AFA results for: TSA.ls

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Go to: Gene Set Collection: pathwayCommons.reactome
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Go to: Gene Set Collection: mirbase.targets
Go to: Gene Set Collection: miRNAtargetUnion

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
KEGG 03040	View Gene Set	2.148e-07	128	4.596e-05	1	Spliceosome	www.genome.jp/d...
KEGG 04080	View Gene Set	1.581e-06	272	0.0001691	2	Neuroactive ligand-receptor interaction	www.genome.jp/d...
KEGG 03030	View Gene Set	0.0008672	36	0.04639	3	DNA replication	www.genome.jp/d...
KEGG 03410	View Gene Set	0.000652	34	0.04639	3	Base excision repair	www.genome.jp/d...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
GO GO:0090304	View Gene Set	6.219e-20	3724	8.309e-16	1	nucleic acid metabolic process	amigo.geneontol...
GO GO:0010467	View Gene Set	1.589e-18	3806	1.061e-14	2	gene expression	amigo.geneontol...
GO GO:0016070	View Gene Set	1.155e-15	2596	5.143e-12	3	RNA metabolic process	amigo.geneontol...
GO GO:0003723	View Gene Set	2.658e-14	732	8.879e-11	4	RNA binding	amigo.geneontol...
GO GO:0006139	View Gene Set	4.406e-14	4294	1.055e-10	5	nucleobase nucleoside nucleotide and nucleic acid metabolic process	amigo.geneontol...
GO GO:0006396	View Gene Set	4.737e-14	578	1.055e-10	5	RNA processing	amigo.geneontol...
GO GO:0003676	View Gene Set	8.358e-14	2979	1.595e-10	7	nucleic acid binding	amigo.geneontol...
GO GO:0044428	View Gene Set	2.019e-13	1938	3.371e-10	8	nuclear part	amigo.geneontol...
GO GO:0016071	View Gene Set	2.126e-12	381	3.156e-09	9	mRNA metabolic process	amigo.geneontol...
GO GO:0031981	View Gene Set	3.457e-12	1518	4.619e-09	10	nuclear lumen	amigo.geneontol...
GO GO:0043170	View Gene Set	4.015e-12	6274	4.876e-09	11	macromolecule metabolic process	amigo.geneontol...
GO GO:0034641	View Gene Set	4.497e-12	4584	5.007e-09	12	cellular nitrogen compound metabolic process	amigo.geneontol...
GO GO:0005634	View Gene Set	5.162e-12	5198	5.305e-09	13	nucleus	amigo.geneontol...
GO GO:0044260	View Gene Set	1.732e-11	5699	1.652e-08	14	cellular macromolecule metabolic process	amigo.geneontol...
GO GO:0006397	View Gene Set	2.441e-11	317	2.174e-08	15	mRNA processing	amigo.geneontol...
GO GO:0009059	View Gene Set	3.783e-11	3597	3.159e-08	16	macromolecule biosynthetic process	amigo.geneontol...
GO GO:0034645	View Gene Set	8.095e-11	3529	6.362e-08	17	cellular macromolecule biosynthetic process	amigo.geneontol...
GO GO:0006807	View Gene Set	8.802e-11	4698	6.533e-08	18	nitrogen compound metabolic process	amigo.geneontol...
GO GO:0030529	View Gene Set	5.73e-10	504	4.029e-07	19	ribonucleoprotein complex	amigo.geneontol...
GO GO:0008380	View Gene Set	1.327e-09	300	8.863e-07	20	RNA splicing	amigo.geneontol...
GO GO:0006350	View Gene Set	1.808e-09	2744	1.15e-06	21	transcription	amigo.geneontol...
GO GO:0060255	View Gene Set	3.671e-09	3411	2.23e-06	22	regulation of macromolecule metabolic process	amigo.geneontol...
GO GO:0009889	View Gene Set	7.493e-09	3070	4.335e-06	23	regulation of biosynthetic process	amigo.geneontol...
GO GO:0010468	View Gene Set	7.788e-09	2958	4.335e-06	23	regulation of gene expression	amigo.geneontol...
GO GO:0031326	View Gene Set	9.632e-09	3048	5.147e-06	25	regulation of cellular biosynthetic process	amigo.geneontol...
GO GO:0043233	View Gene Set	1.049e-08	1881	5.392e-06	26	organelle lumen	amigo.geneontol...
GO GO:0010556	View Gene Set	1.156e-08	2901	5.558e-06	27	regulation of macromolecule biosynthetic process	amigo.geneontol...
GO GO:0045449	View Gene Set	1.165e-08	2647	5.558e-06	27	regulation of transcription	amigo.geneontol...
GO GO:0070013	View Gene Set	1.947e-08	1845	8.969e-06	29	intracellular organelle lumen	amigo.geneontol...
GO GO:0005654	View Gene Set	2.665e-08	939	1.187e-05	30	nucleoplasm	amigo.geneontol...
GO GO:0080090	View Gene Set	3.3e-08	3585	1.422e-05	31	regulation of primary metabolic process	amigo.geneontol...
GO GO:0005730	View Gene Set	3.673e-08	734	1.534e-05	32	nucleolus	amigo.geneontol...
GO GO:0000070	View Gene Set	4.093e-08	37	1.657e-05	33	mitotic sister chromatid segregation	amigo.geneontol...
GO GO:0031974	View Gene Set	4.759e-08	1917	1.87e-05	34	membrane-enclosed lumen	amigo.geneontol...
GO GO:0000819	View Gene Set	5.459e-08	38	2.084e-05	35	sister chromatid segregation	amigo.geneontol...
GO GO:0000280	View Gene Set	7.028e-08	276	2.538e-05	36	nuclear division	amigo.geneontol...
GO GO:0007067	View Gene Set	7.028e-08	276	2.538e-05	36	mitosis	amigo.geneontol...
GO GO:0051171	View Gene Set	7.715e-08	3066	2.712e-05	38	regulation of nitrogen compound metabolic process	amigo.geneontol...
GO GO:0048285	View Gene Set	9.384e-08	286	3.215e-05	39	organelle fission	amigo.geneontol...
GO GO:0019219	View Gene Set	1.299e-07	3040	4.337e-05	40	regulation of nucleobase nucleoside nucleotide and nucleic acid metabolic process	amigo.geneontol...
GO GO:0005681	View Gene Set	1.407e-07	135	4.584e-05	41	spliceosomal complex	amigo.geneontol...
GO GO:0000087	View Gene Set	1.648e-07	286	5.244e-05	42	M phase of mitotic cell cycle	amigo.geneontol...
GO GO:0000775	View Gene Set	2.909e-07	146	9.037e-05	43	chromosome centromeric region	amigo.geneontol...
GO GO:0000278	View Gene Set	3.508e-07	489	0.0001065	44	mitotic cell cycle	amigo.geneontol...
GO GO:0000375	View Gene Set	4.82e-07	106	0.0001431	45	RNA splicing via transesterification reactions	amigo.geneontol...
GO GO:0007059	View Gene Set	9.762e-07	94	0.0002835	46	chromosome segregation	amigo.geneontol...
GO GO:0044249	View Gene Set	1.17e-06	4326	0.0003327	47	cellular biosynthetic process	amigo.geneontol...
GO GO:0016741	View Gene Set	1.398e-06	179	0.0003892	48	transferase activity transferring one-carbon groups	amigo.geneontol...
GO GO:0008168	View Gene Set	2.264e-06	176	0.0006173	49	methyltransferase activity	amigo.geneontol...
GO GO:0009058	View Gene Set	5.423e-06	4436	0.001449	50	biosynthetic process	amigo.geneontol...
GO GO:0000793	View Gene Set	7.456e-06	136	0.001953	51	condensed chromosome	amigo.geneontol...
