4	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NTTTCGCGCS which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad GKCGCNNNNNNNTGAYG_UNKNOWN	View Gene Set	8.28e-05	41	0.008487	6	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GKCGCNNNNNNNTGAYG. Motif does not match any known transcription factor	www.broad.mit.e...
Broad GCCATNTTG_V$YY1_Q6	View Gene Set	0.0001077	289	0.009464	7	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$USF_C	View Gene Set	0.0001566	211	0.0107	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif NCACGTGN. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q3	View Gene Set	0.0002089	162	0.0107	8	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 V$NFMUE1_Q6	View Gene Set	0.0001932	175	0.0107	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif CGGCCATCT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$HNF4_DR1_Q3	View Gene Set	0.0001747	192	0.0107	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TGAMCTTTGNCCN which matches annotation for HNF4A: hepatocyte nuclear factor 4 alpha	www.broad.mit.e...
Broad SGCGSSAAA_V$E2F1DP2_01	View Gene Set	0.0001825	122	0.0107	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif SGCGSSAAA which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1<br> RB1: retinoblastoma 1 (including osteosarcoma)	www.broad.mit.e...
Broad AAGWWRNYGGC_UNKNOWN	View Gene Set	0.0004376	85	0.01598	13	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif AAGWWRNYGGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1_Q3	View Gene Set	0.0003855	176	0.01598	13	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NKTSSCGC which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad V$USF2_Q6	View Gene Set	0.0003973	182	0.01598	13	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif CASGYG. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$YY1_Q6	View Gene Set	0.0004381	166	0.01598	13	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 V$E2F_Q3_01	View Gene Set	0.0004417	171	0.01598	13	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGSG which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F4DP1_01	View Gene Set	0.0005443	174	0.0186	18	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 V$E2F1DP1RB_01	View Gene Set	0.0006053	168	0.01959	19	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGC which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1<br> RB1: retinoblastoma 1 (including osteosarcoma)	www.broad.mit.e...
Broad V$E2F_02	View Gene Set	0.0007431	169	0.02047	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$YY1_02	View Gene Set	0.0007657	168	0.02047	20	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NNNCGGCCATCTTGNCTSNW which matches annotation for YY1: YY1 transcription factor	www.broad.mit.e...
Broad V$E2F1_Q6	View Gene Set	0.0007592	167	0.02047	20	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$MYC_Q2	View Gene Set	0.0007122	135	0.02047	20	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif CACGTGS which matches annotation for MYC: v-myc myelocytomatosis viral oncogene homolog (avian)	www.broad.mit.e...
Broad V$E2F1_Q4_01	View Gene Set	0.0008398	167	0.02152	24	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$E2F1DP1_01	View Gene Set	0.001099	169	0.02434	25	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTCSCGC which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F1DP2_01	View Gene Set	0.001099	169	0.02434	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$E2F4DP2_01	View Gene Set	0.001099	169	0.02434	25	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTCSCGC which matches annotation for E2F4: E2F transcription factor 4 p107/p130-binding<br> TFDP2: transcription factor Dp-2 (E2F dimerization partner 2)	www.broad.mit.e...
Broad GCGSCMNTTT_UNKNOWN	View Gene Set	0.001108	49	0.02434	25	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GCGSCMNTTT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q6_01	View Gene Set	0.001536	167	0.03143	29	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NKCGCGCSAAAN which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad KRCTCNNNNMANAGC_UNKNOWN	View Gene Set	0.001567	60	0.03143	29	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif KRCTCNNNNMANAGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad SCGGAAGY_V$ELK1_02	View Gene Set	0.001584	784	0.03143	29	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif SCGGAAGY which matches annotation for ELK1: ELK1 member of ETS oncogene family	www.broad.mit.e...
Broad V$E2F_01	View Gene Set	0.002018	55	0.03785	32	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TWSGCGCGAAAAYKR. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q6	View Gene Set	0.002031	165	0.03785	32	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTSGCGS. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F_Q4	View Gene Set	0.00211	166	0.03817	34	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...

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 MORF_BUB3	View Gene Set	7.716e-33	256	3.295e-30	1	Neighborhood of BUB3	www.broad.mit.e...
Broad MORF_RAD23A	View Gene Set	3.824e-28	316	6.308e-26	2	Neighborhood of RAD23A	www.broad.mit.e...
Broad MORF_EIF3S2	View Gene Set	4.432e-28	220	6.308e-26	2	Neighborhood of EIF3S2	www.broad.mit.e...
Broad MORF_FBL	View Gene Set	1.883e-23	121	2.01e-21	4	Neighborhood of FBL	www.broad.mit.e...
Broad MORF_PRKDC	View Gene Set	3.226e-20	173	2.755e-18	5	Neighborhood of PRKDC	www.broad.mit.e...
Broad MORF_HDAC2	View Gene Set	5.73e-20	256	4.078e-18	6	Neighborhood of HDAC2	www.broad.mit.e...
Broad MORF_PPP1CC	View Gene Set	1.623e-18	150	9.903e-17	7	Neighborhood of PPP1CC	www.broad.mit.e...
Broad MORF_RFC4	View Gene Set	1.933e-18	137	1.032e-16	8	Neighborhood of RFC4	www.broad.mit.e...
Broad MORF_DNMT1	View Gene Set	3.567e-17	105	1.692e-15	9	Neighborhood of DNMT1	www.broad.mit.e...
Broad MORF_AATF	View Gene Set	2.419e-16	179	1.033e-14	10	Neighborhood of AATF	www.broad.mit.e...
Broad MORF_CSNK2B	View Gene Set	1.74e-15	256	6.756e-14	11	Neighborhood of CSNK2B	www.broad.mit.e...
Broad GNF2_PA2G4	View Gene Set	3.744e-14	73	1.332e-12	12	Neighborhood of PA2G4	www.broad.mit.e...
Broad MORF_DEAF1	View Gene Set	6.662e-14	54	2.188e-12	13	Neighborhood of DEAF1	www.broad.mit.e...
Broad MORF_XRCC5	View Gene Set	9.574e-14	210	2.896e-12	14	Neighborhood of XRCC5	www.broad.mit.e...
Broad MORF_ANP32B	View Gene Set	1.08e-13	174	2.896e-12	14	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_G22P1	View Gene Set	1.085e-13	145	2.896e-12	14	Neighborhood of G22P1	www.broad.mit.e...
Broad GNF2_RAN	View Gene Set	2.28e-13	78	5.727e-12	17	Neighborhood of RAN	www.broad.mit.e...
Broad MORF_SOD1	View Gene Set	4.626e-13	247	1.097e-11	18	Neighborhood of SOD1	www.broad.mit.e...
Broad MORF_RAD54L	View Gene Set	6.295e-13	94	1.415e-11	19	Neighborhood of RAD54L	www.broad.mit.e...
Broad MORF_UBE2N	View Gene Set	1.34e-12	79	2.86e-11	20	Neighborhood of UBE2N	www.broad.mit.e...
Broad MORF_HAT1	View Gene Set	1.463e-12	155	2.974e-11	21	Neighborhood of HAT1	www.broad.mit.e...
Broad GNF2_RRM1	View Gene Set	1.554e-12	82	3.016e-11	22	Neighborhood of RRM1	www.broad.mit.e...
Broad MORF_ACP1	View Gene Set	1.763e-12	178	3.273e-11	23	Neighborhood of ACP1	www.broad.mit.e...
Broad MORF_RAN	View Gene Set	2.706e-12	242	4.814e-11	24	Neighborhood of RAN	www.broad.mit.e...
Broad MORF_UBE2I	View Gene Set	2.951e-12	208	5.04e-11	25	Neighborhood of UBE2I	www.broad.mit.e...
Broad MORF_PCNA	View Gene Set	3.691e-12	71	6.062e-11	26	Neighborhood of PCNA	www.broad.mit.e...
Broad MORF_RRM1	View Gene Set	8.573e-12	90	1.356e-10	27	Neighborhood of RRM1	www.broad.mit.e...
Broad MORF_GNB1	View Gene Set	2.245e-11	276	3.423e-10	28	Neighborhood of GNB1	www.broad.mit.e...
Broad MORF_PTPN11	View Gene Set	2.829e-11	93	4.165e-10	29	Neighborhood of PTPN11	www.broad.mit.e...
Broad MORF_DEK	View Gene Set	5.943e-11	229	8.46e-10	30	Neighborhood of DEK	www.broad.mit.e...
Broad MORF_CDC16	View Gene Set	8.551e-11	67	1.178e-09	31	Neighborhood of CDC16	www.broad.mit.e...
Broad GNF2_APEX1	View Gene Set	1.011e-10	72	1.35e-09	32	Neighborhood of APEX1	www.broad.mit.e...
Broad GNF2_SMC4L1	View Gene Set	1.965e-10	75	2.543e-09	33	Neighborhood of SMC4L1	www.broad.mit.e...
Broad GNF2_FBL	View Gene Set	3.327e-10	119	4.179e-09	34	Neighborhood of FBL	www.broad.mit.e...
Broad MORF_HDAC1	View Gene Set	4.272e-10	222	5.212e-09	35	Neighborhood of HDAC1	www.broad.mit.e...
Broad GNF2_NS	View Gene Set	5.223e-10	35	6.195e-09	36	Neighborhood of NS	www.broad.mit.e...
Broad GNF2_RFC4	View Gene Set	6.1e-10	57	7.04e-09	37	Neighborhood of RFC4	www.broad.mit.e...
Broad MORF_GMPS	View Gene Set	1.128e-09	48	1.267e-08	38	Neighborhood of GMPS	www.broad.mit.e...
Broad MORF_ERH	View Gene Set	1.296e-09	103	1.419e-08	39	Neighborhood of ERH	www.broad.mit.e...
Broad MORF_UNG	View Gene Set	5.391e-09	65	5.754e-08	40	Neighborhood of UNG	www.broad.mit.e...
Broad MORF_ESPL1	View Gene Set	5.847e-09	58	6.089e-08	41	Neighborhood of ESPL1	www.broad.mit.e...
Broad MORF_SMC1L1	View Gene Set	6.2e-09	47	6.303e-08	42	Neighborhood of SMC1L1	www.broad.mit.e...
Broad MORF_DAP3	View Gene Set	9.34e-09	175	9.275e-08	43	Neighborhood of DAP3	www.broad.mit.e...
Broad MORF_MSH2	View Gene Set	9.991e-09	52	9.696e-08	44	Neighborhood of MSH2	www.broad.mit.e...
Broad GNF2_RBBP6	View Gene Set	1.212e-08	54	1.15e-07	45	Neighborhood of RBBP6	www.broad.mit.e...
Broad GNF2_PCNA	View Gene Set	1.377e-08	62	1.278e-07	46	Neighborhood of PCNA	www.broad.mit.e...
Broad MORF_EI24	View Gene Set	1.879e-08	136	1.707e-07	47	Neighborhood of EI24	www.broad.mit.e...
Broad GNF2_NPM1	View Gene Set	2.163e-08	57	1.925e-07	48	Neighborhood of NPM1	www.broad.mit.e...
Broad MORF_EIF3S6	View Gene Set	2.342e-08	108	2.041e-07	49	Neighborhood of EIF3S6	www.broad.mit.e...
Broad GNF2_RFC3	View Gene Set	3.946e-08	38	3.37e-07	50	Neighborhood of RFC3	www.broad.mit.e...
Broad MORF_FEN1	View Gene Set	4.333e-08	58	3.627e-07	51	Neighborhood of FEN1	www.broad.mit.e...
Broad GNF2_HAT1	View Gene Set	4.657e-08	45	3.824e-07	52	Neighborhood of HAT1	www.broad.mit.e...
Broad GNF2_CENPF	View Gene Set	8.848e-08	56	7.017e-07	53	Neighborhood of CENPF	www.broad.mit.e...
Broad GNF2_MLH1	View Gene Set	8.874e-08	36	7.017e-07	53	Neighborhood of MLH1	www.broad.mit.e...
Broad GNF2_MCM5	View Gene Set	9.616e-08	51	7.465e-07	55	Neighborhood of MCM5	www.broad.mit.e...
Broad GNF2_XRCC5	View Gene Set	1.585e-07	61	1.209e-06	56	Neighborhood of XRCC5	www.broad.mit.e...
Broad GNF2_KPNB1	View Gene Set	1.777e-07	52	1.331e-06	57	Neighborhood of KPNB1	www.broad.mit.e...
Broad MORF_MAP2K2	View Gene Set	2.198e-07	123	1.618e-06	58	Neighborhood of MAP2K2	www.broad.mit.e...
Broad GNF2_DEK	View Gene Set	2.624e-07	45	1.899e-06	59	Neighborhood of DEK	www.broad.mit.e...
Broad MORF_SART1	View Gene Set	3.318e-07	55	2.361e-06	60	Neighborhood of SART1	www.broad.mit.e...
Broad GCM_APEX1	View Gene Set	4.075e-07	102	2.852e-06	61	Neighborhood of APEX1	www.broad.mit.e...
Broad GNF2_MCM4	View Gene Set	7.566e-07	50	5.211e-06	62	Neighborhood of MCM4	www.broad.mit.e...
Broad GNF2_MSH2	View Gene Set	8.992e-07	26	6.095e-06	63	Neighborhood of MSH2	www.broad.mit.e...
Broad GNF2_RRM2	View Gene Set	1.167e-06	36	7.711e-06	64	Neighborhood of RRM2	www.broad.mit.e...
Broad GNF2_ANP32B	View Gene Set	1.174e-06	29	7.711e-06	64	Neighborhood of ANP32B	www.broad.mit.e...
Broad GNF2_MSH6	View Gene Set	1.332e-06	30	8.619e-06	66	Neighborhood of MSH6	www.broad.mit.e...
Broad MORF_RAD21	View Gene Set	1.455e-06	157	9.273e-06	67	Neighborhood of RAD21	www.broad.mit.e...
Broad GNF2_CDC20	View Gene Set	1.857e-06	52	1.166e-05	68	Neighborhood of CDC20	www.broad.mit.e...
Broad GNF2_BUB1B	View Gene Set	2.11e-06	46	1.306e-05	69	Neighborhood of BUB1B	www.broad.mit.e...
Broad GNF2_DENR	View Gene Set	2.332e-06	39	1.422e-05	70	Neighborhood of DENR	www.broad.mit.e...
Broad GNF2_FEN1	View Gene Set	2.376e-06	49	1.429e-05	71	Neighborhood of FEN1	www.broad.mit.e...
Broad GNF2_CCNA2	View Gene Set	2.703e-06	62	1.603e-05	72	Neighborhood of CCNA2	www.broad.mit.e...
Broad GNF2_ESPL1	View Gene Set	3.253e-06	35	1.903e-05	73	Neighborhood of ESPL1	www.broad.mit.e...
Broad MORF_DDB1	View Gene Set	3.674e-06	220	2.098e-05	74	Neighborhood of DDB1	www.broad.mit.e...
Broad MORF_EIF4E	View Gene Set	3.686e-06	76	2.098e-05	74	Neighborhood of EIF4E	www.broad.mit.e...
Broad MORF_BUB1	View Gene Set	4.353e-06	49	2.446e-05	76	Neighborhood of BUB1	www.broad.mit.e...
Broad MORF_PHB	View Gene Set	5.985e-06	112	3.319e-05	77	Neighborhood of PHB	www.broad.mit.e...
Broad MORF_GSPT1	View Gene Set	6.461e-06	41	3.537e-05	78	Neighborhood of GSPT1	www.broad.mit.e...
Broad MORF_BUB1B	View Gene Set	7.215e-06	61	3.9e-05	79	Neighborhood of BUB1B	www.broad.mit.e...
Broad MORF_USP5	View Gene Set	8.397e-06	46	4.482e-05	80	Neighborhood of USP5	www.broad.mit.e...
Broad MORF_PRKAG1	View Gene Set	1.161e-05	202	6.122e-05	81	Neighborhood of PRKAG1	www.broad.mit.e...
Broad MORF_RPA2	View Gene Set	1.824e-05	170	9.499e-05	82	Neighborhood of RPA2	www.broad.mit.e...
Broad GNF2_CCNB2	View Gene Set	2.076e-05	53	0.0001068	83	Neighborhood of CCNB2	www.broad.mit.e...
Broad GNF2_H2AFX	View Gene Set	2.505e-05	28	0.0001274	84	Neighborhood of H2AFX	www.broad.mit.e...
Broad GCM_PPP1CC	View Gene Set	2.66e-05	47	0.0001336	85	Neighborhood of PPP1CC	www.broad.mit.e...
Broad GNF2_HMMR	View Gene Set	2.953e-05	43	0.0001466	86	Neighborhood of HMMR	www.broad.mit.e...
Broad GNF2_HDAC1	View Gene Set	3.358e-05	85	0.0001648	87	Neighborhood of HDAC1	www.broad.mit.e...
Broad GNF2_CENPE	View Gene Set	5.005e-05	37	0.0002429	88	Neighborhood of CENPE	www.broad.mit.e...