GO GO:0000279	View Gene Set	1.15e-05	406	0.002955	52	M phase	amigo.geneontol...
GO GO:0004872	View Gene Set	1.23e-05	1688	0.003101	53	receptor activity	amigo.geneontol...
GO GO:0031323	View Gene Set	1.458e-05	3768	0.003608	54	regulation of cellular metabolic process	amigo.geneontol...
GO GO:0006351	View Gene Set	1.652e-05	1949	0.003941	55	transcription DNA-dependent	amigo.geneontol...
GO GO:0032774	View Gene Set	1.625e-05	1953	0.003941	55	RNA biosynthetic process	amigo.geneontol...
GO GO:0016604	View Gene Set	1.722e-05	198	0.004037	57	nuclear body	amigo.geneontol...
GO GO:0000377	View Gene Set	2.355e-05	97	0.005333	58	RNA splicing via transesterification reactions with bulged adenosine as nucleophile	amigo.geneontol...
GO GO:0000398	View Gene Set	2.355e-05	97	0.005333	58	nuclear mRNA splicing via spliceosome	amigo.geneontol...
GO GO:0044451	View Gene Set	3.01e-05	600	0.006702	60	nucleoplasm part	amigo.geneontol...
GO GO:0003677	View Gene Set	4.29e-05	2028	0.009395	61	DNA binding	amigo.geneontol...
GO GO:0051252	View Gene Set	4.939e-05	1869	0.01064	62	regulation of RNA metabolic process	amigo.geneontol...
GO GO:0019222	View Gene Set	5.046e-05	4060	0.0107	63	regulation of metabolic process	amigo.geneontol...
GO GO:0006355	View Gene Set	6.598e-05	1820	0.01377	64	regulation of transcription DNA-dependent	amigo.geneontol...
GO GO:0030528	View Gene Set	7.2e-05	950	0.0148	65	transcription regulator activity	amigo.geneontol...
GO GO:0042165	View Gene Set	8.15e-05	76	0.0165	66	neurotransmitter binding	amigo.geneontol...
GO GO:0022403	View Gene Set	9.744e-05	522	0.01943	67	cell cycle phase	amigo.geneontol...
GO GO:0051351	View Gene Set	9.891e-05	74	0.01943	68	positive regulation of ligase activity	amigo.geneontol...
GO GO:0051439	View Gene Set	0.0001019	68	0.01973	69	regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	amigo.geneontol...
GO GO:0034470	View Gene Set	0.0001086	193	0.02059	70	ncRNA processing	amigo.geneontol...
GO GO:0016563	View Gene Set	0.0001094	430	0.02059	70	transcription activator activity	amigo.geneontol...
GO GO:0045893	View Gene Set	0.0001206	516	0.02206	72	positive regulation of transcription DNA-dependent	amigo.geneontol...
GO GO:0004930	View Gene Set	0.0001201	855	0.02206	72	G-protein coupled receptor activity	amigo.geneontol...
GO GO:0022618	View Gene Set	0.0001299	76	0.02346	74	ribonucleoprotein complex assembly	amigo.geneontol...
GO GO:0022613	View Gene Set	0.0001502	194	0.02675	75	ribonucleoprotein complex biogenesis	amigo.geneontol...
GO GO:0051254	View Gene Set	0.0002021	522	0.03525	76	positive regulation of RNA metabolic process	amigo.geneontol...
GO GO:0003700	View Gene Set	0.0002032	964	0.03525	76	sequence-specific DNA binding transcription factor activity	amigo.geneontol...
GO GO:0045941	View Gene Set	0.0002088	599	0.03577	78	positive regulation of transcription	amigo.geneontol...
GO GO:0010557	View Gene Set	0.0002357	702	0.03936	79	positive regulation of macromolecule biosynthetic process	amigo.geneontol...
GO GO:0016568	View Gene Set	0.0002336	324	0.03936	79	chromatin modification	amigo.geneontol...
GO GO:0000245	View Gene Set	0.0002424	34	0.03976	81	spliceosome assembly	amigo.geneontol...
GO GO:0004888	View Gene Set	0.000244	1275	0.03976	81	transmembrane receptor activity	amigo.geneontol...
GO GO:0051436	View Gene Set	0.0002605	62	0.04194	83	negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	amigo.geneontol...
GO GO:0031145	View Gene Set	0.0002677	64	0.04257	84	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process	amigo.geneontol...
GO GO:0051340	View Gene Set	0.0002751	85	0.04324	85	regulation of ligase activity	amigo.geneontol...
GO GO:0045935	View Gene Set	0.0002838	680	0.04408	86	positive regulation of nucleobase nucleoside nucleotide and nucleic acid metabolic process	amigo.geneontol...
GO GO:0004871	View Gene Set	0.0003099	2128	0.04705	87	signal transducer activity	amigo.geneontol...
GO GO:0060089	View Gene Set	0.0003099	2128	0.04705	87	molecular transducer activity	amigo.geneontol...
GO GO:0051443	View Gene Set	0.0003165	71	0.04751	89	positive regulation of ubiquitin-protein ligase activity	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 chr19q13	View Gene Set	2.543e-06	765	0.000829	1	Genes in cytogenetic band chr19q13	www.broad.mit.e...
Broad chr22q13	View Gene Set	0.0001669	179	0.0272	2	Genes in cytogenetic band chr22q13	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad SHEN_SMARCA2_TARGETS_DN	View Gene Set	2.43e-26	334	5.813e-23	1	Genes whose expression negatively correlated with that of SMARCA2 [Gene ID=6595] in prostate cancer samples.	www.broad.mit.e...
Broad ROSTY_CERVICAL_CANCER_PROLIFERATION_CLUSTER	View Gene Set	7.23e-13	138	5.765e-10	2	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 CROONQUIST_NRAS_SIGNALING_DN	View Gene Set	6.967e-13	62	5.765e-10	2	Genes down-regulated in ANBL-6 cell line (multiple myeloma MM) expressing a constantly active form of NRAS [Gene ID=4893] off a plasmid vector compared to those grown in the presence of IL6 [Gene ID=3569].	www.broad.mit.e...
Broad PUJANA_BRCA1_PCC_NETWORK	View Gene Set	1.18e-12	1582	7.059e-10	4	Genes constituting the BRCA1-PCC network of transcripts whose expression positively correlated (Pearson correlation coefficient PCC >= 0.4) with that of BRCA1 [Gene ID=672] across a compendium of normal tissues.	www.broad.mit.e...
Broad PUJANA_CHEK2_PCC_NETWORK	View Gene Set	5.344e-12	744	2.556e-09	5	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 GINESTIER_BREAST_CANCER_ZNF217_AMPLIFIED_DN	View Gene Set	8.021e-12	308	3.198e-09	6	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 SOTIRIOU_BREAST_CANCER_GRADE_1_VS_3_UP	View Gene Set	1.038e-11	143	3.548e-09	7	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 CROONQUIST_IL6_DEPRIVATION_DN	View Gene Set	1.364e-11	80	3.943e-09	8	Genes down-regulated in the ANBL-6 cell line (multiple myeloma MM) after withdrawal of IL6 [Gene ID=3569].	www.broad.mit.e...
Broad WONG_EMBRYONIC_STEM_CELL_CORE	View Gene Set	1.484e-11	331	3.943e-09	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 KOBAYASHI_EGFR_SIGNALING_24HR_DN	View Gene Set	1.775e-11	243	4.247e-09	10	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 PUJANA_XPRSS_INT_NETWORK	View Gene Set	1.583e-10	164	3.443e-08	11	Genes constituting the XPRSS-Int network: intersection of genes whose expression correlates with BRCA1 BRCA2 ATM and CHEK2 [Gene ID=672 675 472 11200] in a compendium of normal tissues.	www.broad.mit.e...