Broad GCM_NPM1	View Gene Set	5.394e-05	108	0.0002588	89	Neighborhood of NPM1	www.broad.mit.e...
Broad MORF_PPP1CA	View Gene Set	5.587e-05	145	0.0002651	90	Neighborhood of PPP1CA	www.broad.mit.e...
Broad GNF2_CKS2	View Gene Set	6.733e-05	45	0.0003159	91	Neighborhood of CKS2	www.broad.mit.e...
Broad MORF_REV3L	View Gene Set	7.171e-05	52	0.0003328	92	Neighborhood of REV3L	www.broad.mit.e...
Broad GCM_CSNK2B	View Gene Set	8.199e-05	88	0.0003764	93	Neighborhood of CSNK2B	www.broad.mit.e...
Broad MORF_RFC1	View Gene Set	0.0001109	98	0.0005036	94	Neighborhood of RFC1	www.broad.mit.e...
Broad GNF2_CDC2	View Gene Set	0.000121	56	0.000544	95	Neighborhood of CDC2	www.broad.mit.e...
Broad MORF_CTBP1	View Gene Set	0.0001308	149	0.0005814	96	Neighborhood of CTBP1	www.broad.mit.e...
Broad GNF2_SMC2L1	View Gene Set	0.0001321	30	0.0005814	96	Neighborhood of SMC2L1	www.broad.mit.e...
Broad GNF2_TDG	View Gene Set	0.0001652	23	0.0007198	98	Neighborhood of TDG	www.broad.mit.e...
Broad GNF2_BUB1	View Gene Set	0.0001729	25	0.0007458	99	Neighborhood of BUB1	www.broad.mit.e...
Broad MORF_CCNF	View Gene Set	0.0001881	65	0.0008028	100	Neighborhood of CCNF	www.broad.mit.e...
Broad GCM_CBFB	View Gene Set	0.0001899	59	0.0008028	100	Neighborhood of CBFB	www.broad.mit.e...
Broad GNF2_SMC1L1	View Gene Set	0.0001953	24	0.0008177	102	Neighborhood of SMC1L1	www.broad.mit.e...
Broad MORF_TERF1	View Gene Set	0.000198	57	0.0008207	103	Neighborhood of TERF1	www.broad.mit.e...
Broad GNF2_ELAC2	View Gene Set	0.0002204	32	0.000905	104	Neighborhood of ELAC2	www.broad.mit.e...
Broad MORF_FANCG	View Gene Set	0.0002363	148	0.0009609	105	Neighborhood of FANCG	www.broad.mit.e...
Broad MORF_SKP1A	View Gene Set	0.0003193	175	0.001286	106	Neighborhood of SKP1A	www.broad.mit.e...
Broad GNF2_BUB3	View Gene Set	0.0003252	22	0.001298	107	Neighborhood of BUB3	www.broad.mit.e...
Broad MORF_CDK2	View Gene Set	0.0003444	63	0.001355	108	Neighborhood of CDK2	www.broad.mit.e...
Broad MORF_SS18	View Gene Set	0.0003459	55	0.001355	108	Neighborhood of SS18	www.broad.mit.e...
Broad GCM_AIP	View Gene Set	0.0003581	36	0.00139	110	Neighborhood of AIP	www.broad.mit.e...
Broad MORF_RPA1	View Gene Set	0.0003805	55	0.001464	111	Neighborhood of RPA1	www.broad.mit.e...
Broad GNF2_UBE2I	View Gene Set	0.0003897	33	0.001486	112	Neighborhood of UBE2I	www.broad.mit.e...
Broad GNF2_DAP3	View Gene Set	0.0003945	98	0.001491	113	Neighborhood of DAP3	www.broad.mit.e...
Broad MORF_CDC10	View Gene Set	0.0004301	120	0.001611	114	Neighborhood of CDC10	www.broad.mit.e...
Broad MORF_CUL1	View Gene Set	0.0005352	62	0.001987	115	Neighborhood of CUL1	www.broad.mit.e...
Broad MORF_MTA1	View Gene Set	0.0005441	95	0.002003	116	Neighborhood of MTA1	www.broad.mit.e...
Broad MORF_HEAB	View Gene Set	0.0005995	71	0.002188	117	Neighborhood of HEAB	www.broad.mit.e...
Broad GNF2_CKS1B	View Gene Set	0.0006969	36	0.002522	118	Neighborhood of CKS1B	www.broad.mit.e...
Broad MORF_BMI1	View Gene Set	0.0008212	71	0.002943	119	Neighborhood of BMI1	www.broad.mit.e...
Broad MORF_DDX11	View Gene Set	0.000827	138	0.002943	119	Neighborhood of DDX11	www.broad.mit.e...
Broad GCM_ACTG1	View Gene Set	0.0009517	113	0.003358	121	Neighborhood of ACTG1	www.broad.mit.e...
Broad MORF_RAP1A	View Gene Set	0.001161	122	0.004065	122	Neighborhood of RAP1A	www.broad.mit.e...
Broad GCM_DFFA	View Gene Set	0.001268	100	0.004402	123	Neighborhood of DFFA	www.broad.mit.e...
Broad MORF_SNRP70	View Gene Set	0.001314	50	0.004524	124	Neighborhood of SNRP70	www.broad.mit.e...
Broad GNF2_G22P1	View Gene Set	0.001383	29	0.004723	125	Neighborhood of G22P1	www.broad.mit.e...
Broad MORF_ERCC2	View Gene Set	0.001418	91	0.004806	126	Neighborhood of ERCC2	www.broad.mit.e...
Broad GNF2_MKI67	View Gene Set	0.001575	26	0.005296	127	Neighborhood of MKI67	www.broad.mit.e...
Broad GNF2_TTK	View Gene Set	0.001743	34	0.005816	128	Neighborhood of TTK	www.broad.mit.e...
Broad GCM_BECN1	View Gene Set	0.002099	59	0.006949	129	Neighborhood of BECN1	www.broad.mit.e...
Broad GNF2_RPA1	View Gene Set	0.002202	20	0.007231	130	Neighborhood of RPA1	www.broad.mit.e...
Broad MORF_FDXR	View Gene Set	0.002366	205	0.007653	131	Neighborhood of FDXR	www.broad.mit.e...
Broad GCM_PSME1	View Gene Set	0.002364	76	0.007653	131	Neighborhood of PSME1	www.broad.mit.e...
Broad MORF_PSMC1	View Gene Set	0.002415	162	0.007754	133	Neighborhood of PSMC1	www.broad.mit.e...
Broad MORF_PPP5C	View Gene Set	0.002981	81	0.0095	134	Neighborhood of PPP5C	www.broad.mit.e...
Broad MORF_TPR	View Gene Set	0.003377	131	0.01068	135	Neighborhood of TPR	www.broad.mit.e...
Broad GCM_HMGA2	View Gene Set	0.003624	123	0.01138	136	Neighborhood of HMGA2	www.broad.mit.e...
Broad MORF_CDC2L5	View Gene Set	0.003776	127	0.01176	137	Neighborhood of CDC2L5	www.broad.mit.e...
Broad GCM_ATM	View Gene Set	0.003801	24	0.01176	137	Neighborhood of ATM	www.broad.mit.e...
Broad MORF_RBBP8	View Gene Set	0.004234	190	0.01301	139	Neighborhood of RBBP8	www.broad.mit.e...
Broad GNF2_CDC27	View Gene Set	0.004283	56	0.01306	140	Neighborhood of CDC27	www.broad.mit.e...
Broad GCM_RING1	View Gene Set	0.004458	106	0.0135	141	Neighborhood of RING1	www.broad.mit.e...
Broad GCM_ANP32B	View Gene Set	0.005049	32	0.01518	142	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_CCNI	View Gene Set	0.005095	76	0.01521	143	Neighborhood of CCNI	www.broad.mit.e...
Broad GCM_PPM1D	View Gene Set	0.005144	22	0.01525	144	Neighborhood of PPM1D	www.broad.mit.e...
Broad GCM_SMARCD1	View Gene Set	0.005928	101	0.01746	145	Neighborhood of SMARCD1	www.broad.mit.e...
Broad GCM_TPR	View Gene Set	0.007668	29	0.02243	146	Neighborhood of TPR	www.broad.mit.e...
Broad GCM_USP6	View Gene Set	0.008317	54	0.02416	147	Neighborhood of USP6	www.broad.mit.e...
Broad MORF_RUNX1	View Gene Set	0.008463	138	0.02442	148	Neighborhood of RUNX1	www.broad.mit.e...
Broad MORF_PRDX3	View Gene Set	0.008752	79	0.02508	149	Neighborhood of PRDX3	www.broad.mit.e...
Broad MORF_ATRX	View Gene Set	0.009911	185	0.02821	150	Neighborhood of ATRX	www.broad.mit.e...
Broad GNF2_ST13	View Gene Set	0.01015	56	0.0287	151	Neighborhood of ST13	www.broad.mit.e...
Broad MORF_NPM1	View Gene Set	0.01044	152	0.02933	152	Neighborhood of NPM1	www.broad.mit.e...
Broad GNF2_EIF3S6	View Gene Set	0.01171	109	0.03268	153	Neighborhood of EIF3S6	www.broad.mit.e...
Broad GCM_MAX	View Gene Set	0.01296	28	0.03593	154	Neighborhood of MAX	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_17	View Gene Set	1.895e-10	351	8.603e-08	1	Genes in module_17	www.broad.mit.e...
Broad module_54	View Gene Set	8.639e-10	242	1.961e-07	2	Genes in module_54	www.broad.mit.e...
Broad module_219	View Gene Set	2.188e-08	26	3.311e-06	3	Genes in module_219	www.broad.mit.e...
Broad module_183	View Gene Set	7.75e-08	52	8.796e-06	4	Genes in module_183	www.broad.mit.e...
Broad module_244	View Gene Set	1.196e-07	182	1.086e-05	5	Genes in module_244	www.broad.mit.e...
Broad module_35	View Gene Set	2.003e-07	16	1.516e-05	6	Genes in module_35	www.broad.mit.e...
Broad module_110	View Gene Set	6.471e-07	15	4.197e-05	7	Genes in module_110	www.broad.mit.e...
Broad module_388	View Gene Set	1.6e-06	17	9.082e-05	8	Genes in module_388	www.broad.mit.e...
Broad module_61	View Gene Set	3.188e-06	50	0.0001571	9	Genes in module_61	www.broad.mit.e...
Broad module_133	View Gene Set	3.461e-06	15	0.0001571	9	Genes in module_133	www.broad.mit.e...
Broad module_77	View Gene Set	6.11e-06	28	0.0002336	11	Genes in module_77	www.broad.mit.e...
Broad module_160	View Gene Set	6.176e-06	15	0.0002336	11	Genes in module_160	www.broad.mit.e...
Broad module_42	View Gene Set	7.766e-06	25	0.0002712	13	Genes in module_42	www.broad.mit.e...
Broad module_397	View Gene Set	8.756e-06	114	0.000284	14	Genes in module_397	www.broad.mit.e...
Broad module_337	View Gene Set	1.208e-05	59	0.0003656	15	Genes in module_337	www.broad.mit.e...
Broad module_392	View Gene Set	2.559e-05	18	0.000726	16	Genes in module_392	www.broad.mit.e...
Broad module_152	View Gene Set	3.304e-05	121	0.0008825	17	Genes in module_152	www.broad.mit.e...
Broad module_102	View Gene Set	7.601e-05	18	0.001917	18	Genes in module_102	www.broad.mit.e...
Broad module_62	View Gene Set	0.0002032	88	0.004613	19	Genes in module_62	www.broad.mit.e...
Broad module_126	View Gene Set	0.0001937	173	0.004613	19	Genes in module_126	www.broad.mit.e...
Broad module_198	View Gene Set	0.0002727	288	0.005895	21	Genes in module_198	www.broad.mit.e...
Broad module_21	View Gene Set	0.0003109	10	0.006416	22	Genes in module_21	www.broad.mit.e...
Broad module_278	View Gene Set	0.0006645	34	0.01312	23	Genes in module_278	www.broad.mit.e...
Broad module_16	View Gene Set	0.0007499	495	0.01419	24	Genes in module_16	www.broad.mit.e...
Broad module_98	View Gene Set	0.0007898	375	0.01434	25	Genes in module_98	www.broad.mit.e...
Broad module_124	View Gene Set	0.0009321	92	0.01628	26	Genes in module_124	www.broad.mit.e...
Broad module_50	View Gene Set	0.001208	13	0.01941	27	Genes in module_50	www.broad.mit.e...
Broad module_57	View Gene Set	0.00124	54	0.01941	27	Genes in module_57	www.broad.mit.e...
Broad module_207	View Gene Set	0.001184	195	0.01941	27	Genes in module_207	www.broad.mit.e...
Broad module_32	View Gene Set	0.00139	227	0.02104	30	Genes in module_32	www.broad.mit.e...
Broad module_22	View Gene Set	0.001557	45	0.02208	31	Genes in module_22	www.broad.mit.e...
Broad module_528	View Gene Set	0.001546	10	0.02208	31	Genes in module_528	www.broad.mit.e...
Broad module_28	View Gene Set	0.002172	32	0.02817	33	Genes in module_28	www.broad.mit.e...
Broad module_273	View Gene Set	0.002115	50	0.02817	33	Genes in module_273	www.broad.mit.e...
Broad module_471	View Gene Set	0.002049	9	0.02817	33	Genes in module_471	www.broad.mit.e...
Broad module_252	View Gene Set	0.002281	224	0.02877	36	Genes in module_252	www.broad.mit.e...
Broad module_25	View Gene Set	0.002378	13	0.02886	37	Genes in module_25	www.broad.mit.e...
Broad module_538	View Gene Set	0.002416	8	0.02886	37	Genes in module_538	www.broad.mit.e...
Broad module_355	View Gene Set	0.00251	28	0.02922	39	Genes in module_355	www.broad.mit.e...
Broad module_331	View Gene Set	0.003205	65	0.03638	40	Genes in module_331	www.broad.mit.e...
Broad module_91	View Gene Set	0.003931	37	0.04249	41	Genes in module_91	www.broad.mit.e...
Broad module_457	View Gene Set	0.00385	9	0.04249	41	Genes in module_457	www.broad.mit.e...
Broad module_56	View Gene Set	0.004114	12	0.04344	43	Genes in module_56	www.broad.mit.e...
Broad module_308	View Gene Set	0.004503	66	0.04646	44	Genes in module_308	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad RNA_PROCESSING	View Gene Set	1.117e-12	147	9.212e-10	1	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 RNA_SPLICING	View Gene Set	1.514e-11	73	6.244e-09	2	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 NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS	View Gene Set	3.676e-11	1197	1.011e-08	3	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	2.409e-08	801	4.704e-06	4	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 RIBONUCLEOPROTEIN_COMPLEX_BIOGENESIS_AND_ASSEMBLY	View Gene Set	2.851e-08	74	4.704e-06	4	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 COFACTOR_METABOLIC_PROCESS	View Gene Set	7.548e-07	53	0.0001038	6	Genes annotated by the GO term GO:0051186. The chemical reactions and pathways involving a cofactor a substance that is required for the activity of an enzyme or other protein. Cofactors may be inorganic such as the metal atoms zinc iron and copper in certain forms or organic in which case they are referred to as coenzymes. Cofactors may either be bound tightly to active sites or bind loosely with the substrate.	www.broad.mit.e...
Broad TRNA_METABOLIC_PROCESS	View Gene Set	1.257e-06	18	0.0001481	7	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 COENZYME_METABOLIC_PROCESS	View Gene Set	2.178e-06	37	0.0002246	8	Genes annotated by the GO term GO:0006732. The chemical reactions and pathways involving coenzymes any of various nonprotein organic cofactors that are required in addition to an enzyme and a substrate for an enzymatic reaction to proceed.	www.broad.mit.e...
Broad RNA_SPLICINGVIA_TRANSESTERIFICATION_REACTIONS	View Gene Set	4.139e-06	27	0.0003794	9	Genes annotated by the GO term GO:0000375. Splicing of RNA via a series of two transesterification reactions.	www.broad.mit.e...
Broad BIOPOLYMER_METABOLIC_PROCESS	View Gene Set	4.987e-06	1623	0.0004115	10	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 CELLULAR_BIOSYNTHETIC_PROCESS	View Gene Set	9.131e-06	311	0.0006848	11	Genes annotated by the GO term GO:0044249. The chemical reactions and pathways resulting in the formation of substances carried out by individual cells.	www.broad.mit.e...
Broad AMINO_ACID_METABOLIC_PROCESS	View Gene Set	1.046e-05	75	0.0007193	12	Genes annotated by the GO term GO:0006520. The chemical reactions and pathways involving amino acids organic acids containing one or more amino substituents.	www.broad.mit.e...