Broad DODD_NASOPHARYNGEAL_CARCINOMA_DN	View Gene Set	3.079e-10	1253	6.137e-08	12	Genes down-regulated in nasopharyngeal carcinoma (NPC) compared to the normal tissue.	www.broad.mit.e...
Broad PUJANA_ATM_PCC_NETWORK	View Gene Set	9.846e-09	1375	1.812e-06	13	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 CAIRO_HEPATOBLASTOMA_CLASSES_UP	View Gene Set	1.192e-08	577	2.036e-06	14	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 PUJANA_BRCA2_PCC_NETWORK	View Gene Set	1.97e-08	410	3.142e-06	15	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 GARGALOVIC_RESPONSE_TO_OXIDIZED_PHOSPHOLIPIDS_TURQUOISE_DN	View Gene Set	2.48e-08	51	3.707e-06	16	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 KANG_DOXORUBICIN_RESISTANCE_UP	View Gene Set	3.346e-08	53	4.709e-06	17	Genes differentialy expressed in gastric cancer cell lines: doxorubicin [PubChem=31703] resistant vs sensitive.	www.broad.mit.e...
Broad ODONNELL_TFRC_TARGETS_DN	View Gene Set	1.074e-07	131	1.427e-05	18	Genes dpwn-regulated in P493-6 cells (B lymphocyte) upon knockdown of TFRC [Gene ID=7037] by RNAi.	www.broad.mit.e...
Broad PUJANA_BREAST_CANCER_WITH_BRCA1_MUTATED_UP	View Gene Set	1.323e-07	53	1.666e-05	19	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 TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C	View Gene Set	1.612e-07	436	1.928e-05	20	Genes down-regulated in HCT116 cells (colon cancer) upon expression of MIR34B or MIR34C [Gene ID=407041 407042] microRNAs.	www.broad.mit.e...
Broad HELLER_HDAC_TARGETS_SILENCED_BY_METHYLATION_DN	View Gene Set	3.169e-07	241	3.445e-05	21	Genes down-regulated in multiple myeloma (MM) cell lines treated with both decitabine [PubChem=451668] TSA [PubChem=5562].	www.broad.mit.e...
Broad WHITEFORD_PEDIATRIC_CANCER_MARKERS	View Gene Set	3.074e-07	92	3.445e-05	21	Differentially expressed genes in a panel of xenografts representing 8 common pediatric tumors compared to the normal tissues.	www.broad.mit.e...
Broad ZHONG_RESPONSE_TO_AZACITIDINE_AND_TSA_DN	View Gene Set	3.323e-07	61	3.456e-05	23	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 MANALO_HYPOXIA_DN	View Gene Set	3.81e-07	276	3.797e-05	24	Genes down-regulated in response to both hypoxia and overexpression of an active form of HIF1A [Gene ID=3091].	www.broad.mit.e...
Broad FOURNIER_ACINAR_DEVELOPMENT_LATE_2	View Gene Set	8.313e-07	265	7.953e-05	25	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 ZHAN_MULTIPLE_MYELOMA_PR_UP	View Gene Set	1.127e-06	43	0.0001037	26	Top 50 up-regulated genes in cluster PR of multiple myeloma samples characterized by increased expression of proliferation and cell cycle genes.	www.broad.mit.e...
Broad MISSIAGLIA_REGULATED_BY_METHYLATION_DN	View Gene Set	1.33e-06	96	0.0001178	27	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 BOYAULT_LIVER_CANCER_SUBCLASS_G3_UP	View Gene Set	1.531e-06	184	0.0001308	28	Up-regulated genes in hepatocellular carcinoma (HCC) subclass G3 defined by unsupervised clustering.	www.broad.mit.e...
Broad MARKEY_RB1_ACUTE_LOF_DN	View Gene Set	2.247e-06	201	0.0001854	29	Genes down-regulated in adult fibroblasts with inactivated RB1 [Gene ID=5925] by Cre-lox: acute loss of function (LOF) of RB1.	www.broad.mit.e...
Broad KINSEY_TARGETS_OF_EWSR1_FLII_FUSION_UP	View Gene Set	2.618e-06	1180	0.0002074	30	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 MORI_LARGE_PRE_BII_LYMPHOCYTE_UP	View Gene Set	2.687e-06	52	0.0002074	30	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 HOFFMANN_LARGE_TO_SMALL_PRE_BII_LYMPHOCYTE_UP	View Gene Set	4.44e-06	93	0.0003319	32	Genes up-regulated during differentiation from large pre-BII to small pre-BII lymphocyte.	www.broad.mit.e...
Broad PUJANA_BRCA_CENTERED_NETWORK	View Gene Set	5.773e-06	92	0.0004184	33	Genes constituting the BRCA-centered network (BCN).	www.broad.mit.e...
Broad EGUCHI_CELL_CYCLE_RB1_TARGETS	View Gene Set	6.524e-06	19	0.000459	34	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 RIZ_ERYTHROID_DIFFERENTIATION	View Gene Set	8.716e-06	71	0.0005957	35	Selected gradually up-regulated genes in the TLX1 [Gene ID=3195] Tet On iEBHX15-4 cells (pro-erythroblasts).	www.broad.mit.e...
Broad FINETTI_BREAST_CANCER_KINOME_RED	View Gene Set	1.268e-05	15	0.0008198	36	Genes in the red cluster of protein kinases distinguishing between luminal A and basal breast cancer subtypes.	www.broad.mit.e...
Broad FINETTI_BREAST_CANCER_BASAL_VS_LUMINAL	View Gene Set	1.268e-05	15	0.0008198	36	Protein kinases distinguishing between basal and luminal A subtypes of breast cancer.	www.broad.mit.e...
Broad LY_AGING_OLD_DN	View Gene Set	1.305e-05	47	0.0008217	38	Genes up-regulated in fibroblasts from old individuals compared to those from young donors.	www.broad.mit.e...
Broad GRAHAM_CML_DIVIDING_VS_NORMAL_QUIESCENT_UP	View Gene Set	1.714e-05	180	0.001025	39	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 GRAHAM_NORMAL_QUIESCENT_VS_NORMAL_DIVIDING_DN	View Gene Set	1.692e-05	86	0.001025	39	Genes down-regulated in quiescent vs dividing CD34+ [Gene ID=8842] cells isolated from peripheral blood of normal donors.	www.broad.mit.e...
Broad XU_HGF_TARGETS_REPRESSED_BY_AKT1_DN	View Gene Set	1.942e-05	75	0.001106	41	Genes down-regulated in DU-145 cells (prostate cancer) in the presence but not in the absence of a dominant negative form of AKT1 [Gene ID=207] upon exposure to HGF [Gene ID=3082] for 48 hr.	www.broad.mit.e...
Broad RUIZ_TNC_TARGETS_DN	View Gene Set	1.939e-05	138	0.001106	41	Genes down-regulated in T98G cells (glioblastoma) by TNC [Gene ID=3371].	www.broad.mit.e...
Broad VECCHI_GASTRIC_CANCER_EARLY_UP	View Gene Set	2.54e-05	408	0.001413	43	Up-regulated genes distinguishing between early gastric cancer (EGC) and normal tissue samples.	www.broad.mit.e...
Broad LEE_EARLY_T_LYMPHOCYTE_UP	View Gene Set	3.9e-05	80	0.00212	44	Genes up-regulated at early stages of progenitor T lymphocyte maturation compared to the late stages.	www.broad.mit.e...
Broad MUELLER_PLURINET	View Gene Set	4.094e-05	294	0.002176	45	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 CHIANG_LIVER_CANCER_SUBCLASS_PROLIFERATION_UP	View Gene Set	4.278e-05	135	0.002225	46	Top 200 marker genes up-regulated in the 'proliferation' subclass of hepatocellular carcinoma (HCC); characterized by increased proliferation high levels of serum AFP [Gene ID=174] and chromosomal instability.	www.broad.mit.e...
Broad KALMA_E2F1_TARGETS	View Gene Set	4.587e-05	11	0.002335	47	DNA replication genes up-regulated in a Rat-1a cell line (fibroblast) by expression of E2F1 [Gene ID=1869].	www.broad.mit.e...
Broad LI_WILMS_TUMOR_VS_FETAL_KIDNEY_1_DN	View Gene Set	5.393e-05	158	0.002687	48	Genes down-regulated in Wilm's tumor samples compared to fetal kidney.	www.broad.mit.e...
Broad HELLER_HDAC_TARGETS_DN	View Gene Set	6.259e-05	250	0.003055	49	Genes down-regulated in at least one of three multiple myeloma (MM) cell lines by TSA [PubChem=5562].	www.broad.mit.e...
Broad REN_BOUND_BY_E2F	View Gene Set	6.996e-05	47	0.003347	50	Genes whose promoters were bound by E2F1 [Gene ID=1869] and E2F4 [Gene ID=1874] in the primary fibroblasts WI-38 by ChIP on chip assay.	www.broad.mit.e...
Broad BERENJENO_TRANSFORMED_BY_RHOA_UP	View Gene Set	8.211e-05	485	0.003851	51	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 RIZ_ERYTHROID_DIFFERENTIATION_CCNE1	View Gene Set	0.000101	38	0.004645	52	Selected gradually up-regulated genes whose expression profile follows that of CCNE1 [Gene ID=898] in the TLX1 [Gene ID=3195] Tet On iEBHX15-4 cells (pro-erythroblasts).	www.broad.mit.e...
Broad MOREAUX_MULTIPLE_MYELOMA_BY_TACI_UP	View Gene Set	0.0001114	365	0.005026	53	Genes distinguishing in multiple myeloma (MM) samples with higher expression of TACI [Gene ID=23495].	www.broad.mit.e...
Broad CHEMNITZ_RESPONSE_TO_PROSTAGLANDIN_E2_UP	View Gene Set	0.0001428	135	0.006325	54	Genes up-regulated in CD4+ [Gene ID=920] T lymphocytes after stimulation with prostaglandin E2 [PubChem=5280360].	www.broad.mit.e...
Broad BIDUS_METASTASIS_UP	View Gene Set	0.0001659	203	0.007216	55	Genes up-regulated in endometroid endometrial tumors from patients with lymph node metastases compared to those without the metastases.	www.broad.mit.e...
Broad MITSIADES_RESPONSE_TO_APLIDIN_DN	View Gene Set	0.0001875	241	0.007973	56	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 SMID_BREAST_CANCER_LUMINAL_A_DN	View Gene Set	0.000191	17	0.007973	56	Genes down-regulated in the luminal A subtype of breast cancer.	www.broad.mit.e...
Broad PAL_PRMT5_TARGETS_UP	View Gene Set	0.0001933	178	0.007973	56	Genes up-regulated in NIH-3T3 cells (fibroblast) after knockdown of PRMT5 [Gene ID=10419] by RNAi.	www.broad.mit.e...
Broad ODONNELL_TARGETS_OF_MYC_AND_TFRC_DN	View Gene Set	0.0002634	42	0.01068	59	Genes down-regulated in P493-6 cells (B lymphocyte) by MYC [Gene ID=4609] and up-regulated by RNAi knockdown of TFRC [Gene ID=7037].	www.broad.mit.e...
Broad MORI_IMMATURE_B_LYMPHOCYTE_DN	View Gene Set	0.0003261	52	0.013	60	Down-regulated genes in the B lymphocyte developmental signature based on expression profiling of lymphomas from the Emu-myc transgenic mice: the immature B stage.	www.broad.mit.e...
Broad WINNEPENNINCKX_MELANOMA_METASTASIS_UP	View Gene Set	0.0003765	152	0.01476	61	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 MONTERO_THYROID_CANCER_POOR_SURVIVAL_UP	View Gene Set	0.0003943	10	0.01521	62	Up-regulated genes predicting poor survival of patients with thyroid carcinoma.	www.broad.mit.e...
Broad YU_MYC_TARGETS_UP	View Gene Set	0.0004005	37	0.01521	62	Genes up-regulated in B cell lymphoma tumors expressing an activated form of MYC [Gene ID=4609].	www.broad.mit.e...
Broad LY_AGING_MIDDLE_DN	View Gene Set	0.0004174	15	0.0156	64	Genes down-regulated in fibroblasts from middle-age individuals compared to those from the young donors.	www.broad.mit.e...
Broad FERREIRA_EWINGS_SARCOMA_UNSTABLE_VS_STABLE_UP	View Gene Set	0.0004277	144	0.01574	65	Genes up-regulated in genomically unstable Ewing's sarcoma tumors compared to the stable ones.	www.broad.mit.e...
Broad FUNG_IL2_TARGETS_WITH_STAT5_BINDING_SITES	View Gene Set	0.0004492	7	0.01628	66	Genes with putative STAT5 [Gene ID=6777] binding sites; up-regulated by IL2 [Gene ID=3558] in both primary thymocytes and T1 cells (primary thymocytes immortalized by Tax an HTLV-1 encoded gene).	www.broad.mit.e...
Broad AMUNDSON_GAMMA_RADIATION_RESPONSE	View Gene Set	0.0006256	36	0.02233	67	Genes down-regulated across the entire panel of NCI-60 cell lines in response to gamma radiation.	www.broad.mit.e...
Broad RICKMAN_TUMOR_DIFFERENTIATED_MODERATELY_VS_POORLY_UP	View Gene Set	0.000702	36	0.02434	68	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	0.000702	36	0.02434	68	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 GENTILE_UV_RESPONSE_CLUSTER_D4	View Gene Set	0.0008572	49	0.02929	70	Cluster d4: genes progressively down-regulated in WS1 cells (fibroblast) through 12 h after irradiation with high dose UV-C.	www.broad.mit.e...
Broad FRASOR_RESPONSE_TO_SERM_OR_FULVESTRANT_DN	View Gene Set	0.0009985	43	0.03317	71	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 KIM_GASTRIC_CANCER_CHEMOSENSITIVITY	View Gene Set	0.0009954	97	0.03317	71	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 SCIAN_CELL_CYCLE_TARGETS_OF_TP53_AND_TP73_DN	View Gene Set	0.001206	22	0.03951	73	Cell cycle genes changed in H1299 cells (lung cancer) after overexpression of either P53 [Gene ID=7157] or P73 [Gene ID=7161].	www.broad.mit.e...
Broad SARRIO_EPITHELIAL_MESENCHYMAL_TRANSITION_UP	View Gene Set	0.001474	16	0.04765	74	Genes up-regulated in MCF10A cells (breast cancer) grown at low (mesenchymal phenotype) compared to those grown at high (epithelial basal-like phenotype) confluency.	www.broad.mit.e...
Broad TANG_SENESCENCE_TP53_TARGETS_DN	View Gene Set	0.001559	40	0.04971	75	Genes down-regulated in WI-38 cells (senescent primary fibroblasts) after inactivation of TP53 [Gene ID=7157] by GSE56 polypeptide.	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 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 BIOCARTA_RANMS_PATHWAY	View Gene Set	5.994e-05	10	0.01301	1	Role of Ran in mitotic spindle regulation	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad KEGG_NEUROACTIVE_LIGAND_RECEPTOR_INTERACTION	View Gene Set	1.581e-06	272	0.000294	1	Neuroactive ligand-receptor interaction	www.broad.mit.e...