Broad RIBOSOME_BIOGENESIS_AND_ASSEMBLY	View Gene Set	1.229e-05	14	0.0007798	13	Genes annotated by the GO term GO:0042254. The process of the formation of the constituents of the ribosome subunits their assembly and their transport to the sites of protein synthesis.	www.broad.mit.e...
Broad MRNA_PROCESSING_GO_0006397	View Gene Set	1.431e-05	59	0.0008432	14	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 GENERATION_OF_PRECURSOR_METABOLITES_AND_ENERGY	View Gene Set	1.881e-05	122	0.001034	15	Genes annotated by the GO term GO:0006091. The chemical reactions and pathways resulting in the formation of precursor metabolites substances from which energy is derived and the processes involved in the liberation of energy from these substances.	www.broad.mit.e...
Broad CHROMOSOME_ORGANIZATION_AND_BIOGENESIS	View Gene Set	2.689e-05	117	0.001386	16	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 RESPONSE_TO_ENDOGENOUS_STIMULUS	View Gene Set	3.312e-05	197	0.001518	17	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 MRNA_METABOLIC_PROCESS	View Gene Set	3.204e-05	70	0.001518	17	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 AMINO_ACID_AND_DERIVATIVE_METABOLIC_PROCESS	View Gene Set	3.966e-05	98	0.001722	19	Genes annotated by the GO term GO:0006519. The chemical reactions and pathways involving amino acids organic acids containing one or more amino substituents and compounds derived from amino acids.	www.broad.mit.e...
Broad CELLULAR_RESPIRATION	View Gene Set	8.141e-05	19	0.003358	20	Genes annotated by the GO term GO:0045333. The enzymatic release of energy from organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration).	www.broad.mit.e...
Broad DNA_METABOLIC_PROCESS	View Gene Set	0.0001207	253	0.00464	21	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 RRNA_PROCESSING	View Gene Set	0.0001237	11	0.00464	21	Genes annotated by the GO term GO:0006364. Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.	www.broad.mit.e...
Broad MITOCHONDRION_ORGANIZATION_AND_BIOGENESIS	View Gene Set	0.000135	47	0.004844	23	Genes annotated by the GO term GO:0007005. A process that is carried out at the cellular level which results in the formation arrangement of constituent parts or disassembly of a mitochondrion; includes mitochondrial morphology and distribution and replication of the mitochondrial genome as well as synthesis of new mitochondrial components.	www.broad.mit.e...
Broad NITROGEN_COMPOUND_METABOLIC_PROCESS	View Gene Set	0.0001896	150	0.005794	24	Genes annotated by the GO term GO:0006807. The chemical reactions and pathways involving various organic and inorganic nitrogenous compounds; includes nitrogen fixation nitrification denitrification assimilatory/dissimilatory nitrate reduction and the interconversion of nitrogenous organic matter and ammonium.	www.broad.mit.e...
Broad PROTEIN_RNA_COMPLEX_ASSEMBLY	View Gene Set	0.0001731	59	0.005794	24	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 CELL_CYCLE_GO_0007049	View Gene Set	0.0001828	304	0.005794	24	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 RRNA_METABOLIC_PROCESS	View Gene Set	0.0001762	12	0.005794	24	Genes annotated by the GO term GO:0016072. The chemical reactions and pathways involving rRNA ribosomal RNA a structural constituent of ribosomes.	www.broad.mit.e...
Broad M_PHASE	View Gene Set	0.0003304	111	0.008793	28	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 DNA_INTEGRITY_CHECKPOINT	View Gene Set	0.0003118	23	0.008793	28	Genes annotated by the GO term GO:0031570. Any cell cycle checkpoint that delays or arrests cell cycle progression in response to changes in DNA structure.	www.broad.mit.e...
Broad CELL_CYCLE_PROCESS	View Gene Set	0.0003179	187	0.008793	28	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 RESPONSE_TO_DNA_DAMAGE_STIMULUS	View Gene Set	0.0003239	159	0.008793	28	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 BASE_EXCISION_REPAIR	View Gene Set	0.0003872	16	0.009981	32	Genes annotated by the GO term GO:0006284. In base excision repair an altered base is removed by a DNA glycosylase enzyme followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.	www.broad.mit.e...
Broad AMINE_METABOLIC_PROCESS	View Gene Set	0.000402	137	0.01005	33	Genes annotated by the GO term GO:0009308. The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group. Amines are called primary secondary or tertiary according to whether one two or three carbon atoms are attached to the nitrogen atom.	www.broad.mit.e...
Broad DNA_DAMAGE_CHECKPOINT	View Gene Set	0.0004569	20	0.01109	34	Genes annotated by the GO term GO:0000077. A signal transduction pathway induced by DNA damage that blocks cell cycle progression (in G1 G2 or metaphase) or slows the rate at which S phase proceeds.	www.broad.mit.e...
Broad DNA_REPAIR	View Gene Set	0.000486	123	0.01146	35	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 PROTEIN_FOLDING	View Gene Set	0.0005395	56	0.01236	36	Genes annotated by the GO term GO:0006457. The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.	www.broad.mit.e...
Broad BIOSYNTHETIC_PROCESS	View Gene Set	0.0007726	459	0.01677	37	Genes annotated by the GO term GO:0009058. The energy-requiring part of metabolism in which simpler substances are transformed into more complex ones as in growth and other biosynthetic processes.	www.broad.mit.e...
Broad RESPONSE_TO_CARBOHYDRATE_STIMULUS	View Gene Set	0.000765	12	0.01677	37	Genes annotated by the GO term GO:0009743. 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 carbohydrate stimulus.	www.broad.mit.e...
Broad TRANSLATION	View Gene Set	0.0008717	177	0.01798	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 RESPONSE_TO_ORGANIC_SUBSTANCE	View Gene Set	0.0008617	30	0.01798	39	Genes annotated by the GO term GO:0010033. 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 organic substance stimulus.	www.broad.mit.e...
Broad MITOSIS	View Gene Set	0.0009643	81	0.0194	41	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 SPLICEOSOME_ASSEMBLY	View Gene Set	0.001015	13	0.01994	42	Genes annotated by the GO term GO:0000245. The aggregation arrangement and bonding together of the spliceosome a ribonucleoprotein apparatus that catalyzes nuclear mRNA splicing via transesterification reactions.	www.broad.mit.e...
Broad HISTONE_MODIFICATION	View Gene Set	0.001097	22	0.02105	43	Genes annotated by the GO term GO:0016570. The covalent alteration of one or more amino acid residues within a histone protein.	www.broad.mit.e...
Broad CELL_CYCLE_PHASE	View Gene Set	0.001207	167	0.02164	44	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 COVALENT_CHROMATIN_MODIFICATION	View Gene Set	0.001186	23	0.02164	44	Genes annotated by the GO term GO:0016569. The alteration of DNA or protein in chromatin by the covalent addition or removal of chemical groups.	www.broad.mit.e...
Broad M_PHASE_OF_MITOTIC_CELL_CYCLE	View Gene Set	0.001184	83	0.02164	44	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 ONE_CARBON_COMPOUND_METABOLIC_PROCESS	View Gene Set	0.001327	26	0.0233	47	Genes annotated by the GO term GO:0006730. The chemical reactions and pathways involving compounds containing a single carbon atom.	www.broad.mit.e...
Broad TRNA_PROCESSING	View Gene Set	0.001441	10	0.02428	48	Genes annotated by the GO term GO:0008033. The process by which a pre-tRNA molecule is converted to a mature tRNA ready for addition of an aminoacyl group.	www.broad.mit.e...
Broad MACROMOLECULAR_COMPLEX_ASSEMBLY	View Gene Set	0.001531	271	0.02428	48	Genes annotated by the GO term GO:0065003. The aggregation arrangement and bonding together of a set of macromolecules to form a complex.	www.broad.mit.e...
Broad CARBOXYLIC_ACID_METABOLIC_PROCESS	View Gene Set	0.001478	173	0.02428	48	Genes annotated by the GO term GO:0019752. The chemical reactions and pathways involving carboxylic acids any organic acid containing one or more carboxyl (COOH) groups or anions (COO-).	www.broad.mit.e...
Broad ORGANIC_ACID_METABOLIC_PROCESS	View Gene Set	0.001461	175	0.02428	48	Genes annotated by the GO term GO:0006082. The chemical reactions and pathways involving organic acids any acidic compound containing carbon in covalent linkage.	www.broad.mit.e...
Broad MITOCHONDRIAL_TRANSPORT	View Gene Set	0.001519	20	0.02428	48	Genes annotated by the GO term GO:0006839. Transport of substances into out of or within a mitochondrion.	www.broad.mit.e...
Broad CELLULAR_COMPONENT_ASSEMBLY	View Gene Set	0.001625	288	0.0253	53	Genes annotated by the GO term GO:0022607. A cellular process that results in the assembly of a part of the cell.	www.broad.mit.e...
Broad RNA_EXPORT_FROM_NUCLEUS	View Gene Set	0.002096	20	0.03202	54	Genes annotated by the GO term GO:0006405. The directed movement of RNA from the nucleus to the cytoplasm.	www.broad.mit.e...
Broad AEROBIC_RESPIRATION	View Gene Set	0.002263	15	0.03395	55	Genes annotated by the GO term GO:0009060. The enzymatic release of energy from organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.	www.broad.mit.e...
Broad COENZYME_BIOSYNTHETIC_PROCESS	View Gene Set	0.002437	10	0.03568	56	Genes annotated by the GO term GO:0009108. The chemical reactions and pathways resulting in the formation of coenzymes any of various nonprotein organic cofactors that are required in addition to an enzyme and a substrate for an enzymatic reaction to proceed.	www.broad.mit.e...
Broad ELECTRON_TRANSPORT_GO_0006118	View Gene Set	0.002508	51	0.03568	56	Genes annotated by the GO term GO:0006118. The transport of electrons from an electron donor to an electron acceptor.	www.broad.mit.e...
Broad TRANSCRIPTION_FROM_RNA_POLYMERASE_III_PROMOTER	View Gene Set	0.002482	19	0.03568	56	Genes annotated by the GO term GO:0006383. The synthesis of RNA from a DNA template by RNA polymerase III (Pol III) originating at a Pol III-specific promoter.	www.broad.mit.e...
Broad COFACTOR_BIOSYNTHETIC_PROCESS	View Gene Set	0.002629	21	0.03677	59	Genes annotated by the GO term GO:0051188. The chemical reactions and pathways resulting in the formation of a cofactor a substance that is required for the activity of an enzyme or other protein.	www.broad.mit.e...
Broad CHROMATIN_MODIFICATION	View Gene Set	0.00275	50	0.03782	60	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 MITOTIC_CELL_CYCLE	View Gene Set	0.002822	148	0.03817	61	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 ORGANELLE_ORGANIZATION_AND_BIOGENESIS	View Gene Set	0.002942	458	0.03915	62	Genes annotated by the GO term GO:0006996. A process that is carried out at the cellular level which results in the formation arrangement of constituent parts or disassembly of any organelle within a cell.	www.broad.mit.e...
Broad TRANSCRIPTION	View Gene Set	0.003132	738	0.04102	63	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 REGULATION_OF_GENE_EXPRESSION	View Gene Set	0.00349	660	0.04474	64	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 ENERGY_DERIVATION_BY_OXIDATION_OF_ORGANIC_COMPOUNDS	View Gene Set	0.003525	37	0.04474	64	Genes annotated by the GO term GO:0015980.	www.broad.mit.e...
Broad DNA_REPLICATION	View Gene Set	0.003802	101	0.04753	66	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...

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 MITOCHONDRION	View Gene Set	5.403e-22	335	1.259e-19	1	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 MITOCHONDRIAL_PART	View Gene Set	3.78e-16	140	4.404e-14	2	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 NUCLEAR_PART	View Gene Set	8.87e-16	543	6.889e-14	3	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 MITOCHONDRIAL_MEMBRANE	View Gene Set	2.835e-13	85	1.621e-11	4	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	3.579e-13	66	1.621e-11	4	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 MITOCHONDRIAL_ENVELOPE	View Gene Set	4.174e-13	95	1.621e-11	4	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 NUCLEUS	View Gene Set	9.125e-13	1353	3.037e-11	7	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 ORGANELLE_LUMEN	View Gene Set	1.571e-12	434	4.068e-11	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	1.571e-12	434	4.068e-11	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 INTRACELLULAR_ORGANELLE_PART	View Gene Set	4.284e-12	1144	9.982e-11	10	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 ORGANELLE_PART	View Gene Set	7.274e-12	1149	1.541e-10	11	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 ORGANELLE_INNER_MEMBRANE	View Gene Set	8.544e-12	74	1.659e-10	12	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 ENVELOPE	View Gene Set	7.534e-10	165	1.254e-08	13	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	7.534e-10	165	1.254e-08	13	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 MITOCHONDRIAL_MEMBRANE_PART	View Gene Set	1.769e-09	52	2.748e-08	15	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 NUCLEAR_LUMEN	View Gene Set	2.23e-09	365	3.247e-08	16	Genes annotated by the GO term GO:0031981. The volume enclosed by the nuclear inner membrane.	www.broad.mit.e...
Broad RIBONUCLEOPROTEIN_COMPLEX	View Gene Set	7.42e-09	129	1.017e-07	17	Genes annotated by the GO term GO:0030529. A macromolecular complex containing both protein and RNA molecules.	www.broad.mit.e...
Broad SMALL_NUCLEAR_RIBONUCLEOPROTEIN_COMPLEX	View Gene Set	2.144e-06	20	2.666e-05	18	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 SPLICEOSOME	View Gene Set	2.174e-06	44	2.666e-05	18	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 NUCLEOLUS	View Gene Set	3.326e-06	116	3.875e-05	20	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 MACROMOLECULAR_COMPLEX	View Gene Set	1.406e-05	914	0.000156	21	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 NUCLEOPLASM	View Gene Set	2.467e-05	266	0.0002613	22	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 MITOCHONDRIAL_MATRIX	View Gene Set	4.376e-05	46	0.0004249	23	Genes annotated by the GO term GO:0005759. The gel-like material with considerable fine structure that lies in the matrix space or lumen of a mitochondrion. It contains the enzymes of the tricarboxylic acid cycle and in some organisms the enzymes concerned with fatty-acid oxidation.	www.broad.mit.e...
Broad MITOCHONDRIAL_LUMEN	View Gene Set	4.376e-05	46	0.0004249	23	Genes annotated by the GO term GO:0031980. The volume enclosed by the mitochondrial inner membrane.	www.broad.mit.e...
Broad MITOCHONDRIAL_RESPIRATORY_CHAIN	View Gene Set	5.596e-05	24	0.0005216	25	Genes annotated by the GO term GO:0005746. The protein complexes that form the mitochondrial electron transport system (the respiratory chain). Complexes I III and IV can transport protons if embedded in an oriented membrane such as an intact mitochondrial inner membrane.	www.broad.mit.e...
Broad NADH_DEHYDROGENASE_COMPLEX	View Gene Set	0.0001377	15	0.001106	26	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	0.0001377	15	0.001106	26	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 NUCLEOLAR_PART	View Gene Set	0.0001244	16	0.001106	26	Genes annotated by the GO term GO:0044452. Any constituent part of a nucleolus 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.	www.broad.mit.e...
Broad RESPIRATORY_CHAIN_COMPLEX_I	View Gene Set	0.0001377	15	0.001106	26	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...
Broad NUCLEOPLASM_PART	View Gene Set	0.0003635	202	0.002823	30	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 CENTROSOME	View Gene Set	0.001095	55	0.00823	31	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 ORGANELLAR_RIBOSOME	View Gene Set	0.001611	22	0.01138	32	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	0.001611	22	0.01138	32	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 MICROTUBULE_ORGANIZING_CENTER	View Gene Set	0.001698	64	0.01163	34	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 CHROMOSOMAL_PART	View Gene Set	0.002364	95	0.01574	35	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 CHROMOSOME	View Gene Set	0.003005	122	0.01945	36	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 MITOCHONDRIAL_OUTER_MEMBRANE	View Gene Set	0.003746	18	0.02359	37	Genes annotated by the GO term GO:0005741. The outer i.e. cytoplasm-facing lipid bilayer of the mitochondrial envelope.	www.broad.mit.e...
Broad NUCLEAR_CHROMOSOME	View Gene Set	0.005417	53	0.03265	38	Genes annotated by the GO term GO:0000228. A chromosome found in the nucleus of a eukaryotic cell.	www.broad.mit.e...
Broad PROTEIN_COMPLEX	View Gene Set	0.005465	799	0.03265	38	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 NUCLEAR_CHROMOSOME_PART	View Gene Set	0.007226	33	0.04209	40	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 TRANSCRIPTION_FACTOR_COMPLEX	View Gene Set	0.008576	84	0.04874	41	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...

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	1.055e-06	236	0.0004176	1	Genes annotated by the GO term GO:0003723. Interacting selectively with an RNA molecule or a portion thereof.	www.broad.mit.e...