Broad KEGG_SPLICEOSOME	View Gene Set	4.241e-05	118	0.003944	2	Spliceosome	www.broad.mit.e...
Broad KEGG_DNA_REPLICATION	View Gene Set	0.0008672	36	0.04032	3	DNA replication	www.broad.mit.e...
Broad KEGG_BASE_EXCISION_REPAIR	View Gene Set	0.000652	35	0.04032	3	Base excision repair	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad REACTOME_MITOTIC_M_M_G1_PHASES	View Gene Set	7.693e-06	157	0.003308	1	Genes involved in Mitotic M-M/G1 phases	www.broad.mit.e...
Broad REACTOME_MRNA_SPLICING	View Gene Set	0.0001377	97	0.01185	2	Genes involved in mRNA Splicing	www.broad.mit.e...
Broad REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA	View Gene Set	6.712e-05	128	0.01185	2	Genes involved in Processing of Capped Intron-Containing Pre-mRNA	www.broad.mit.e...
Broad REACTOME_GPCR_LIGAND_BINDING	View Gene Set	8.273e-05	392	0.01185	2	Genes involved in GPCR ligand binding	www.broad.mit.e...
Broad REACTOME_METABOLISM_OF_RNA	View Gene Set	0.0001243	95	0.01185	2	Genes involved in Metabolism of RNA	www.broad.mit.e...
Broad REACTOME_REGULATION_OF_APC_ACTIVATORS_BETWEEN_G1_S_AND_EARLY_ANAPHASE	View Gene Set	0.0002196	71	0.01574	6	Genes involved in Regulation of APC/C activators between G1/S and early anaphase	www.broad.mit.e...
Broad REACTOME_MITOTIC_PROMETAPHASE	View Gene Set	0.0003197	92	0.01964	7	Genes involved in Mitotic Prometaphase	www.broad.mit.e...
Broad REACTOME_CELL_CYCLE_MITOTIC	View Gene Set	0.0004089	306	0.02198	8	Genes involved in Cell Cycle Mitotic	www.broad.mit.e...
Broad REACTOME_DEADENYLATION_OF_MRNA	View Gene Set	0.000482	21	0.02303	9	Genes involved in Deadenylation of mRNA	www.broad.mit.e...
Broad REACTOME_CDC20_PHOSPHO_APC_MEDIATED_DEGRADATION_OF_CYCLIN_A	View Gene Set	0.001185	63	0.04772	10	Genes involved in Cdc20:Phospho-APC/C mediated degradation of Cyclin A	www.broad.mit.e...
Broad REACTOME_CLASS_A1_RHODOPSIN_LIKE_RECEPTORS	View Gene Set	0.001221	292	0.04772	10	Genes involved in Class A/1 (Rhodopsin-like receptors)	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad GCCATNTTG_V$YY1_Q6	View Gene Set	1.447e-10	289	8.901e-08	1	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif GCCATNTTG which matches annotation for YY1: YY1 transcription factor	www.broad.mit.e...
Broad V$E2F_Q4	View Gene Set	9.88e-08	166	2.337e-05	2	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$E2F_Q6	View Gene Set	1.14e-07	165	2.337e-05	2	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTSGCGS. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1_Q6	View Gene Set	5.908e-06	167	0.0009083	4	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$NFMUE1_Q6	View Gene Set	7.899e-06	175	0.0009716	5	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif CGGCCATCT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad TAANNYSGCG_UNKNOWN	View Gene Set	1.654e-05	60	0.001453	6	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TAANNYSGCG. Motif does not match any known transcription factor	www.broad.mit.e...
Broad SGCGSSAAA_V$E2F1DP2_01	View Gene Set	1.609e-05	122	0.001453	6	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 V$E2F_02	View Gene Set	5.563e-05	169	0.003857	8	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTSGCGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$YY1_02	View Gene Set	5.645e-05	168	0.003857	8	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$ZIC3_01	View Gene Set	6.583e-05	205	0.004049	10	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NGGGKGGTC which matches annotation for ZIC3: Zic family member 3 heterotaxy 1 (odd-paired homolog Drosophila)	www.broad.mit.e...
Broad V$E2F1DP1RB_01	View Gene Set	7.338e-05	168	0.004102	11	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$E2F1DP1_01	View Gene Set	9.519e-05	169	0.004182	12	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTCSCGC which matches annotation for E2F1: E2F transcription factor 1<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F1DP2_01	View Gene Set	9.519e-05	169	0.004182	12	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$E2F4DP2_01	View Gene Set	9.519e-05	169	0.004182	12	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTCSCGC which matches annotation for E2F4: E2F transcription factor 4 p107/p130-binding<br> TFDP2: transcription factor Dp-2 (E2F dimerization partner 2)	www.broad.mit.e...
Broad KCCGNSWTTT_UNKNOWN	View Gene Set	0.0001195	76	0.0049	15	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif KCCGNSWTTT. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$YY1_Q6	View Gene Set	0.0001378	166	0.005297	16	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$E2F1_Q6_01	View Gene Set	0.000239	177	0.008648	17	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NTTTCGCGCS which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad V$E2F1_Q4_01	View Gene Set	0.0003096	167	0.01058	18	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGSG which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F_Q4_01	View Gene Set	0.0004481	171	0.0145	19	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NCSCGCSAAAN which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad GGCNKCCATNK_UNKNOWN	View Gene Set	0.0006302	84	0.01938	20	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif GGCNKCCATNK. Motif does not match any known transcription factor	www.broad.mit.e...
Broad KTGGYRSGAA_UNKNOWN	View Gene Set	0.0007377	53	0.0216	21	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif KTGGYRSGAA. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F4DP1_01	View Gene Set	0.0009976	174	0.02789	22	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$E2F_Q3	View Gene Set	0.001172	162	0.03134	23	Genes with promoter regions [-2kb 2kb] around transcription start site containing motif TTTCGCGC. Motif does not match any known transcription factor	www.broad.mit.e...
Broad V$E2F1_Q4	View Gene Set	0.001279	178	0.03148	24	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif NTTSGCGG which matches annotation for E2F1: E2F transcription factor 1	www.broad.mit.e...
Broad V$E2F_Q3_01	View Gene Set	0.001276	171	0.03148	24	Genes with promoter regions [-2kb 2kb] around transcription start site containing the motif TTTSGCGSG which matches annotation for E2F<br> TFDP1: transcription factor Dp-1	www.broad.mit.e...
Broad V$E2F1_Q3	View Gene Set	0.002102	176	0.04972	26	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...

Gene Set Collection: Broad.c4.CGN

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

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad GNF2_CCNA2	View Gene Set	6.636e-19	62	2.834e-16	1	Neighborhood of CCNA2	www.broad.mit.e...
Broad GNF2_CDC20	View Gene Set	3.317e-17	52	4.722e-15	2	Neighborhood of CDC20	www.broad.mit.e...
Broad GNF2_CCNB2	View Gene Set	2.974e-17	53	4.722e-15	2	Neighborhood of CCNB2	www.broad.mit.e...
Broad GNF2_PCNA	View Gene Set	1.588e-16	62	1.695e-14	4	Neighborhood of PCNA	www.broad.mit.e...
Broad GNF2_HMMR	View Gene Set	1.276e-15	43	1.089e-13	5	Neighborhood of HMMR	www.broad.mit.e...
Broad GNF2_SMC4L1	View Gene Set	4.731e-15	75	3.367e-13	6	Neighborhood of SMC4L1	www.broad.mit.e...
Broad GNF2_CDC2	View Gene Set	1.479e-14	56	9.019e-13	7	Neighborhood of CDC2	www.broad.mit.e...
Broad GNF2_CENPF	View Gene Set	2.771e-14	56	1.479e-12	8	Neighborhood of CENPF	www.broad.mit.e...
Broad GNF2_RRM1	View Gene Set	3.206e-13	82	1.521e-11	9	Neighborhood of RRM1	www.broad.mit.e...
Broad GNF2_RRM2	View Gene Set	4.255e-13	36	1.817e-11	10	Neighborhood of RRM2	www.broad.mit.e...
Broad GNF2_BUB1B	View Gene Set	9.891e-13	46	3.839e-11	11	Neighborhood of BUB1B	www.broad.mit.e...
Broad GNF2_ESPL1	View Gene Set	2.041e-12	35	7.263e-11	12	Neighborhood of ESPL1	www.broad.mit.e...
Broad GNF2_PA2G4	View Gene Set	3.903e-12	73	1.282e-10	13	Neighborhood of PA2G4	www.broad.mit.e...
Broad GNF2_DEK	View Gene Set	9.735e-12	45	2.821e-10	14	Neighborhood of DEK	www.broad.mit.e...
Broad GNF2_MCM4	View Gene Set	9.909e-12	50	2.821e-10	14	Neighborhood of MCM4	www.broad.mit.e...
Broad GNF2_TTK	View Gene Set	1.137e-11	34	3.036e-10	16	Neighborhood of TTK	www.broad.mit.e...
Broad GNF2_CENPE	View Gene Set	2.1e-11	37	5.276e-10	17	Neighborhood of CENPE	www.broad.mit.e...
Broad GNF2_RFC4	View Gene Set	2.577e-11	57	6.113e-10	18	Neighborhood of RFC4	www.broad.mit.e...
Broad GNF2_MCM5	View Gene Set	1.321e-10	51	2.968e-09	19	Neighborhood of MCM5	www.broad.mit.e...
Broad MORF_BUB1B	View Gene Set	1.53e-10	61	3.266e-09	20	Neighborhood of BUB1B	www.broad.mit.e...
Broad GNF2_MKI67	View Gene Set	2.328e-10	26	4.734e-09	21	Neighborhood of MKI67	www.broad.mit.e...
Broad GNF2_CKS2	View Gene Set	3.815e-10	45	7.405e-09	22	Neighborhood of CKS2	www.broad.mit.e...
Broad GNF2_FEN1	View Gene Set	5.131e-10	49	9.526e-09	23	Neighborhood of FEN1	www.broad.mit.e...
Broad GNF2_SMC2L1	View Gene Set	8.338e-10	30	1.483e-08	24	Neighborhood of SMC2L1	www.broad.mit.e...
Broad MORF_BUB1	View Gene Set	1.228e-09	49	2.097e-08	25	Neighborhood of BUB1	www.broad.mit.e...
Broad GNF2_CKS1B	View Gene Set	5.887e-09	36	9.669e-08	26	Neighborhood of CKS1B	www.broad.mit.e...
Broad GNF2_APEX1	View Gene Set	1.05e-08	72	1.66e-07	27	Neighborhood of APEX1	www.broad.mit.e...
Broad GNF2_H2AFX	View Gene Set	1.418e-08	28	2.162e-07	28	Neighborhood of H2AFX	www.broad.mit.e...
Broad GNF2_RFC3	View Gene Set	1.646e-08	38	2.423e-07	29	Neighborhood of RFC3	www.broad.mit.e...
Broad GNF2_BUB1	View Gene Set	2.338e-08	25	3.328e-07	30	Neighborhood of BUB1	www.broad.mit.e...
Broad MORF_PRKDC	View Gene Set	3.712e-08	173	5.113e-07	31	Neighborhood of PRKDC	www.broad.mit.e...
Broad MORF_ESPL1	View Gene Set	2.158e-07	58	2.88e-06	32	Neighborhood of ESPL1	www.broad.mit.e...
Broad MORF_HDAC2	View Gene Set	2.533e-07	256	3.278e-06	33	Neighborhood of HDAC2	www.broad.mit.e...
Broad GNF2_HDAC1	View Gene Set	2.802e-07	85	3.52e-06	34	Neighborhood of HDAC1	www.broad.mit.e...
Broad MORF_SNRP70	View Gene Set	3.479e-07	50	4.245e-06	35	Neighborhood of SNRP70	www.broad.mit.e...
Broad MORF_BUB3	View Gene Set	4.351e-07	256	5.16e-06	36	Neighborhood of BUB3	www.broad.mit.e...
Broad MORF_ACP1	View Gene Set	4.954e-07	178	5.717e-06	37	Neighborhood of ACP1	www.broad.mit.e...
Broad MORF_FANCG	View Gene Set	6.29e-07	148	7.068e-06	38	Neighborhood of FANCG	www.broad.mit.e...
Broad GNF2_ANP32B	View Gene Set	7.71e-07	29	8.442e-06	39	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_RFC4	View Gene Set	9.756e-07	137	1.041e-05	40	Neighborhood of RFC4	www.broad.mit.e...
Broad MORF_DNMT1	View Gene Set	1.393e-06	105	1.451e-05	41	Neighborhood of DNMT1	www.broad.mit.e...
Broad GNF2_HAT1	View Gene Set	1.887e-06	45	1.918e-05	42	Neighborhood of HAT1	www.broad.mit.e...
Broad GNF2_RAN	View Gene Set	2.284e-06	78	2.268e-05	43	Neighborhood of RAN	www.broad.mit.e...
Broad GNF2_MSH2	View Gene Set	3.062e-06	26	2.971e-05	44	Neighborhood of MSH2	www.broad.mit.e...
Broad MORF_RAD23A	View Gene Set	4.609e-06	316	4.374e-05	45	Neighborhood of RAD23A	www.broad.mit.e...
Broad MORF_PCNA	View Gene Set	4.982e-06	71	4.624e-05	46	Neighborhood of PCNA	www.broad.mit.e...
Broad MORF_RPA2	View Gene Set	7.439e-06	170	6.758e-05	47	Neighborhood of RPA2	www.broad.mit.e...
Broad GNF2_TDG	View Gene Set	8.5e-06	23	7.562e-05	48	Neighborhood of TDG	www.broad.mit.e...
Broad MORF_PHB	View Gene Set	1.524e-05	112	0.0001328	49	Neighborhood of PHB	www.broad.mit.e...
Broad MORF_RAD54L	View Gene Set	1.76e-05	94	0.0001493	50	Neighborhood of RAD54L	www.broad.mit.e...
Broad GCM_DPF2	View Gene Set	1.783e-05	32	0.0001493	50	Neighborhood of DPF2	www.broad.mit.e...
Broad GCM_RING1	View Gene Set	1.986e-05	106	0.0001609	52	Neighborhood of RING1	www.broad.mit.e...
Broad GNF2_RPA1	View Gene Set	1.997e-05	20	0.0001609	52	Neighborhood of RPA1	www.broad.mit.e...
Broad MORF_ORC1L	View Gene Set	2.085e-05	61	0.0001648	54	Neighborhood of ORC1L	www.broad.mit.e...
Broad MORF_FBL	View Gene Set	2.47e-05	121	0.0001917	55	Neighborhood of FBL	www.broad.mit.e...
Broad GCM_BECN1	View Gene Set	2.515e-05	59	0.0001917	55	Neighborhood of BECN1	www.broad.mit.e...
Broad MORF_LTK	View Gene Set	2.814e-05	133	0.0002108	57	Neighborhood of LTK	www.broad.mit.e...
Broad GNF2_KPNB1	View Gene Set	2.953e-05	52	0.0002174	58	Neighborhood of KPNB1	www.broad.mit.e...
Broad MORF_FDXR	View Gene Set	3.3e-05	205	0.0002389	59	Neighborhood of FDXR	www.broad.mit.e...
Broad GNF2_FBL	View Gene Set	3.553e-05	119	0.0002528	60	Neighborhood of FBL	www.broad.mit.e...