Broad LIGASE_ACTIVITY_FORMING_CARBON_OXYGEN_BONDS	View Gene Set	2.01e-05	14	0.00398	2	Genes annotated by the GO term GO:0016875. Catalysis of the ligation of two substances via a carbon-oxygen bond with concomitant breakage of a diphosphate linkage usually in a nucleoside triphosphate.	www.broad.mit.e...
Broad NUCLEOTIDYLTRANSFERASE_ACTIVITY	View Gene Set	0.0002381	47	0.03143	3	Genes annotated by the GO term GO:0016779. Catalysis of the transfer of a nucleotidyl group to a reactant.	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
PMID 15635413	View Gene Set	6.747e-26	421	1.691e-22	1	Nucleolar proteome dynamics.	www.ncbi.nlm.ni...
PMID 11790298	View Gene Set	8.981e-20	208	1.041e-16	2	Directed proteomic analysis of the human nucleolus.	www.ncbi.nlm.ni...
PMID 12429849	View Gene Set	1.245e-19	106	1.041e-16	2	Functional proteomic analysis of human nucleolus.	www.ncbi.nlm.ni...
PMID 12706105	View Gene Set	2.404e-18	182	1.507e-15	4	Identification and characterization of over 100 mitochondrial ribosomal protein pseudogenes in the human genome.	www.ncbi.nlm.ni...
PMID 12226669	View Gene Set	2.201e-17	108	1.104e-14	5	Comprehensive proteomic analysis of the human spliceosome.	www.ncbi.nlm.ni...
PMID 15302935	View Gene Set	1.063e-16	773	4.44e-14	6	Large-scale characterization of HeLa cell nuclear phosphoproteins.	www.ncbi.nlm.ni...
PMID 17643375	View Gene Set	5.335e-15	391	1.911e-12	7	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 11543634	View Gene Set	6.607e-15	58	2.071e-12	8	The human mitochondrial ribosomal protein genes: mapping of 54 genes to the chromosomes and implications for human disorders.	www.ncbi.nlm.ni...
PMID 11991638	View Gene Set	1.069e-10	74	2.787e-08	9	Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis.	www.ncbi.nlm.ni...
PMID 14559993	View Gene Set	1.112e-10	51	2.787e-08	9	Regulation of alternative splicing by SRrp86 and its interacting proteins.	www.ncbi.nlm.ni...
PMID 16964243	View Gene Set	1.265e-09	504	2.882e-07	11	A probability-based approach for high-throughput protein phosphorylation analysis and site localization.	www.ncbi.nlm.ni...
PMID 20085707	View Gene Set	9.205e-09	42	1.923e-06	12	Aire's partners in the molecular control of immunological tolerance.	www.ncbi.nlm.ni...
PMID 11279123	View Gene Set	3.412e-08	31	6.579e-06	13	The small subunit of the mammalian mitochondrial ribosome. Identification of the full complement of ribosomal proteins present.	www.ncbi.nlm.ni...
PMID 16565220	View Gene Set	5.362e-08	210	9.602e-06	14	Phosphoproteome analysis of the human mitotic spindle.	www.ncbi.nlm.ni...
PMID 12234937	View Gene Set	5.806e-08	34	9.704e-06	15	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 15130578	View Gene Set	6.66e-08	22	1.043e-05	16	Why do cells need an assembly machine for RNA-protein complexes?	www.ncbi.nlm.ni...
PMID 11080476	View Gene Set	1.031e-07	87	1.521e-05	17	Acetylation of HIV-1 Tat by CBP/P300 increases transcription of integrated HIV-1 genome and enhances binding to core histones.	www.ncbi.nlm.ni...
PMID 15231747	View Gene Set	3.43e-07	212	4.777e-05	18	A protein interaction framework for human mRNA degradation.	www.ncbi.nlm.ni...
PMID 12611891	View Gene Set	3.796e-07	40	5.009e-05	19	The subunit composition of the human NADH dehydrogenase obtained by rapid one-step immunopurification.	www.ncbi.nlm.ni...
PMID 9878551	View Gene Set	5.393e-07	34	6.76e-05	20	cDNA of eight nuclear encoded subunits of NADH:ubiquinone oxidoreductase: human complex I cDNA characterization completed.	www.ncbi.nlm.ni...
PMID 12408966	View Gene Set	1.942e-06	76	0.0002318	21	The human and mouse replication-dependent histone genes.	www.ncbi.nlm.ni...
PMID 9439656	View Gene Set	2.686e-06	55	0.0003061	22	The human histone gene cluster at the D6S105 locus.	www.ncbi.nlm.ni...
PMID 11689053	View Gene Set	3.505e-06	70	0.0003661	23	Enhancement of the p300 HAT activity by HIV-1 Tat on chromatin DNA.	www.ncbi.nlm.ni...
PMID 14657027	View Gene Set	3.498e-06	74	0.0003661	23	Regulation of HIV-1 gene expression by histone acetylation and factor recruitment at the LTR promoter.	www.ncbi.nlm.ni...
PMID 20496165	View Gene Set	7.271e-06	68	0.0007291	25	Comprehensive screen of genetic variation in DNA repair pathway genes and postmenopausal breast cancer risk.	www.ncbi.nlm.ni...
PMID 9763677	View Gene Set	7.871e-06	15	0.0007589	26	Intron based radiation hybrid mapping of 15 complex I genes of the human electron transport chain.	www.ncbi.nlm.ni...
PMID 11279069	View Gene Set	8.888e-06	15	0.0008253	27	Structural compensation for the deficit of rRNA with proteins in the mammalian mitochondrial ribosome. Systematic analysis of protein components of the large ribosomal subunit from mammalian mitochondria.	www.ncbi.nlm.ni...
PMID 10531003	View Gene Set	9.513e-06	15	0.0008518	28	Newly assembled snRNPs associate with coiled bodies before speckles suggesting a nuclear snRNP maturation pathway.	www.ncbi.nlm.ni...
PMID 9731529	View Gene Set	9.942e-06	24	0.0008595	29	Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex.	www.ncbi.nlm.ni...
PMID 11829477	View Gene Set	1.345e-05	13	0.001124	30	Interaction network of human aminoacyl-tRNA synthetases and subunits of elongation factor 1 complex.	www.ncbi.nlm.ni...
PMID 9566873	View Gene Set	1.571e-05	74	0.00127	31	Transcriptional activation of the integrated chromatin-associated human immunodeficiency virus type 1 promoter.	www.ncbi.nlm.ni...
PMID 17148452	View Gene Set	2.158e-05	87	0.001691	32	Characterization of the interactome of the human MutL homologues MLH1 PMS1 and PMS2.	www.ncbi.nlm.ni...
PMID 12391170	View Gene Set	2.286e-05	18	0.001717	33	Characterization of human RNA polymerase III identifies orthologues for Saccharomyces cerevisiae RNA polymerase III subunits.	www.ncbi.nlm.ni...
PMID 15146077	View Gene Set	2.328e-05	32	0.001717	33	The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome.	www.ncbi.nlm.ni...
PMID 15823041	View Gene Set	2.568e-05	13	0.00184	35	Deimination of histone H2A and H4 at arginine 3 in HL-60 granulocytes.	www.ncbi.nlm.ni...
PMID 16236267	View Gene Set	3.106e-05	77	0.002163	36	Proteomic analysis of SUMO4 substrates in HEK293 cells under serum starvation-induced stress.	www.ncbi.nlm.ni...
PMID 18063578	View Gene Set	3.352e-05	31	0.002271	37	The layered structure of human mitochondrial DNA nucleoids.	www.ncbi.nlm.ni...
PMID 18162579	View Gene Set	3.919e-05	22	0.002586	38	Identification of novel human Cdt1-binding proteins by a proteomics approach: proteolytic regulation by APC/CCdh1.	www.ncbi.nlm.ni...
PMID 12628926	View Gene Set	5.13e-05	15	0.003297	39	Purification and functional characterization of the human N-CoR complex: the roles of HDAC3 TBL1 and TBLR1.	www.ncbi.nlm.ni...
PMID 11551941	View Gene Set	5.352e-05	26	0.003354	40	The large subunit of the mammalian mitochondrial ribosome. Analysis of the complement of ribosomal proteins present.	www.ncbi.nlm.ni...
PMID 10601273	View Gene Set	5.797e-05	21	0.003544	41	Nuclear import of hepatic glucokinase depends upon glucokinase regulatory protein whereas export is due to a nuclear export signal sequence in glucokinase.	www.ncbi.nlm.ni...
PMID 11748230	View Gene Set	8.072e-05	17	0.004818	42	Purification of native survival of motor neurons complexes and identification of Gemin6 as a novel component.	www.ncbi.nlm.ni...
PMID 1403646	View Gene Set	8.612e-05	17	0.004907	43	The human immunodeficiency virus tat protein increases the transcription of human Alu repeated sequences by increasing the activity of the cellular transcription factor TFIIIC.	www.ncbi.nlm.ni...
PMID 19710015	View Gene Set	8.531e-05	48	0.004907	43	The metastasis efficiency modifier ribosomal RNA processing 1 homolog B (RRP1B) is a chromatin-associated factor.	www.ncbi.nlm.ni...
PMID 11157797	View Gene Set	9.177e-05	76	0.005001	45	Sequence structure and pathology of the fully annotated terminal 2 Mb of the short arm of human chromosome 16.	www.ncbi.nlm.ni...
PMID 12171929	View Gene Set	8.981e-05	31	0.005001	45	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 15196461	View Gene Set	0.0001025	11	0.005465	47	The highly conserved and multifunctional NuA4 HAT complex.	www.ncbi.nlm.ni...
PMID 15461802	View Gene Set	0.0001061	293	0.005543	48	A genome annotation-driven approach to cloning the human ORFeome.	www.ncbi.nlm.ni...
PMID 15078818	View Gene Set	0.0001396	11	0.007001	49	Nucleosomal histone kinase-1 phosphorylates H2A Thr 119 during mitosis in the early Drosophila embryo.	www.ncbi.nlm.ni...
PMID 16702407	View Gene Set	0.0001396	11	0.007001	49	DNA damage triggers nucleotide excision repair-dependent monoubiquitylation of histone H2A.	www.ncbi.nlm.ni...
PMID 9878398	View Gene Set	0.0001637	13	0.008049	51	Macromolecular assemblage of aminoacyl-tRNA synthetases: identification of protein-protein interactions and characterization of a core protein.	www.ncbi.nlm.ni...
PMID 19237606	View Gene Set	0.0001678	84	0.008088	52	Genetic polymorphisms in 85 DNA repair genes and bladder cancer risk.	www.ncbi.nlm.ni...
PMID 11714716	View Gene Set	0.0001716	13	0.008118	53	Gemin5 a novel WD repeat protein component of the SMN complex that binds Sm proteins.	www.ncbi.nlm.ni...
PMID 19915574	View Gene Set	0.0001791	14	0.008313	54	Common variants at five new loci associated with early-onset inflammatory bowel disease.	www.ncbi.nlm.ni...
PMID 10591208	View Gene Set	0.0002491	299	0.01133	55	The DNA sequence of human chromosome 22.	www.ncbi.nlm.ni...
PMID 11812149	View Gene Set	0.0002622	13	0.01133	55	Protein-protein interactions of hCsl4p with other human exosome subunits.	www.ncbi.nlm.ni...
PMID 12614612	View Gene Set	0.0002619	19	0.01133	55	Interaction and assembly of murine pre-replicative complex proteins in yeast and mouse cells.	www.ncbi.nlm.ni...
PMID 9119399	View Gene Set	0.0002563	35	0.01133	55	Human histone gene organization: nonregular arrangement within a large cluster.	www.ncbi.nlm.ni...
PMID 10983978	View Gene Set	0.0003098	10	0.01316	59	Direct coupling of transcription and mRNA processing through the thermogenic coactivator PGC-1.	www.ncbi.nlm.ni...
PMID 12228227	View Gene Set	0.0003195	30	0.01335	60	Docking of HIV-1 Vpr to the nuclear envelope is mediated by the interaction with the nucleoporin hCG1.	www.ncbi.nlm.ni...
PMID 8724849	View Gene Set	0.0003553	41	0.0146	61	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 20516191	View Gene Set	0.0003763	12	0.01522	62	A rational nomenclature for serine/arginine-rich protein splicing factors (SR proteins).	www.ncbi.nlm.ni...
PMID 11877377	View Gene Set	0.0004153	11	0.01627	63	SMC1 is a downstream effector in the ATM/NBS1 branch of the human S-phase checkpoint.	www.ncbi.nlm.ni...
PMID 12837248	View Gene Set	0.0004113	22	0.01627	63	The chromatin-remodeling complex WINAC targets a nuclear receptor to promoters and is impaired in Williams syndrome.	www.ncbi.nlm.ni...
PMID 4517936	View Gene Set	0.0004354	15	0.01679	65	A new concept for energy coupling in oxidative phosphorylation based on a molecular explanation of the oxygen exchange reactions.	www.ncbi.nlm.ni...
PMID 15647280	View Gene Set	0.0004627	17	0.01735	66	The mammalian YL1 protein is a shared subunit of the TRRAP/TIP60 histone acetyltransferase and SRCAP complexes.	www.ncbi.nlm.ni...
PMID 19209188	View Gene Set	0.0004638	13	0.01735	66	Genetic association analysis of 13 nuclear-encoded mitochondrial candidate genes with type II diabetes mellitus: the DAMAGE study.	www.ncbi.nlm.ni...
PMID 12719574	View Gene Set	0.0005851	42	0.0182	68	Comprehensive investigation of the molecular defect in vif-deficient human immunodeficiency virus type 1 virions.	www.ncbi.nlm.ni...
PMID 12750511	View Gene Set	0.0005851	42	0.0182	68	Hypermutation of HIV-1 DNA in the absence of the Vif protein.	www.ncbi.nlm.ni...
PMID 12830140	View Gene Set	0.0005851	42	0.0182	68	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	0.0005851	42	0.0182	68	Good to CU.	www.ncbi.nlm.ni...
PMID 12914693	View Gene Set	0.0005851	42	0.0182	68	Death by deamination: a novel host restriction system for HIV-1.	www.ncbi.nlm.ni...
PMID 12920286	View Gene Set	0.0005851	42	0.0182	68	Virology. Weapons of mutational destruction.	www.ncbi.nlm.ni...
PMID 14614829	View Gene Set	0.0005851	42	0.0182	68	The Vif protein of HIV triggers degradation of the human antiretroviral DNA deaminase APOBEC3G.	www.ncbi.nlm.ni...
PMID 14749816	View Gene Set	0.000536	15	0.0182	68	Molecular motors: turning the ATP motor.	www.ncbi.nlm.ni...
PMID 15010469	View Gene Set	0.0005881	15	0.0182	68	Phosphorylation of histone H2A inhibits transcription on chromatin templates.	www.ncbi.nlm.ni...
PMID 16319397	View Gene Set	0.00055	20	0.0182	68	Characterization of histone H2A and H2B variants and their post-translational modifications by mass spectrometry.	www.ncbi.nlm.ni...
PMID 16359901	View Gene Set	0.0005258	14	0.0182	68	Role of Bmi-1 and Ring1A in H2A ubiquitylation and Hox gene silencing.	www.ncbi.nlm.ni...
PMID 9811770	View Gene Set	0.0005851	42	0.0182	68	An endogenous inhibitor of human immunodeficiency virus in human lymphocytes is overcome by the viral Vif protein.	www.ncbi.nlm.ni...
PMID 9834036	View Gene Set	0.000536	15	0.0182	68	Energy transduction in the F1 motor of ATP synthase.	www.ncbi.nlm.ni...
PMID 9846577	View Gene Set	0.0005851	42	0.0182	68	Evidence for a newly discovered cellular anti-HIV-1 phenotype.	www.ncbi.nlm.ni...
PMID 12601814	View Gene Set	0.0006007	12	0.01837	82	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 10783165	View Gene Set	0.0006527	12	0.01959	83	BASC a super complex of BRCA1-associated proteins involved in the recognition and repair of aberrant DNA structures.	www.ncbi.nlm.ni...
PMID 12419256	View Gene Set	0.0006563	12	0.01959	83	Protein-protein interactions between human exosome components support the assembly of RNase PH-type subunits into a six-membered PNPase-like ring.	www.ncbi.nlm.ni...
PMID 12167863	View Gene Set	0.0007318	43	0.01973	85	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	0.0007318	43	0.01973	85	The cytidine deaminase CEM15 induces hypermutation in newly synthesized HIV-1 DNA.	www.ncbi.nlm.ni...
PMID 12808466	View Gene Set	0.0007318	43	0.01973	85	Broad antiretroviral defence by human APOBEC3G through lethal editing of nascent reverse transcripts.	www.ncbi.nlm.ni...
PMID 12809610	View Gene Set	0.0007318	43	0.01973	85	DNA deamination mediates innate immunity to retroviral infection.	www.ncbi.nlm.ni...
PMID 12970355	View Gene Set	0.0007318	43	0.01973	85	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	0.0007318	43	0.01973	85	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	0.0007318	43	0.01973	85	The antiretroviral enzyme APOBEC3G is degraded by the proteasome in response to HIV-1 Vif.	www.ncbi.nlm.ni...
PMID 14528301	View Gene Set	0.0007318	43	0.01973	85	HIV-1 Vif protein binds the editing enzyme APOBEC3G and induces its degradation.	www.ncbi.nlm.ni...
PMID 14557625	View Gene Set	0.0007318	43	0.01973	85	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 11110791	View Gene Set	0.0007421	12	0.01979	94	Three novel components of the human exosome.	www.ncbi.nlm.ni...
PMID 12529303	View Gene Set	0.0007644	33	0.02017	95	Reevaluating human gene annotation: a second-generation analysis of chromosome 22.	www.ncbi.nlm.ni...
PMID 10725406	View Gene Set	0.0008891	13	0.02164	96	BRCA1 interaction with RNA polymerase II reveals a role for hRPB2 and hRPB10alpha in activated transcription.	www.ncbi.nlm.ni...
PMID 10893419	View Gene Set	0.0008865	41	0.02164	96	Degradation of HIV-1 integrase by the N-end rule pathway.	www.ncbi.nlm.ni...
PMID 12419264	View Gene Set	0.0008865	41	0.02164	96	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	0.0008865	41	0.02164	96	Human immunodeficiency virus-1 Tat protein interacts with distinct proteasomal alpha and beta subunits.	www.ncbi.nlm.ni...
PMID 14966270	View Gene Set	0.0008456	19	0.02164	96	Structural and functional conservation of the NuA4 histone acetyltransferase complex from yeast to humans.	www.ncbi.nlm.ni...
PMID 15009096	View Gene Set	0.0008798	39	0.02164	96	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 15456888	View Gene Set	0.000872	24	0.02164	96	The WW domain-containing proteins interact with the early spliceosome and participate in pre-mRNA splicing in vivo.	www.ncbi.nlm.ni...
PMID 9079628	View Gene Set	0.0008865	41	0.02164	96	HIV-1 tat inhibits the 20 S proteasome and its 11 S regulator-mediated activation.	www.ncbi.nlm.ni...
PMID 12045100	View Gene Set	0.0009439	18	0.02212	104	DNA replication in eukaryotic cells.	www.ncbi.nlm.ni...
PMID 12791985	View Gene Set	0.0009319	37	0.02212	104	Sensing DNA damage through ATRIP recognition of RPA-ssDNA complexes.	www.ncbi.nlm.ni...
PMID 15146057	View Gene Set	0.0009435	10	0.02212	104	The entire Nup107-160 complex including three new members is targeted as one entity to kinetochores in mitosis.	www.ncbi.nlm.ni...
PMID 15644312	View Gene Set	0.0009314	10	0.02212	104	Dissection of the mitochondrial import and assembly pathway for human Tom40.	www.ncbi.nlm.ni...
PMID 7638159	View Gene Set	0.0009595	13	0.02227	108	Specific binding of RNA polymerase II to the human immunodeficiency virus trans-activating region RNA is regulated by cellular cofactors and Tat.	www.ncbi.nlm.ni...
PMID 10373521	View Gene Set	0.000983	13	0.0224	109	Transcriptional cofactor CA150 regulates RNA polymerase II elongation in a TATA-box-dependent manner.	www.ncbi.nlm.ni...
PMID 14564014	View Gene Set	0.0009828	47	0.0224	109	Induction of APOBEC3G ubiquitination and degradation by an HIV-1 Vif-Cul5-SCF complex.	www.ncbi.nlm.ni...
PMID 12065586	View Gene Set	0.001021	14	0.02306	111	Identification and characterization of Gemin7 a novel component of the survival of motor neuron complex.	www.ncbi.nlm.ni...
PMID 16501559	View Gene Set	0.001051	12	0.02352	112	Analysis of the human protein interactome and comparison with yeast worm and fly interaction datasets.	www.ncbi.nlm.ni...
PMID 10064132	View Gene Set	0.001061	14	0.02355	113	The human H2A and H2B histone gene complement.	www.ncbi.nlm.ni...
PMID 11500380	View Gene Set	0.001167	10	0.024	114	A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site.	www.ncbi.nlm.ni...
PMID 11714285	View Gene Set	0.001168	11	0.024	114	The appended C-domain of human methionyl-tRNA synthetase has a tRNA-sequestering function.	www.ncbi.nlm.ni...
PMID 11719186	View Gene Set	0.001136	17	0.024	114	AU binding proteins recruit the exosome to degrade ARE-containing mRNAs.	www.ncbi.nlm.ni...
PMID 16055448	View Gene Set	0.001168	11	0.024	114	The C-terminal appended domain of human cytosolic leucyl-tRNA synthetase is indispensable in its interaction with arginyl-tRNA synthetase in the multi-tRNA synthetase complex.	www.ncbi.nlm.ni...
PMID 8052601	View Gene Set	0.001168	11	0.024	114	Human cytoplasmic isoleucyl-tRNA synthetase: selective divergence of the anticodon-binding domain and acquisition of a new structural unit.	www.ncbi.nlm.ni...
PMID 8078941	View Gene Set	0.001168	11	0.024	114	Evolution of the Glx-tRNA synthetase family: the glutaminyl enzyme as a case of horizontal gene transfer.	www.ncbi.nlm.ni...
PMID 8188258	View Gene Set	0.001168	11	0.024	114	The human EPRS locus (formerly the QARS locus): a gene encoding a class I and a class II aminoacyl-tRNA synthetase.	www.ncbi.nlm.ni...
PMID 8449960	View Gene Set	0.001168	11	0.024	114	Expression of human aspartyl-tRNA synthetase in Escherichia coli. Functional analysis of the N-terminal putative amphiphilic helix.	www.ncbi.nlm.ni...
PMID 9278442	View Gene Set	0.001168	11	0.024	114	Human lysyl-tRNA synthetase accepts nucleotide 73 variants and rescues Escherichia coli double-defective mutant.	www.ncbi.nlm.ni...
PMID 10601333	View Gene Set	0.001217	12	0.0246	123	Gemin3: A novel DEAD box protein that interacts with SMN the spinal muscular atrophy gene product and is a component of gems.	www.ncbi.nlm.ni...
PMID 7273846	View Gene Set	0.001212	12	0.0246	123	The glucose-lactic acid cycle and gluconeogenesis.	www.ncbi.nlm.ni...
PMID 11095689	View Gene Set	0.001254	17	0.02515	125	The human homolog of Saccharomyces cerevisiae Mcm10 interacts with replication factors and dissociates from nuclease-resistant nuclear structures in G(2) phase.	www.ncbi.nlm.ni...
PMID 17363900	View Gene Set	0.001379	14	0.02723	126	The human Nup107-160 nuclear pore subcomplex contributes to proper kinetochore functions.	www.ncbi.nlm.ni...
PMID 9461222	View Gene Set	0.00138	14	0.02723	126	Energy transduction in ATP synthase.	www.ncbi.nlm.ni...
PMID 12110673	View Gene Set	0.00139	15	0.02723	128	A functionally active human F1F0 ATPase can be purified by immunocapture from heart tissue and fibroblast cell lines. Subunit structure and activity studies.	www.ncbi.nlm.ni...
PMID 10436018	View Gene Set	0.001428	15	0.02775	129	The Cdc6 nucleotide-binding site regulates its activity in DNA replication in human cells.	www.ncbi.nlm.ni...
PMID 19270065	View Gene Set	0.001439	11	0.02776	130	MRE11 complex links RECQ5 helicase to sites of DNA damage.	www.ncbi.nlm.ni...
PMID 18391951	View Gene Set	0.001473	177	0.0282	131	Many sequence variants affecting diversity of adult human height.	www.ncbi.nlm.ni...
PMID 10725331	View Gene Set	0.001517	14	0.02859	132	Gemin4. A novel component of the SMN complex that is found in both gems and nucleoli.	www.ncbi.nlm.ni...
PMID 14667819	View Gene Set	0.001507	112	0.02859	132	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 11547919	View Gene Set	0.001629	17	0.03047	134	Multiple modes of transcriptional regulation by the HIV-1 Tat transactivator.	www.ncbi.nlm.ni...
PMID 11205743	View Gene Set	0.001679	15	0.03073	135	Polo-like kinase interacts with proteasomes and regulates their activity.	www.ncbi.nlm.ni...
PMID 11713266	View Gene Set	0.001679	12	0.03073	135	The methylosome a 20S complex containing JBP1 and pICln produces dimethylarginine-modified Sm proteins.	www.ncbi.nlm.ni...
PMID 12073013	View Gene Set	0.001663	11	0.03073	135	Identification of additional transcripts in the Williams-Beuren syndrome critical region.	www.ncbi.nlm.ni...
PMID 15226435	View Gene Set	0.001814	10	0.03295	138	Multiple protein-protein interactions by RNA polymerase I-associated factor PAF49 and role of PAF49 in rRNA transcription.	www.ncbi.nlm.ni...
PMID 12975319	View Gene Set	0.001898	10	0.03374	139	Unique Sm core structure of U7 snRNPs: assembly by a specialized SMN complex and the role of a new component Lsm11 in histone RNA processing.	www.ncbi.nlm.ni...
PMID 15960975	View Gene Set	0.001886	28	0.03374	139	Physical association and coordinate function of the H3 K4 methyltransferase MLL1 and the H4 K16 acetyltransferase MOF.	www.ncbi.nlm.ni...
PMID 16916647	View Gene Set	0.001873	76	0.03374	139	Substrate and functional diversity of lysine acetylation revealed by a proteomics survey.	www.ncbi.nlm.ni...
PMID 9472028	View Gene Set	0.001921	12	0.03392	142	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 15707391	View Gene Set	0.001944	23	0.03406	143	DNA-dependent phosphorylation of Chk1 and Claspin in a human cell-free system.	www.ncbi.nlm.ni...
PMID 16387653	View Gene Set	0.001956	42	0.03406	143	ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation.	www.ncbi.nlm.ni...
PMID 12788944	View Gene Set	0.002026	11	0.03502	145	The association of the human PM/Scl-75 autoantigen with the exosome is dependent on a newly identified N terminus.	www.ncbi.nlm.ni...
PMID 10698937	View Gene Set	0.00225	13	0.03849	146	TIP30 has an intrinsic kinase activity required for up-regulation of a subset of apoptotic genes.	www.ncbi.nlm.ni...
PMID 18954305	View Gene Set	0.002257	13	0.03849	146	Structural basis and specificity of human otubain 1-mediated deubiquitination.	www.ncbi.nlm.ni...
PMID 17891500	View Gene Set	0.002326	10	0.03934	148	One-carbon metabolism gene polymorphisms and risk of non-Hodgkin lymphoma in Australia.	www.ncbi.nlm.ni...
PMID 8590280	View Gene Set	0.002338	41	0.03934	148	Prediction of the coding sequences of unidentified human genes. IV. The coding sequences of 40 new genes (KIAA0121-KIAA0160) deduced by analysis of cDNA clones from human cell line KG-1.	www.ncbi.nlm.ni...
PMID 19493349	View Gene Set	0.002361	14	0.03946	150	118 SNPs of folate-related genes and risks of spina bifida and conotruncal heart defects.	www.ncbi.nlm.ni...
PMID 9409616	View Gene Set	0.002437	17	0.04024	151	Purification and cDNA cloning of the AdoMet-binding subunit of the human mRNA (N6-adenosine)-methyltransferase.	www.ncbi.nlm.ni...
PMID 9710619	View Gene Set	0.00244	16	0.04024	151	A human RNA polymerase II complex containing factors that modify chromatin structure.	www.ncbi.nlm.ni...
PMID 14527417	View Gene Set	0.002527	13	0.04141	153	N-CoR mediates DNA methylation-dependent repression through a methyl CpG binding protein Kaiso.	www.ncbi.nlm.ni...
PMID 15616553	View Gene Set	0.002591	80	0.04218	154	The sequence and analysis of duplication-rich human chromosome 16.	www.ncbi.nlm.ni...
PMID 10069959	View Gene Set	0.002797	12	0.04382	155	Human immunodeficiency virus type 1 Tat-dependent activation of an arrested RNA polymerase II elongation complex.	www.ncbi.nlm.ni...
PMID 12126615	View Gene Set	0.002797	12	0.04382	155	A bimolecular mechanism of HIV-1 Tat protein interaction with RNA polymerase II transcription elongation complexes.	www.ncbi.nlm.ni...
PMID 2190099	View Gene Set	0.002797	12	0.04382	155	Activation of transcription by HIV-1 Tat protein tethered to nascent RNA through another protein.	www.ncbi.nlm.ni...
PMID 8637904	View Gene Set	0.002797	12	0.04382	155	Human immunodeficiency virus type-1 Tat is an integral component of the activated transcription-elongation complex.	www.ncbi.nlm.ni...
PMID 8876177	View Gene Set	0.002797	12	0.04382	155	Trans-activation by human immunodeficiency virus Tat protein requires the C-terminal domain of RNA polymerase II.	www.ncbi.nlm.ni...
PMID 8910388	View Gene Set	0.002797	12	0.04382	155	Requirements for RNA polymerase II carboxyl-terminal domain for activated transcription of human retroviruses human T-cell lymphotropic virus I and HIV-1.	www.ncbi.nlm.ni...
PMID 10608806	View Gene Set	0.002887	25	0.04495	161	Substrate specificities and identification of putative substrates of ATM kinase family members.	www.ncbi.nlm.ni...
PMID 12221105	View Gene Set	0.002966	16	0.04589	162	Transcriptional activators differ in their abilities to control alternative splicing.	www.ncbi.nlm.ni...
PMID 12887902	View Gene Set	0.002989	15	0.04597	163	Acetylation of Tat defines a cyclinT1-independent step in HIV transactivation.	www.ncbi.nlm.ni...
PMID 10545121	View Gene Set	0.003257	16	0.04979	164	HIV-1 tat transcriptional activity is regulated by acetylation.	www.ncbi.nlm.ni...

Gene Set Collection: ChromosomalTiles5Mb

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.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.humancyc

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 chr17_80-85Mb	View Gene Set	7.657e-08	37	8.53e-05	1	Genomic tile: chr17 ; 80000001-85000001 Mb	genome.ucsc.edu...
Null chr17_77.5-82.5Mb	View Gene Set	4.064e-07	54	0.0002264	2	Genomic tile: chr17 ; 77500001-82500001 Mb	genome.ucsc.edu...
Null chr17_0-5Mb	View Gene Set	1.869e-06	65	0.0006942	3	Genomic tile: chr17 ; 1-5000001 Mb	genome.ucsc.edu...
Null chr16_0-5Mb	View Gene Set	1.386e-05	113	0.003509	4	Genomic tile: chr16 ; 1-5000001 Mb	genome.ucsc.edu...
Null chr1_10-15Mb	View Gene Set	1.807e-05	37	0.003509	4	Genomic tile: chr1 ; 10000001-15000001 Mb	genome.ucsc.edu...
Null chr9_132.5-137.5Mb	View Gene Set	1.89e-05	53	0.003509	4	Genomic tile: chr9 ; 132500001-137500001 Mb	genome.ucsc.edu...
Null chr19_0-5Mb	View Gene Set	6.8e-05	105	0.01082	7	Genomic tile: chr19 ; 1-5000001 Mb	genome.ucsc.edu...
Null chr22_40-45Mb	View Gene Set	0.0001465	51	0.0204	8	Genomic tile: chr22 ; 40000001-45000001 Mb	genome.ucsc.edu...
Null chr3_45-50Mb	View Gene Set	0.0001675	72	0.02073	9	Genomic tile: chr3 ; 45000001-50000001 Mb	genome.ucsc.edu...
Null chr3_47.5-52.5Mb	View Gene Set	0.0001947	94	0.02169	10	Genomic tile: chr3 ; 47500001-52500001 Mb	genome.ucsc.edu...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null PS50102	View Gene Set	2.065e-09	229	1.518e-06	1	RRM	expasy.org/pros...
Null PS00047	View Gene Set	3.65e-06	14	0.0007615	2	HISTONE_H4	expasy.org/pros...
Null PS00178	View Gene Set	2.142e-06	15	0.0007615	2	AA_TRNA_LIGASE_I	expasy.org/pros...
Null PS50862	View Gene Set	4.144e-06	18	0.0007615	2	AA_TRNA_LIGASE_II	expasy.org/pros...
Null PS51194	View Gene Set	2.959e-05	113	0.00435	5	HELICASE_CTER	expasy.org/pros...
Null PS00046	View Gene Set	4.77e-05	21	0.005008	6	HISTONE_H2A	expasy.org/pros...
Null PS50082	View Gene Set	4.616e-05	233	0.005008	6	WD_REPEATS_2	expasy.org/pros...
Null PS50294	View Gene Set	9.302e-05	245	0.008546	8	WD_REPEATS_REGION	expasy.org/pros...
Null PS51192	View Gene Set	0.0001051	112	0.008583	9	HELICASE_ATP_BIND_1	expasy.org/pros...