Broad GNF2_DENR	View Gene Set	3.689e-05	39	0.0002582	61	Neighborhood of DENR	www.broad.mit.e...
Broad GCM_VAV1	View Gene Set	7.452e-05	46	0.0005132	62	Neighborhood of VAV1	www.broad.mit.e...
Broad MORF_CNTN1	View Gene Set	7.606e-05	95	0.0005155	63	Neighborhood of CNTN1	www.broad.mit.e...
Broad MORF_AATF	View Gene Set	8.677e-05	179	0.0005789	64	Neighborhood of AATF	www.broad.mit.e...
Broad MORF_IKBKG	View Gene Set	9.989e-05	119	0.0006562	65	Neighborhood of IKBKG	www.broad.mit.e...
Broad MORF_ESR1	View Gene Set	0.0001165	159	0.0007423	66	Neighborhood of ESR1	www.broad.mit.e...
Broad MORF_TNFRSF25	View Gene Set	0.0001151	242	0.0007423	66	Neighborhood of TNFRSF25	www.broad.mit.e...
Broad MORF_RBBP8	View Gene Set	0.0001216	190	0.0007635	68	Neighborhood of RBBP8	www.broad.mit.e...
Broad GCM_FCGR2B	View Gene Set	0.0001333	37	0.0008052	69	Neighborhood of FCGR2B	www.broad.mit.e...
Broad GCM_PRKAG1	View Gene Set	0.0001318	49	0.0008052	69	Neighborhood of PRKAG1	www.broad.mit.e...
Broad GNF2_MLH1	View Gene Set	0.0001339	36	0.0008052	69	Neighborhood of MLH1	www.broad.mit.e...
Broad MORF_MT4	View Gene Set	0.000139	218	0.0008246	72	Neighborhood of MT4	www.broad.mit.e...
Broad MORF_IL13	View Gene Set	0.0001447	216	0.0008465	73	Neighborhood of IL13	www.broad.mit.e...
Broad MORF_FLT1	View Gene Set	0.000152	117	0.0008774	74	Neighborhood of FLT1	www.broad.mit.e...
Broad MORF_RBM8A	View Gene Set	0.0001555	75	0.0008851	75	Neighborhood of RBM8A	www.broad.mit.e...
Broad MORF_GNB1	View Gene Set	0.0001691	276	0.0009394	76	Neighborhood of GNB1	www.broad.mit.e...
Broad MORF_PML	View Gene Set	0.0001694	129	0.0009394	76	Neighborhood of PML	www.broad.mit.e...
Broad MORF_RAGE	View Gene Set	0.0001719	132	0.0009411	78	Neighborhood of RAGE	www.broad.mit.e...
Broad MORF_CASP2	View Gene Set	0.0002075	89	0.001121	79	Neighborhood of CASP2	www.broad.mit.e...
Broad GCM_FANCC	View Gene Set	0.0002386	120	0.001258	80	Neighborhood of FANCC	www.broad.mit.e...
Broad GNF2_PPP6C	View Gene Set	0.0002381	33	0.001258	80	Neighborhood of PPP6C	www.broad.mit.e...
Broad GCM_HMGA2	View Gene Set	0.0002484	123	0.001294	82	Neighborhood of HMGA2	www.broad.mit.e...
Broad MORF_RAF1	View Gene Set	0.0003074	94	0.001581	83	Neighborhood of RAF1	www.broad.mit.e...
Broad GNF2_G22P1	View Gene Set	0.0003329	29	0.001692	84	Neighborhood of G22P1	www.broad.mit.e...
Broad MORF_UBE2I	View Gene Set	0.0003633	208	0.001825	85	Neighborhood of UBE2I	www.broad.mit.e...
Broad MORF_BNIP1	View Gene Set	0.0003939	179	0.001911	86	Neighborhood of BNIP1	www.broad.mit.e...
Broad MORF_STK17A	View Gene Set	0.0003938	155	0.001911	86	Neighborhood of STK17A	www.broad.mit.e...
Broad MORF_EIF3S2	View Gene Set	0.0003938	220	0.001911	86	Neighborhood of EIF3S2	www.broad.mit.e...
Broad MORF_DEK	View Gene Set	0.000444	229	0.002106	89	Neighborhood of DEK	www.broad.mit.e...
Broad GNF2_ELAC2	View Gene Set	0.0004415	32	0.002106	89	Neighborhood of ELAC2	www.broad.mit.e...
Broad MORF_PDPK1	View Gene Set	0.0004563	67	0.002141	91	Neighborhood of PDPK1	www.broad.mit.e...
Broad GCM_LTK	View Gene Set	0.0004735	43	0.002198	92	Neighborhood of LTK	www.broad.mit.e...
Broad MORF_SMC1L1	View Gene Set	0.0005239	47	0.002395	93	Neighborhood of SMC1L1	www.broad.mit.e...
Broad MORF_PRKAG1	View Gene Set	0.0005272	202	0.002395	93	Neighborhood of PRKAG1	www.broad.mit.e...
Broad GCM_BNIP1	View Gene Set	0.0005394	71	0.002424	95	Neighborhood of BNIP1	www.broad.mit.e...
Broad MORF_BCL2	View Gene Set	0.0005645	202	0.002511	96	Neighborhood of BCL2	www.broad.mit.e...
Broad MORF_HAT1	View Gene Set	0.0005939	155	0.002614	97	Neighborhood of HAT1	www.broad.mit.e...
Broad MORF_HEAB	View Gene Set	0.0006841	71	0.002981	98	Neighborhood of HEAB	www.broad.mit.e...
Broad MORF_RRM1	View Gene Set	0.000829	90	0.003576	99	Neighborhood of RRM1	www.broad.mit.e...
Broad MORF_ANP32B	View Gene Set	0.0008603	174	0.003673	100	Neighborhood of ANP32B	www.broad.mit.e...
Broad MORF_DDB1	View Gene Set	0.0009181	220	0.003882	101	Neighborhood of DDB1	www.broad.mit.e...
Broad GCM_DENR	View Gene Set	0.001126	40	0.004716	102	Neighborhood of DENR	www.broad.mit.e...
Broad MORF_CTBP1	View Gene Set	0.001162	149	0.004751	103	Neighborhood of CTBP1	www.broad.mit.e...
Broad MORF_DDX11	View Gene Set	0.001168	138	0.004751	103	Neighborhood of DDX11	www.broad.mit.e...
Broad MORF_PTPN9	View Gene Set	0.001151	54	0.004751	103	Neighborhood of PTPN9	www.broad.mit.e...
Broad MORF_PPP1CC	View Gene Set	0.00133	150	0.005306	106	Neighborhood of PPP1CC	www.broad.mit.e...
Broad MORF_PPP2CA	View Gene Set	0.001323	110	0.005306	106	Neighborhood of PPP2CA	www.broad.mit.e...
Broad MORF_MSH2	View Gene Set	0.001355	52	0.005359	108	Neighborhood of MSH2	www.broad.mit.e...
Broad MORF_PAX7	View Gene Set	0.001416	251	0.005548	109	Neighborhood of PAX7	www.broad.mit.e...
Broad GNF2_CBFB	View Gene Set	0.001434	26	0.005566	110	Neighborhood of CBFB	www.broad.mit.e...
Broad MORF_XRCC5	View Gene Set	0.001452	210	0.005586	111	Neighborhood of XRCC5	www.broad.mit.e...
Broad MORF_SART1	View Gene Set	0.001471	55	0.005609	112	Neighborhood of SART1	www.broad.mit.e...
Broad GNF2_BNIP2	View Gene Set	0.00181	31	0.006839	113	Neighborhood of BNIP2	www.broad.mit.e...