Null PS51195	View Gene Set	0.0001338	37	0.009835	10	Q_MOTIF	expasy.org/pros...
Null PS50051	View Gene Set	0.0001753	8	0.01171	11	MCM_2	expasy.org/pros...
Null PS00750	View Gene Set	0.0003609	9	0.01868	12	TCP1_1	expasy.org/pros...
Null PS00751	View Gene Set	0.0003609	9	0.01868	12	TCP1_2	expasy.org/pros...
Null PS00847	View Gene Set	0.0003811	6	0.01868	12	MCM_1	expasy.org/pros...
Null PS00995	View Gene Set	0.0003609	9	0.01868	12	TCP1_3	expasy.org/pros...
Null PS50833	View Gene Set	0.0005566	7	0.02557	16	BRIX	expasy.org/pros...
Null PS00469	View Gene Set	0.0007842	6	0.03236	17	NDP_KINASES	expasy.org/pros...
Null PS51286	View Gene Set	0.0007926	6	0.03236	17	RAP	expasy.org/pros...
Null PS50166	View Gene Set	0.0008564	13	0.03313	19	IMPORTIN_B_NT	expasy.org/pros...
Null PS50975	View Gene Set	0.001326	13	0.04873	20	ATP_GRASP	expasy.org/pros...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null EC:1.6.5.3	View Gene Set	2.192e-07	43	3.463e-05	1	NADH dehydrogenase (ubiquinone)	expasy.org/enzy...
Null EC:1.6.99.3	View Gene Set	5.138e-07	35	4.059e-05	2	NADH dehydrogenase	expasy.org/enzy...
Null EC:2.7.7.6	View Gene Set	0.0007171	17	0.03777	3	DNA-directed RNA polymerase	expasy.org/enzy...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.155871	View Gene Set	1.551e-18	236	3.563e-15	1	Protein-protein-interaction for 155871	www.ncbi.nlm.ni...
Null ppi.RPA1	View Gene Set	5.919e-07	23	0.0006798	2	Protein-protein-interaction for RPA1	www.ncbi.nlm.ni...
Null ppi.RNU12-2P	View Gene Set	2.783e-06	18	0.001598	3	Protein-protein-interaction for RNU12-2P	www.ncbi.nlm.ni...
Null ppi.RNU11	View Gene Set	2.783e-06	18	0.001598	3	Protein-protein-interaction for RNU11	www.ncbi.nlm.ni...
Null ppi.SRRM1	View Gene Set	4.533e-06	64	0.001736	5	Protein-protein-interaction for SRRM1	www.ncbi.nlm.ni...
Null ppi.MEPCE	View Gene Set	4.318e-06	147	0.001736	5	Protein-protein-interaction for MEPCE	www.ncbi.nlm.ni...
Null ppi.CHEK2	View Gene Set	8.466e-06	19	0.002189	7	Protein-protein-interaction for CHEK2	www.ncbi.nlm.ni...
Null ppi.SRRM2	View Gene Set	9.529e-06	101	0.002189	7	Protein-protein-interaction for SRRM2	www.ncbi.nlm.ni...
Null ppi.USP36	View Gene Set	9.311e-06	17	0.002189	7	Protein-protein-interaction for USP36	www.ncbi.nlm.ni...
Null ppi.RPA2	View Gene Set	8.476e-06	24	0.002189	7	Protein-protein-interaction for RPA2	www.ncbi.nlm.ni...
Null ppi.SSRP1	View Gene Set	1.202e-05	15	0.002509	11	Protein-protein-interaction for SSRP1	www.ncbi.nlm.ni...
Null ppi.MED26	View Gene Set	1.726e-05	22	0.003305	12	Protein-protein-interaction for MED26	www.ncbi.nlm.ni...
Null ppi.USP42	View Gene Set	5.829e-05	24	0.0103	13	Protein-protein-interaction for USP42	www.ncbi.nlm.ni...
Null ppi.TAF10	View Gene Set	0.0001035	27	0.01699	14	Protein-protein-interaction for TAF10	www.ncbi.nlm.ni...
Null ppi.UCHL5	View Gene Set	0.0001215	33	0.01861	15	Protein-protein-interaction for UCHL5	www.ncbi.nlm.ni...
Null ppi.TERF2	View Gene Set	0.0001387	9	0.01991	16	Protein-protein-interaction for TERF2	www.ncbi.nlm.ni...
Null ppi.GPN1	View Gene Set	0.0001507	27	0.02036	17	Protein-protein-interaction for GPN1	www.ncbi.nlm.ni...
Null ppi.RRP1B	View Gene Set	0.0001596	21	0.02037	18	Protein-protein-interaction for RRP1B	www.ncbi.nlm.ni...
Null ppi.RNMTL1	View Gene Set	0.000202	8	0.02443	19	Protein-protein-interaction for RNMTL1	www.ncbi.nlm.ni...
Null ppi.RAD50	View Gene Set	0.0002437	20	0.02545	20	Protein-protein-interaction for RAD50	www.ncbi.nlm.ni...
Null ppi.SUMO2	View Gene Set	0.0002277	50	0.02545	20	Protein-protein-interaction for SUMO2	www.ncbi.nlm.ni...
Null ppi.TP53BP1	View Gene Set	0.0002376	13	0.02545	20	Protein-protein-interaction for TP53BP1	www.ncbi.nlm.ni...
Null ppi.POLR1A	View Gene Set	0.0002979	11	0.02691	23	Protein-protein-interaction for POLR1A	www.ncbi.nlm.ni...
Null ppi.ING3	View Gene Set	0.0003266	10	0.02691	23	Protein-protein-interaction for ING3	www.ncbi.nlm.ni...
Null ppi.72462	View Gene Set	0.0002994	42	0.02691	23	Protein-protein-interaction for 72462	www.ncbi.nlm.ni...
Null ppi.WRN	View Gene Set	0.0003515	14	0.02691	23	Protein-protein-interaction for WRN	www.ncbi.nlm.ni...
Null ppi.XRCC5	View Gene Set	0.000324	40	0.02691	23	Protein-protein-interaction for XRCC5	www.ncbi.nlm.ni...
Null ppi.MCPH1	View Gene Set	0.0003445	17	0.02691	23	Protein-protein-interaction for MCPH1	www.ncbi.nlm.ni...
Null ppi.HIST1H4A	View Gene Set	0.0003495	28	0.02691	23	Protein-protein-interaction for HIST1H4A	www.ncbi.nlm.ni...
Null ppi.KEAP1	View Gene Set	0.0003317	21	0.02691	23	Protein-protein-interaction for KEAP1	www.ncbi.nlm.ni...
Null ppi.SF3A2	View Gene Set	0.0004776	16	0.03539	31	Protein-protein-interaction for SF3A2	www.ncbi.nlm.ni...
Null ppi.NUP98	View Gene Set	0.0005166	10	0.03596	32	Protein-protein-interaction for NUP98	www.ncbi.nlm.ni...
Null ppi.CDT1	View Gene Set	0.0005015	37	0.03596	32	Protein-protein-interaction for CDT1	www.ncbi.nlm.ni...
Null ppi.POLR3H	View Gene Set	0.0005354	14	0.03617	34	Protein-protein-interaction for POLR3H	www.ncbi.nlm.ni...
Null ppi.ORC2L	View Gene Set	0.00057	12	0.03741	35	Protein-protein-interaction for ORC2L	www.ncbi.nlm.ni...
Null ppi.PRPF40A	View Gene Set	0.0006318	53	0.04011	36	Protein-protein-interaction for PRPF40A	www.ncbi.nlm.ni...
Null ppi.USF2	View Gene Set	0.0006461	13	0.04011	36	Protein-protein-interaction for USF2	www.ncbi.nlm.ni...
Null ppi.GEMIN5	View Gene Set	0.0007495	11	0.04252	38	Protein-protein-interaction for GEMIN5	www.ncbi.nlm.ni...
Null ppi.MRE11A	View Gene Set	0.000759	13	0.04252	38	Protein-protein-interaction for MRE11A	www.ncbi.nlm.ni...
Null ppi.SNRPF	View Gene Set	0.0007088	6	0.04252	38	Protein-protein-interaction for SNRPF	www.ncbi.nlm.ni...
Null ppi.GTF3C3	View Gene Set	0.0007236	11	0.04252	38	Protein-protein-interaction for GTF3C3	www.ncbi.nlm.ni...
Null ppi.U2AF2	View Gene Set	0.0007966	14	0.04356	42	Protein-protein-interaction for U2AF2	www.ncbi.nlm.ni...
Null ppi.TH1L	View Gene Set	0.0008477	26	0.04528	43	Protein-protein-interaction for TH1L	www.ncbi.nlm.ni...
Null ppi.WBP4	View Gene Set	0.0008678	35	0.0453	44	Protein-protein-interaction for WBP4	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.SFRS12	View Gene Set	3.04e-10	49	7.218e-07	1	Protein-protein-interaction for SFRS12	www.ncbi.nlm.ni...
Null ppi.SUMO4	View Gene Set	3.267e-05	76	0.02585	2	Protein-protein-interaction for SUMO4	www.ncbi.nlm.ni...
Null ppi.WRN	View Gene Set	2.715e-05	17	0.02585	2	Protein-protein-interaction for WRN	www.ncbi.nlm.ni...
Null ppi.EXOSC5	View Gene Set	7.895e-05	18	0.04686	4	Protein-protein-interaction for EXOSC5	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.155871	View Gene Set	7.847e-19	251	2.82e-15	1	Protein-protein-interaction for 155871	www.ncbi.nlm.ni...
Null ppi.SFRS12	View Gene Set	2.309e-10	50	4.149e-07	2	Protein-protein-interaction for SFRS12	www.ncbi.nlm.ni...
Null ppi.RNU12-2P	View Gene Set	2.783e-06	18	0.0025	3	Protein-protein-interaction for RNU12-2P	www.ncbi.nlm.ni...
Null ppi.RNU11	View Gene Set	2.783e-06	18	0.0025	3	Protein-protein-interaction for RNU11	www.ncbi.nlm.ni...
Null ppi.SRRM1	View Gene Set	4.973e-06	66	0.002553	5	Protein-protein-interaction for SRRM1	www.ncbi.nlm.ni...
Null ppi.MEPCE	View Gene Set	4.318e-06	147	0.002553	5	Protein-protein-interaction for MEPCE	www.ncbi.nlm.ni...
Null ppi.RPA1	View Gene Set	4.101e-06	24	0.002553	5	Protein-protein-interaction for RPA1	www.ncbi.nlm.ni...
Null ppi.SRRM2	View Gene Set	9.529e-06	101	0.003805	8	Protein-protein-interaction for SRRM2	www.ncbi.nlm.ni...
Null ppi.USP36	View Gene Set	9.311e-06	17	0.003805	8	Protein-protein-interaction for USP36	www.ncbi.nlm.ni...
Null ppi.WRN	View Gene Set	2.045e-05	21	0.00735	10	Protein-protein-interaction for WRN	www.ncbi.nlm.ni...
Null ppi.RPA2	View Gene Set	2.509e-05	25	0.007515	11	Protein-protein-interaction for RPA2	www.ncbi.nlm.ni...
Null ppi.SSRP1	View Gene Set	2.391e-05	21	0.007515	11	Protein-protein-interaction for SSRP1	www.ncbi.nlm.ni...
Null ppi.SUMO4	View Gene Set	3.267e-05	76	0.009031	13	Protein-protein-interaction for SUMO4	www.ncbi.nlm.ni...
Null ppi.MED26	View Gene Set	3.922e-05	23	0.01007	14	Protein-protein-interaction for MED26	www.ncbi.nlm.ni...
Null ppi.ING3	View Gene Set	5.771e-05	12	0.01309	15	Protein-protein-interaction for ING3	www.ncbi.nlm.ni...
Null ppi.USP42	View Gene Set	5.829e-05	24	0.01309	15	Protein-protein-interaction for USP42	www.ncbi.nlm.ni...
Null ppi.CHEK2	View Gene Set	7.966e-05	33	0.0163	17	Protein-protein-interaction for CHEK2	www.ncbi.nlm.ni...
Null ppi.EXOSC5	View Gene Set	8.478e-05	20	0.0163	17	Protein-protein-interaction for EXOSC5	www.ncbi.nlm.ni...
Null ppi.XRCC5	View Gene Set	8.615e-05	52	0.0163	17	Protein-protein-interaction for XRCC5	www.ncbi.nlm.ni...
Null ppi.RAD50	View Gene Set	0.0001177	21	0.01922	20	Protein-protein-interaction for RAD50	www.ncbi.nlm.ni...
Null ppi.UCHL5	View Gene Set	0.0001172	34	0.01922	20	Protein-protein-interaction for UCHL5	www.ncbi.nlm.ni...
Null ppi.NUP153	View Gene Set	0.0001136	16	0.01922	20	Protein-protein-interaction for NUP153	www.ncbi.nlm.ni...
Null ppi.HIST1H4A	View Gene Set	0.0001244	31	0.01943	23	Protein-protein-interaction for HIST1H4A	www.ncbi.nlm.ni...
Null ppi.GPN1	View Gene Set	0.0001507	27	0.02178	24	Protein-protein-interaction for GPN1	www.ncbi.nlm.ni...
Null ppi.KEAP1	View Gene Set	0.0001515	22	0.02178	24	Protein-protein-interaction for KEAP1	www.ncbi.nlm.ni...
Null ppi.RRP1B	View Gene Set	0.0001596	21	0.02206	26	Protein-protein-interaction for RRP1B	www.ncbi.nlm.ni...
Null ppi.TAF10	View Gene Set	0.0001745	29	0.02323	27	Protein-protein-interaction for TAF10	www.ncbi.nlm.ni...
Null ppi.RNMTL1	View Gene Set	0.000202	8	0.02593	28	Protein-protein-interaction for RNMTL1	www.ncbi.nlm.ni...
Null ppi.POLR3H	View Gene Set	0.0002168	15	0.02687	29	Protein-protein-interaction for POLR3H	www.ncbi.nlm.ni...
Null ppi.NUP98	View Gene Set	0.0002636	12	0.03158	30	Protein-protein-interaction for NUP98	www.ncbi.nlm.ni...
Null ppi.POLR1A	View Gene Set	0.0002752	13	0.0319	31	Protein-protein-interaction for POLR1A	www.ncbi.nlm.ni...
Null ppi.72462	View Gene Set	0.0002994	42	0.03301	32	Protein-protein-interaction for 72462	www.ncbi.nlm.ni...
Null ppi.GEMIN6	View Gene Set	0.0003031	14	0.03301	32	Protein-protein-interaction for GEMIN6	www.ncbi.nlm.ni...
Null ppi.MPP6	View Gene Set	0.0003448	19	0.03456	34	Protein-protein-interaction for MPP6	www.ncbi.nlm.ni...
Null ppi.MCPH1	View Gene Set	0.0003445	17	0.03456	34	Protein-protein-interaction for MCPH1	www.ncbi.nlm.ni...
Null ppi.PDHX	View Gene Set	0.0003462	7	0.03456	34	Protein-protein-interaction for PDHX	www.ncbi.nlm.ni...
Null ppi.NCOA6	View Gene Set	0.0004404	61	0.04278	37	Protein-protein-interaction for NCOA6	www.ncbi.nlm.ni...
Null ppi.SNORD3A	View Gene Set	0.0004719	9	0.04292	38	Protein-protein-interaction for SNORD3A	www.ncbi.nlm.ni...
Null ppi.GEMIN7	View Gene Set	0.0004633	10	0.04292	38	Protein-protein-interaction for GEMIN7	www.ncbi.nlm.ni...
Null ppi.SF3A2	View Gene Set	0.0004776	16	0.04292	38	Protein-protein-interaction for SF3A2	www.ncbi.nlm.ni...
Null ppi.RAN	View Gene Set	0.0005055	15	0.04431	41	Protein-protein-interaction for RAN	www.ncbi.nlm.ni...
Null ppi.TERF2	View Gene Set	0.0005418	10	0.04528	42	Protein-protein-interaction for TERF2	www.ncbi.nlm.ni...
Null ppi.GTF3C3	View Gene Set	0.0005362	12	0.04528	42	Protein-protein-interaction for GTF3C3	www.ncbi.nlm.ni...
Null ppi.GEMIN5	View Gene Set	0.0005896	14	0.04816	44	Protein-protein-interaction for GEMIN5	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null folate transformations	View Gene Set	8.804e-05	9	0.02289	1	HUMANCYC - folate transformations gene set	www.pathwaycomm...
Null pyrimidine deoxyribonucleotides de novo biosynthesis	View Gene Set	0.000361	14	0.04309	2	HUMANCYC - pyrimidine deoxyribonucleotides de novo biosynthesis gene set	www.pathwaycomm...
Null pyrimidine ribonucleotides de novo biosynthesis	View Gene Set	0.0004972	11	0.04309	2	HUMANCYC - pyrimidine ribonucleotides de novo biosynthesis gene set	www.pathwaycomm...
Null folate polyglutamylation	View Gene Set	0.0007196	5	0.04678	4	HUMANCYC - folate polyglutamylation gene set	www.pathwaycomm...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null Validated targets of C-MYC transcriptional activation	View Gene Set	1.21e-08	80	2.251e-06	1	NCI_NATURE - Validated targets of C-MYC transcriptional activation gene set	www.pathwaycomm...
Null Signaling events mediated by HDAC Class III	View Gene Set	9.057e-05	39	0.008423	2	NCI_NATURE - Signaling events mediated by HDAC Class III gene set	www.pathwaycomm...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null Gene Expression	View Gene Set	7.084e-20	381	7.913e-17	1	REACTOME - Gene Expression gene set	www.pathwaycomm...
Null Processing of Capped Intron-Containing Pre-mRNA	View Gene Set	7.244e-19	138	4.046e-16	2	REACTOME - Processing of Capped Intron-Containing Pre-mRNA gene set	www.pathwaycomm...
Null mRNA Processing	View Gene Set	1.117e-17	158	4.159e-15	3	REACTOME - mRNA Processing gene set	www.pathwaycomm...
Null mRNA Splicing - Major Pathway	View Gene Set	5.617e-17	107	1.255e-14	4	REACTOME - mRNA Splicing - Major Pathway gene set	www.pathwaycomm...
Null mRNA Splicing	View Gene Set	5.617e-17	107	1.255e-14	4	REACTOME - mRNA Splicing gene set	www.pathwaycomm...
Null Formation and Maturation of mRNA Transcript	View Gene Set	4.201e-16	185	7.821e-14	6	REACTOME - Formation and Maturation of mRNA Transcript gene set	www.pathwaycomm...
Null Metabolism of RNA	View Gene Set	1.858e-10	174	2.965e-08	7	REACTOME - Metabolism of RNA gene set	www.pathwaycomm...
Null mRNA Splicing - Minor Pathway	View Gene Set	7.641e-10	42	7.759e-08	8	REACTOME - mRNA Splicing - Minor Pathway gene set	www.pathwaycomm...
Null Cell Cycle Mitotic	View Gene Set	6.072e-10	312	7.759e-08	8	REACTOME - Cell Cycle Mitotic gene set	www.pathwaycomm... Mitotic&format=...
Null snRNP Assembly	View Gene Set	7.482e-10	50	7.759e-08	8	REACTOME - snRNP Assembly gene set	www.pathwaycomm...
Null Metabolism of non-coding RNA	View Gene Set	7.482e-10	50	7.759e-08	8	REACTOME - Metabolism of non-coding RNA gene set	www.pathwaycomm...
Null Respiratory electron transport ATP synthesis by chemiosmotic coupling and heat production by uncoupling proteins.	View Gene Set	1.124e-09	91	1.046e-07	12	REACTOME - Respiratory electron transport ATP synthesis by chemiosmotic coupling and heat production by uncoupling proteins. gene set	www.pathwaycomm... ATP synthesis b... and heat produc...
Null Transport of Mature Transcript to Cytoplasm	View Gene Set	1.302e-09	55	1.119e-07	13	REACTOME - Transport of Mature Transcript to Cytoplasm gene set	www.pathwaycomm...
Null tRNA Aminoacylation	View Gene Set	2.552e-09	42	2.036e-07	14	REACTOME - tRNA Aminoacylation gene set	www.pathwaycomm...
Null Transport of Mature mRNA derived from an Intron-Containing Transcript	View Gene Set	4.612e-09	51	3.219e-07	15	REACTOME - Transport of Mature mRNA derived from an Intron-Containing Transcript gene set	www.pathwaycomm...
Null Transcription	View Gene Set	4.364e-09	178	3.219e-07	15	REACTOME - Transcription gene set	www.pathwaycomm...
Null Mitotic M-M/G1 phases	View Gene Set	5.23e-09	180	3.436e-07	17	REACTOME - Mitotic M-M/G1 phases gene set	www.pathwaycomm...
Null Post-Elongation Processing of the Transcript	View Gene Set	2.938e-08	43	1.563e-06	18	REACTOME - Post-Elongation Processing of the Transcript gene set	www.pathwaycomm...
Null Cleavage of Growing Transcript in the Termination Region	View Gene Set	2.938e-08	43	1.563e-06	18	REACTOME - Cleavage of Growing Transcript in the Termination Region gene set	www.pathwaycomm...
Null RNA Polymerase II Transcription Termination	View Gene Set	2.938e-08	43	1.563e-06	18	REACTOME - RNA Polymerase II Transcription Termination gene set	www.pathwaycomm...
Null DNA Replication	View Gene Set	2.898e-08	200	1.563e-06	18	REACTOME - DNA Replication gene set	www.pathwaycomm...
Null Respiratory electron transport	View Gene Set	2.145e-07	76	1.089e-05	22	REACTOME - Respiratory electron transport gene set	www.pathwaycomm...
Null Post-Elongation Processing of Intron-Containing pre-mRNA	View Gene Set	3.874e-07	34	1.803e-05	23	REACTOME - Post-Elongation Processing of Intron-Containing pre-mRNA gene set	www.pathwaycomm...
Null mRNA 3'-end processing	View Gene Set	3.874e-07	34	1.803e-05	23	REACTOME - mRNA 3'-end processing gene set	www.pathwaycomm...
Null RNA Polymerase II Transcription	View Gene Set	6.951e-07	101	3.106e-05	25	REACTOME - RNA Polymerase II Transcription gene set	www.pathwaycomm...
Null Mitotic Prometaphase	View Gene Set	1.664e-06	86	7.025e-05	26	REACTOME - Mitotic Prometaphase gene set	www.pathwaycomm...
Null M Phase	View Gene Set	1.698e-06	90	7.025e-05	26	REACTOME - M Phase gene set	www.pathwaycomm...
Null Deposition of New CENPA-containing Nucleosomes at the Centromere	View Gene Set	2.766e-06	35	0.0001046	28	REACTOME - Deposition of New CENPA-containing Nucleosomes at the Centromere gene set	www.pathwaycomm...
Null Nucleosome assembly	View Gene Set	2.766e-06	35	0.0001046	28	REACTOME - Nucleosome assembly gene set	www.pathwaycomm...
Null Cytosolic tRNA aminoacylation	View Gene Set	2.81e-06	24	0.0001046	28	REACTOME - Cytosolic tRNA aminoacylation gene set	www.pathwaycomm...
Null Meiotic Recombination	View Gene Set	3.891e-06	42	0.0001402	31	REACTOME - Meiotic Recombination gene set	www.pathwaycomm...
Null Mitochondrial tRNA aminoacylation	View Gene Set	5.035e-06	21	0.0001757	32	REACTOME - Mitochondrial tRNA aminoacylation gene set	www.pathwaycomm...
Null Chromosome Maintenance	View Gene Set	8.714e-06	69	0.0002949	33	REACTOME - Chromosome Maintenance gene set	www.pathwaycomm...
Null Interactions of Rev with host cellular proteins	View Gene Set	1.93e-05	33	0.0006342	34	REACTOME - Interactions of Rev with host cellular proteins gene set	www.pathwaycomm...
Null Transport of Mature mRNA Derived from an Intronless Transcript	View Gene Set	2.551e-05	35	0.0008143	35	REACTOME - Transport of Mature mRNA Derived from an Intronless Transcript gene set	www.pathwaycomm...
Null HIV Infection	View Gene Set	3.001e-05	194	0.0009313	36	REACTOME - HIV Infection gene set	www.pathwaycomm...
Null Transport of Mature mRNAs Derived from Intronless Transcripts	View Gene Set	3.345e-05	36	0.00101	37	REACTOME - Transport of Mature mRNAs Derived from Intronless Transcripts gene set	www.pathwaycomm...
Null Nuclear import of Rev protein	View Gene Set	4.28e-05	30	0.001258	38	REACTOME - Nuclear import of Rev protein gene set	www.pathwaycomm...
Null Rev-mediated nuclear export of HIV-1 RNA	View Gene Set	4.427e-05	32	0.001268	39	REACTOME - Rev-mediated nuclear export of HIV-1 RNA gene set	www.pathwaycomm...
Null HIV Life Cycle	View Gene Set	5.066e-05	103	0.001415	40	REACTOME - HIV Life Cycle gene set	www.pathwaycomm...
Null Interactions of Vpr with host cellular proteins	View Gene Set	5.727e-05	34	0.00156	41	REACTOME - Interactions of Vpr with host cellular proteins gene set	www.pathwaycomm...
Null Telomere Maintenance	View Gene Set	6.246e-05	49	0.001623	42	REACTOME - Telomere Maintenance gene set	www.pathwaycomm...
Null DNA Repair	View Gene Set	6.179e-05	108	0.001623	42	REACTOME - DNA Repair gene set	www.pathwaycomm...
Null Late Phase of HIV Life Cycle	View Gene Set	6.656e-05	92	0.00169	44	REACTOME - Late Phase of HIV Life Cycle gene set	www.pathwaycomm...
Null NEP/NS2 Interacts with the Cellular Export Machinery	View Gene Set	8.714e-05	29	0.002163	45	REACTOME - NEP/NS2 Interacts with the Cellular Export Machinery gene set	www.pathwaycomm...
Null Pyrimidine biosynthesis	View Gene Set	0.0001105	6	0.002683	46	REACTOME - Pyrimidine biosynthesis gene set	www.pathwaycomm...
Null Transport of the SLBP independent Mature mRNA	View Gene Set	0.0001203	32	0.00286	47	REACTOME - Transport of the SLBP independent Mature mRNA gene set	www.pathwaycomm...
Null Transport of the SLBP Dependant Mature mRNA	View Gene Set	0.0001541	33	0.003586	48	REACTOME - Transport of the SLBP Dependant Mature mRNA gene set	www.pathwaycomm...
Null Regulation of Glucokinase by Glucokinase Regulatory Protein	View Gene Set	0.00016	29	0.003647	49	REACTOME - Regulation of Glucokinase by Glucokinase Regulatory Protein gene set	www.pathwaycomm...
Null Metabolism of carbohydrates	View Gene Set	0.0001723	93	0.003848	50	REACTOME - Metabolism of carbohydrates gene set	www.pathwaycomm...
Null Metabolism of mRNA	View Gene Set	0.0002003	125	0.004388	51	REACTOME - Metabolism of mRNA gene set	www.pathwaycomm...
Null Export of Viral Ribonucleoproteins from Nucleus	View Gene Set	0.0002161	31	0.004642	52	REACTOME - Export of Viral Ribonucleoproteins from Nucleus gene set	www.pathwaycomm...
Null Cell Cycle Checkpoints	View Gene Set	0.0002826	124	0.00574	53	REACTOME - Cell Cycle Checkpoints gene set	www.pathwaycomm...
Null DNA Replication Pre-Initiation	View Gene Set	0.0002812	90	0.00574	53	REACTOME - DNA Replication Pre-Initiation gene set	www.pathwaycomm...
Null M/G1 Transition	View Gene Set	0.0002812	90	0.00574	53	REACTOME - M/G1 Transition gene set	www.pathwaycomm...
Null RNA Polymerase I RNA Polymerase III and Mitochondrial Transcription	View Gene Set	0.0002894	93	0.005773	56	REACTOME - RNA Polymerase I RNA Polymerase III and Mitochondrial Transcription gene set	www.pathwaycomm... RNA Polymerase ... and Mitochondri...
Null Assembly of the pre-replicative complex	View Gene Set	0.000306	75	0.0059	57	REACTOME - Assembly of the pre-replicative complex gene set	www.pathwaycomm...
Null Deadenylation-dependent mRNA decay	View Gene Set	0.0003064	46	0.0059	57	REACTOME - Deadenylation-dependent mRNA decay gene set	www.pathwaycomm...
Null Packaging Of Telomere Ends	View Gene Set	0.0003174	21	0.006009	59	REACTOME - Packaging Of Telomere Ends gene set	www.pathwaycomm...
Null RNA Polymerase III Transcription Initiation From Type 2 Promoter	View Gene Set	0.0003646	20	0.006676	60	REACTOME - RNA Polymerase III Transcription Initiation From Type 2 Promoter gene set	www.pathwaycomm...
Null RNA Polymerase III Transcription Initiation From Type 1 Promoter	View Gene Set	0.0003646	21	0.006676	60	REACTOME - RNA Polymerase III Transcription Initiation From Type 1 Promoter gene set	www.pathwaycomm...
Null Glucose transport	View Gene Set	0.0004184	38	0.007538	62	REACTOME - Glucose transport gene set	www.pathwaycomm...
Null Formation of ATP by chemiosmotic coupling	View Gene Set	0.0004354	15	0.007719	63	REACTOME - Formation of ATP by chemiosmotic coupling gene set	www.pathwaycomm...
Null Transport of Ribonucleoproteins into the Host Nucleus	View Gene Set	0.0004564	29	0.007965	64	REACTOME - Transport of Ribonucleoproteins into the Host Nucleus gene set	www.pathwaycomm...
Null Host Interactions of HIV factors	View Gene Set	0.0005349	132	0.009191	65	REACTOME - Host Interactions of HIV factors gene set	www.pathwaycomm...
Null Recycling of eIF2:GDP	View Gene Set	0.0005672	8	0.009599	66	REACTOME - Recycling of eIF2:GDP gene set	www.pathwaycomm...
Null Hexose transport	View Gene Set	0.0006212	40	0.01036	67	REACTOME - Hexose transport gene set	www.pathwaycomm...
Null Vpr-mediated nuclear import of PICs	View Gene Set	0.0007093	31	0.01165	68	REACTOME - Vpr-mediated nuclear import of PICs gene set	www.pathwaycomm...
Null Unwinding of DNA	View Gene Set	0.0007273	11	0.01177	69	REACTOME - Unwinding of DNA gene set	www.pathwaycomm...
Null Activation of ATR in response to replication stress	View Gene Set	0.0009319	37	0.01487	70	REACTOME - Activation of ATR in response to replication stress gene set	www.pathwaycomm...
Null RNA Polymerase III Transcription Initiation	View Gene Set	0.0009721	29	0.01529	71	REACTOME - RNA Polymerase III Transcription Initiation gene set	www.pathwaycomm...
Null Synthesis of DNA	View Gene Set	0.001025	102	0.01591	72	REACTOME - Synthesis of DNA gene set	www.pathwaycomm...
Null Association of TriC/CCT with target proteins during biosynthesis	View Gene Set	0.00113	9	0.01688	73	REACTOME - Association of TriC/CCT with target proteins during biosynthesis gene set	www.pathwaycomm...
Null Homologous Recombination Repair	View Gene Set	0.001134	22	0.01688	73	REACTOME - Homologous Recombination Repair gene set	www.pathwaycomm...
Null Homologous recombination repair of replication-independent double-strand breaks	View Gene Set	0.001134	22	0.01688	73	REACTOME - Homologous recombination repair of replication-independent double-strand breaks gene set	www.pathwaycomm...
Null Formation of tubulin folding intermediates by CCT/TriC	View Gene Set	0.001352	8	0.01987	76	REACTOME - Formation of tubulin folding intermediates by CCT/TriC gene set	www.pathwaycomm...
Null S Phase	View Gene Set	0.001388	113	0.02014	77	REACTOME - S Phase gene set	www.pathwaycomm...
Null RNA Polymerase III Transcription	View Gene Set	0.0016	34	0.02233	78	REACTOME - RNA Polymerase III Transcription gene set	www.pathwaycomm...
Null RNA Polymerase III Abortive And Retractive Initiation	View Gene Set	0.0016	34	0.02233	78	REACTOME - RNA Polymerase III Abortive And Retractive Initiation gene set	www.pathwaycomm...
Null mRNA Decay by 3' to 5' Exoribonuclease	View Gene Set	0.00158	11	0.02233	78	REACTOME - mRNA Decay by 3' to 5' Exoribonuclease gene set	www.pathwaycomm...
Null p53-Independent G1/S DNA damage checkpoint	View Gene Set	0.001656	62	0.02256	81	REACTOME - p53-Independent G1/S DNA damage checkpoint gene set	www.pathwaycomm...
Null p53-Independent DNA Damage Response	View Gene Set	0.001656	62	0.02256	81	REACTOME - p53-Independent DNA Damage Response gene set	www.pathwaycomm...
Null G2/M Checkpoints	View Gene Set	0.001857	43	0.02488	83	REACTOME - G2/M Checkpoints 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	0.001871	77	0.02488	83	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 Post-Elongation Processing of Intronless pre-mRNA	View Gene Set	0.001995	23	0.02591	85	REACTOME - Post-Elongation Processing of Intronless pre-mRNA gene set	www.pathwaycomm...
Null Processing of Capped Intronless Pre-mRNA	View Gene Set	0.001995	23	0.02591	85	REACTOME - Processing of Capped Intronless Pre-mRNA gene set	www.pathwaycomm...
Null Ubiquitin Mediated Degradation of Phosphorylated Cdc25A	View Gene Set	0.002204	61	0.0283	87	REACTOME - Ubiquitin Mediated Degradation of Phosphorylated Cdc25A gene set	www.pathwaycomm...
Null Switching of origins to a post-replicative state	View Gene Set	0.002311	76	0.029	88	REACTOME - Switching of origins to a post-replicative state gene set	www.pathwaycomm...
Null Orc1 removal from chromatin	View Gene Set	0.002311	76	0.029	88	REACTOME - Orc1 removal from chromatin gene set	www.pathwaycomm...
Null Regulation of DNA replication	View Gene Set	0.002531	81	0.03141	90	REACTOME - Regulation of DNA replication gene set	www.pathwaycomm...
Null Gluconeogenesis	View Gene Set	0.002571	21	0.03156	91	REACTOME - Gluconeogenesis gene set	www.pathwaycomm...
Null Centrosome maturation	View Gene Set	0.002692	73	0.03233	92	REACTOME - Centrosome maturation gene set	www.pathwaycomm...
Null Recruitment of mitotic centrosome proteins and complexes	View Gene Set	0.002692	72	0.03233	92	REACTOME - Recruitment of mitotic centrosome proteins and complexes gene set	www.pathwaycomm...
Null MicroRNA (miRNA) Biogenesis	View Gene Set	0.002979	22	0.03289	94	REACTOME - MicroRNA (miRNA) Biogenesis gene set	www.pathwaycomm...
Null Regulatory RNA pathways	View Gene Set	0.002979	22	0.03289	94	REACTOME - Regulatory RNA pathways gene set	www.pathwaycomm...
Null Metabolism of amino acids and derivatives	View Gene Set	0.003021	201	0.03289	94	REACTOME - Metabolism of amino acids and derivatives gene set	www.pathwaycomm...
Null SLBP independent Processing of Histone Pre-mRNAs	View Gene Set	0.002918	10	0.03289	94	REACTOME - SLBP independent Processing of Histone Pre-mRNAs gene set	www.pathwaycomm...
Null ATM mediated phosphorylation of repair proteins	View Gene Set	0.003024	6	0.03289	94	REACTOME - ATM mediated phosphorylation of repair proteins gene set	www.pathwaycomm...
Null Double-Strand Break Repair	View Gene Set	0.002999	27	0.03289	94	REACTOME - Double-Strand Break Repair gene set	www.pathwaycomm...
Null ATM mediated response to DNA double-strand break	View Gene Set	0.003024	6	0.03289	94	REACTOME - ATM mediated response to DNA double-strand break gene set	www.pathwaycomm...
Null SCF-beta-TrCP mediated degradation of Emi1	View Gene Set	0.002774	60	0.03289	94	REACTOME - SCF-beta-TrCP mediated degradation of Emi1 gene set	www.pathwaycomm...
Null Removal of licensing factors from origins	View Gene Set	0.003033	78	0.03289	94	REACTOME - Removal of licensing factors from origins gene set	www.pathwaycomm...
Null Regulation of mRNA Stability by Proteins that Bind AU-rich Elements	View Gene Set	0.002897	95	0.03289	94	REACTOME - Regulation of mRNA Stability by Proteins that Bind AU-rich Elements gene set	www.pathwaycomm...
Null Telomere Extension By Telomerase	View Gene Set	0.003174	6	0.03409	104	REACTOME - Telomere Extension By Telomerase gene set	www.pathwaycomm...
Null Abortive elongation of HIV-1 transcript in the absence of Tat	View Gene Set	0.003311	22	0.03523	105	REACTOME - Abortive elongation of HIV-1 transcript in the absence of Tat gene set	www.pathwaycomm...
Null RNA Polymerase III Transcription Initiation From Type 3 Promoter	View Gene Set	0.003479	22	0.03666	106	REACTOME - RNA Polymerase III Transcription Initiation From Type 3 Promoter gene set	www.pathwaycomm...
Null Vpr-mediated induction of apoptosis by mitochondrial outer membrane permeabilization	View Gene Set	0.003742	3	0.03906	107	REACTOME - Vpr-mediated induction of apoptosis by mitochondrial outer membrane permeabilization gene set	www.pathwaycomm...
Null Activation of the pre-replicative complex	View Gene Set	0.003834	30	0.03966	108	REACTOME - Activation of the pre-replicative complex gene set	www.pathwaycomm...
Null RNA Polymerase III Chain Elongation	View Gene Set	0.003986	12	0.04071	109	REACTOME - RNA Polymerase III Chain Elongation gene set	www.pathwaycomm...
Null MRN complex relocalizes to nuclear foci	View Gene Set	0.004046	4	0.04071	109	REACTOME - MRN complex relocalizes to nuclear foci gene set	www.pathwaycomm...
Null Assembly of the RAD50-MRE11-NBS1 complex at DNA double-strand breaks	View Gene Set	0.004046	4	0.04071	109	REACTOME - Assembly of the RAD50-MRE11-NBS1 complex at DNA double-strand breaks gene set	www.pathwaycomm...
Null SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs	View Gene Set	0.004373	11	0.04362	112	REACTOME - SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs gene set	www.pathwaycomm...
Null Prefoldin mediated transfer of substrate to CCT/TriC	View Gene Set	0.004619	14	0.04487	113	REACTOME - Prefoldin mediated transfer of substrate to CCT/TriC gene set	www.pathwaycomm...
Null G1/S Transition	View Gene Set	0.004609	104	0.04487	113	REACTOME - G1/S Transition gene set	www.pathwaycomm...
Null Destabilization of mRNA by AUF1 (hnRNP D0)	View Gene Set	0.004572	63	0.04487	113	REACTOME - Destabilization of mRNA by AUF1 (hnRNP D0) gene set	www.pathwaycomm...
Null Deadenylation of mRNA	View Gene Set	0.005082	22	0.04894	116	REACTOME - Deadenylation of mRNA gene set	www.pathwaycomm...

Gene Set Collection: mirbase.targets

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 hsa-miR-874	View Gene Set	1.191e-08	722	8.471e-06	1	microRNA targets for hsa-miR-874 from mirbase.targets	www.mirbase.org...
Null hsa-miR-146b-3p	View Gene Set	9.155e-08	695	3.254e-05	2	microRNA targets for hsa-miR-146b-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-634	View Gene Set	1.174e-06	714	0.0002783	3	microRNA targets for hsa-miR-634 from mirbase.targets	www.mirbase.org...
Null hsa-miR-331-3p	View Gene Set	9.481e-06	712	0.001306	4	microRNA targets for hsa-miR-331-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-484	View Gene Set	1.257e-05	733	0.001306	4	microRNA targets for hsa-miR-484 from mirbase.targets	www.mirbase.org...
Null hsa-miR-611	View Gene Set	1.285e-05	671	0.001306	4	microRNA targets for hsa-miR-611 from mirbase.targets	www.mirbase.org...
Null hsa-miR-940	View Gene Set	9.844e-06	660	0.001306	4	microRNA targets for hsa-miR-940 from mirbase.targets	www.mirbase.org...
Null hsa-miR-650	View Gene Set	1.522e-05	693	0.001353	8	microRNA targets for hsa-miR-650 from mirbase.targets	www.mirbase.org...
Null hsa-miR-324-3p	View Gene Set	2.463e-05	788	0.001946	9	microRNA targets for hsa-miR-324-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-941	View Gene Set	4.04e-05	590	0.002872	10	microRNA targets for hsa-miR-941 from mirbase.targets	www.mirbase.org...
Null hsa-miR-566	View Gene Set	5.064e-05	787	0.003273	11	microRNA targets for hsa-miR-566 from mirbase.targets	www.mirbase.org...
Null hsa-miR-552	View Gene Set	5.809e-05	683	0.003442	12	microRNA targets for hsa-miR-552 from mirbase.targets	www.mirbase.org...
Null hsa-miR-323-5p	View Gene Set	0.0001139	763	0.005397	13	microRNA targets for hsa-miR-323-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-518a-3p	View Gene Set	0.0001025	925	0.005397	13	microRNA targets for hsa-miR-518a-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-939	View Gene Set	0.0001069	667	0.005397	13	microRNA targets for hsa-miR-939 from mirbase.targets	www.mirbase.org...
Null hsa-miR-185*	View Gene Set	0.0001782	506	0.007183	16	microRNA targets for hsa-miR-185* from mirbase.targets	www.mirbase.org...
Null hsa-miR-339-3p	View Gene Set	0.0001654	797	0.007183	16	microRNA targets for hsa-miR-339-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-504	View Gene Set	0.0001818	621	0.007183	16	microRNA targets for hsa-miR-504 from mirbase.targets	www.mirbase.org...
Null hsa-miR-486-3p	View Gene Set	0.000208	773	0.007536	19	microRNA targets for hsa-miR-486-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-518d-3p	View Gene Set	0.0002332	916	0.007536	19	microRNA targets for hsa-miR-518d-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-671-5p	View Gene Set	0.0002244	813	0.007536	19	microRNA targets for hsa-miR-671-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-770-5p	View Gene Set	0.0002123	702	0.007536	19	microRNA targets for hsa-miR-770-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-497	View Gene Set	0.0002445	805	0.007557	23	microRNA targets for hsa-miR-497 from mirbase.targets	www.mirbase.org...
Null hsa-miR-196b	View Gene Set	0.0002559	771	0.007581	24	microRNA targets for hsa-miR-196b from mirbase.targets	www.mirbase.org...
Null hsa-miR-424	View Gene Set	0.0002916	772	0.008292	25	microRNA targets for hsa-miR-424 from mirbase.targets	www.mirbase.org...
Null hsa-miR-657	View Gene Set	0.0003477	718	0.009155	26	microRNA targets for hsa-miR-657 from mirbase.targets	www.mirbase.org...
Null hsa-miR-661	View Gene Set	0.0003413	575	0.009155	26	microRNA targets for hsa-miR-661 from mirbase.targets	www.mirbase.org...
Null hsa-miR-596	View Gene Set	0.0004053	644	0.01029	28	microRNA targets for hsa-miR-596 from mirbase.targets	www.mirbase.org...
Null hsa-miR-503	View Gene Set	0.0004233	748	0.01038	29	microRNA targets for hsa-miR-503 from mirbase.targets	www.mirbase.org...
Null hsa-miR-328	View Gene Set	0.000438	685	0.01038	30	microRNA targets for hsa-miR-328 from mirbase.targets	www.mirbase.org...
Null hsa-miR-652	View Gene Set	0.0004942	662	0.01098	31	microRNA targets for hsa-miR-652 from mirbase.targets	www.mirbase.org...
Null hsa-miR-665	View Gene Set	0.0004924	617	0.01098	31	microRNA targets for hsa-miR-665 from mirbase.targets	www.mirbase.org...
Null hsa-miR-886-5p	View Gene Set	0.0005216	793	0.01124	33	microRNA targets for hsa-miR-886-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-99b	View Gene Set	0.0005508	708	0.01152	34	microRNA targets for hsa-miR-99b from mirbase.targets	www.mirbase.org...
Null hsa-miR-564	View Gene Set	0.0006143	706	0.01248	35	microRNA targets for hsa-miR-564 from mirbase.targets	www.mirbase.org...
Null hsa-miR-604	View Gene Set	0.0007946	691	0.01569	36	microRNA targets for hsa-miR-604 from mirbase.targets	www.mirbase.org...
Null hsa-miR-565	View Gene Set	0.0009159	689	0.01714	37	microRNA targets for hsa-miR-565 from mirbase.targets	www.mirbase.org...
Null hsa-miR-615-5p	View Gene Set	0.0009045	848	0.01714	37	microRNA targets for hsa-miR-615-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-134	View Gene Set	0.001098	703	0.01878	39	microRNA targets for hsa-miR-134 from mirbase.targets	www.mirbase.org...
Null hsa-miR-15a	View Gene Set	0.001143	817	0.01878	39	microRNA targets for hsa-miR-15a from mirbase.targets	www.mirbase.org...
Null hsa-miR-15b	View Gene Set	0.001212	795	0.01878	39	microRNA targets for hsa-miR-15b from mirbase.targets	www.mirbase.org...
Null hsa-miR-214	View Gene Set	0.001067	797	0.01878	39	microRNA targets for hsa-miR-214 from mirbase.targets	www.mirbase.org...
Null hsa-miR-30b*	View Gene Set	0.001268	655	0.01878	39	microRNA targets for hsa-miR-30b* from mirbase.targets	www.mirbase.org...
Null hsa-miR-330-5p	View Gene Set	0.001218	728	0.01878	39	microRNA targets for hsa-miR-330-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-34a	View Gene Set	0.001254	917	0.01878	39	microRNA targets for hsa-miR-34a from mirbase.targets	www.mirbase.org...
Null hsa-miR-483-3p	View Gene Set	0.001127	702	0.01878	39	microRNA targets for hsa-miR-483-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-492	View Gene Set	0.001254	625	0.01878	39	microRNA targets for hsa-miR-492 from mirbase.targets	www.mirbase.org...
Null hsa-miR-885-3p	View Gene Set	0.00116	799	0.01878	39	microRNA targets for hsa-miR-885-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-92b*	View Gene Set	0.001305	648	0.01894	49	microRNA targets for hsa-miR-92b* from mirbase.targets	www.mirbase.org...
Null hsa-miR-674	View Gene Set	0.001401	788	0.01992	50	microRNA targets for hsa-miR-674 from mirbase.targets	www.mirbase.org...
Null hsa-miR-339-5p	View Gene Set	0.00147	659	0.0201	51	microRNA targets for hsa-miR-339-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-760	View Gene Set	0.001453	690	0.0201	51	microRNA targets for hsa-miR-760 from mirbase.targets	www.mirbase.org...
Null hsa-miR-149	View Gene Set	0.001841	602	0.0247	53	microRNA targets for hsa-miR-149 from mirbase.targets	www.mirbase.org...
Null hsa-miR-30c-1*	View Gene Set	0.002045	741	0.02693	54	microRNA targets for hsa-miR-30c-1* from mirbase.targets	www.mirbase.org...
Null hsa-miR-646	View Gene Set	0.002165	745	0.02799	55	microRNA targets for hsa-miR-646 from mirbase.targets	www.mirbase.org...
Null hsa-miR-589*	View Gene Set	0.002275	515	0.02884	56	microRNA targets for hsa-miR-589* from mirbase.targets	www.mirbase.org...
Null hsa-miR-886-3p	View Gene Set	0.002312	745	0.02884	56	microRNA targets for hsa-miR-886-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-516a-3p	View Gene Set	0.002535	780	0.03099	58	microRNA targets for hsa-miR-516a-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-572	View Gene Set	0.002572	602	0.03099	58	microRNA targets for hsa-miR-572 from mirbase.targets	www.mirbase.org...
Null hsa-miR-502-5p	View Gene Set	0.002737	730	0.03244	60	microRNA targets for hsa-miR-502-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-615-3p	View Gene Set	0.002854	757	0.03327	61	microRNA targets for hsa-miR-615-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-654-5p	View Gene Set	0.002986	718	0.03424	62	microRNA targets for hsa-miR-654-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-193b	View Gene Set	0.003289	716	0.03598	63	microRNA targets for hsa-miR-193b from mirbase.targets	www.mirbase.org...
Null hsa-miR-346	View Gene Set	0.003197	568	0.03598	63	microRNA targets for hsa-miR-346 from mirbase.targets	www.mirbase.org...
Null hsa-miR-612	View Gene Set	0.003281	685	0.03598	63	microRNA targets for hsa-miR-612 from mirbase.targets	www.mirbase.org...
Null hsa-miR-125a-5p	View Gene Set	0.003392	817	0.03629	66	microRNA targets for hsa-miR-125a-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-486-5p	View Gene Set	0.00342	729	0.03629	66	microRNA targets for hsa-miR-486-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-658	View Gene Set	0.003492	660	0.03652	68	microRNA targets for hsa-miR-658 from mirbase.targets	www.mirbase.org...
Null hsa-miR-938	View Gene Set	0.003852	652	0.0397	69	microRNA targets for hsa-miR-938 from mirbase.targets	www.mirbase.org...
Null hsa-miR-126	View Gene Set	0.003948	676	0.0401	70	microRNA targets for hsa-miR-126 from mirbase.targets	www.mirbase.org...
Null hsa-miR-635	View Gene Set	0.004355	648	0.04361	71	microRNA targets for hsa-miR-635 from mirbase.targets	www.mirbase.org...
Null hsa-miR-663	View Gene Set	0.004903	743	0.04842	72	microRNA targets for hsa-miR-663 from mirbase.targets	www.mirbase.org...
Null hsa-miR-24	View Gene Set	0.005056	739	0.04925	73	microRNA targets for hsa-miR-24 from mirbase.targets	www.mirbase.org...

Results

AFA results for: tSAHAda4PC3

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.c1.CYTOBAND

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: ChromosomalTiles5Mb

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.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.humancyc

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