Broad GCM_SMARCD1	View Gene Set	0.001828	101	0.006846	114	Neighborhood of SMARCD1	www.broad.mit.e...
Broad MORF_RAD21	View Gene Set	0.001936	157	0.007187	115	Neighborhood of RAD21	www.broad.mit.e...
Broad MORF_RUNX1	View Gene Set	0.00205	138	0.007547	116	Neighborhood of RUNX1	www.broad.mit.e...
Broad GNF2_XRCC5	View Gene Set	0.00213	61	0.007774	117	Neighborhood of XRCC5	www.broad.mit.e...
Broad MORF_LMO1	View Gene Set	0.002153	46	0.007789	118	Neighborhood of LMO1	www.broad.mit.e...
Broad GCM_SUPT4H1	View Gene Set	0.002232	58	0.00801	119	Neighborhood of SUPT4H1	www.broad.mit.e...
Broad GCM_ATM	View Gene Set	0.002281	24	0.008117	120	Neighborhood of ATM	www.broad.mit.e...
Broad MORF_TERF1	View Gene Set	0.002371	57	0.008368	121	Neighborhood of TERF1	www.broad.mit.e...
Broad GCM_MYCL1	View Gene Set	0.002634	24	0.009219	122	Neighborhood of MYCL1	www.broad.mit.e...
Broad MORF_TERF2IP	View Gene Set	0.002773	99	0.009626	123	Neighborhood of TERF2IP	www.broad.mit.e...
Broad MORF_CUL1	View Gene Set	0.003045	62	0.0104	124	Neighborhood of CUL1	www.broad.mit.e...
Broad GCM_MAX	View Gene Set	0.003032	28	0.0104	124	Neighborhood of MAX	www.broad.mit.e...
Broad MORF_FEN1	View Gene Set	0.003387	58	0.01148	126	Neighborhood of FEN1	www.broad.mit.e...
Broad GCM_AIP	View Gene Set	0.00359	36	0.01207	127	Neighborhood of AIP	www.broad.mit.e...
Broad MORF_JAK3	View Gene Set	0.00381	86	0.01271	128	Neighborhood of JAK3	www.broad.mit.e...
Broad MORF_CCNI	View Gene Set	0.004087	76	0.01353	129	Neighborhood of CCNI	www.broad.mit.e...
Broad GCM_HDAC1	View Gene Set	0.0047	30	0.01544	130	Neighborhood of HDAC1	www.broad.mit.e...
Broad MORF_EI24	View Gene Set	0.004751	136	0.01549	131	Neighborhood of EI24	www.broad.mit.e...
Broad MORF_UNG	View Gene Set	0.005195	65	0.0168	132	Neighborhood of UNG	www.broad.mit.e...
Broad MORF_CDK2	View Gene Set	0.005287	63	0.01683	133	Neighborhood of CDK2	www.broad.mit.e...
Broad GNF2_HPN	View Gene Set	0.005321	132	0.01683	133	Neighborhood of HPN	www.broad.mit.e...
Broad GNF2_RBBP6	View Gene Set	0.005243	54	0.01683	133	Neighborhood of RBBP6	www.broad.mit.e...
Broad MORF_NF1	View Gene Set	0.006211	158	0.0195	136	Neighborhood of NF1	www.broad.mit.e...
Broad GCM_PRKCG	View Gene Set	0.006264	60	0.01952	137	Neighborhood of PRKCG	www.broad.mit.e...
Broad MORF_CDC16	View Gene Set	0.006416	67	0.01985	138	Neighborhood of CDC16	www.broad.mit.e...
Broad MORF_MTA1	View Gene Set	0.006882	95	0.02114	139	Neighborhood of MTA1	www.broad.mit.e...
Broad GNF2_HPX	View Gene Set	0.007104	134	0.02167	140	Neighborhood of HPX	www.broad.mit.e...
Broad MORF_G22P1	View Gene Set	0.0079	145	0.02392	141	Neighborhood of G22P1	www.broad.mit.e...
Broad MORF_CCNF	View Gene Set	0.008273	65	0.02488	142	Neighborhood of CCNF	www.broad.mit.e...
Broad MORF_DAP3	View Gene Set	0.008666	175	0.02588	143	Neighborhood of DAP3	www.broad.mit.e...
Broad GCM_SMARCC1	View Gene Set	0.009062	33	0.02687	144	Neighborhood of SMARCC1	www.broad.mit.e...
Broad MORF_CSNK2B	View Gene Set	0.009726	256	0.02864	145	Neighborhood of CSNK2B	www.broad.mit.e...
Broad MORF_GSPT1	View Gene Set	0.009798	41	0.02866	146	Neighborhood of GSPT1	www.broad.mit.e...
Broad MORF_RPA1	View Gene Set	0.01049	55	0.02985	147	Neighborhood of RPA1	www.broad.mit.e...
Broad MORF_SP3	View Gene Set	0.01039	69	0.02985	147	Neighborhood of SP3	www.broad.mit.e...
Broad GCM_ANP32B	View Gene Set	0.01033	32	0.02985	147	Neighborhood of ANP32B	www.broad.mit.e...
Broad GNF2_GSTM1	View Gene Set	0.01046	108	0.02985	147	Neighborhood of GSTM1	www.broad.mit.e...
Broad MORF_HDAC1	View Gene Set	0.01073	222	0.03034	151	Neighborhood of HDAC1	www.broad.mit.e...
Broad MORF_SOD1	View Gene Set	0.01086	247	0.03051	152	Neighborhood of SOD1	www.broad.mit.e...
Broad MORF_ARL3	View Gene Set	0.01103	291	0.03077	153	Neighborhood of ARL3	www.broad.mit.e...
Broad GNF2_MSH6	View Gene Set	0.01199	30	0.03325	154	Neighborhood of MSH6	www.broad.mit.e...
Broad MORF_RFC1	View Gene Set	0.0129	98	0.03531	155	Neighborhood of RFC1	www.broad.mit.e...
Broad GNF2_CEBPA	View Gene Set	0.01285	64	0.03531	155	Neighborhood of CEBPA	www.broad.mit.e...
Broad MORF_MYC	View Gene Set	0.01325	71	0.03604	157	Neighborhood of MYC	www.broad.mit.e...
Broad GCM_NUMA1	View Gene Set	0.0141	45	0.0381	158	Neighborhood of NUMA1	www.broad.mit.e...
Broad GCM_DDX5	View Gene Set	0.0144	52	0.03868	159	Neighborhood of DDX5	www.broad.mit.e...
Broad GNF2_LCAT	View Gene Set	0.01471	123	0.03926	160	Neighborhood of LCAT	www.broad.mit.e...
Broad MORF_UBE2N	View Gene Set	0.01489	79	0.03948	161	Neighborhood of UBE2N	www.broad.mit.e...
Broad MORF_MYST2	View Gene Set	0.01512	60	0.03985	162	Neighborhood of MYST2	www.broad.mit.e...
Broad MORF_JAG1	View Gene Set	0.01582	87	0.04133	163	Neighborhood of JAG1	www.broad.mit.e...
Broad CAR_TNFRSF25	View Gene Set	0.01588	30	0.04133	163	Neighborhood of TNFRSF25	www.broad.mit.e...
Broad MORF_SS18	View Gene Set	0.0161	55	0.04167	165	Neighborhood of SS18	www.broad.mit.e...
Broad MORF_CASP10	View Gene Set	0.01923	109	0.04946	166	Neighborhood of CASP10	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_41	View Gene Set	2.641e-07	542	0.0001128	1	Genes in module_41	www.broad.mit.e...
Broad module_104	View Gene Set	4.969e-07	337	0.0001128	1	Genes in module_104	www.broad.mit.e...
Broad module_54	View Gene Set	1.678e-06	242	0.0002471	3	Genes in module_54	www.broad.mit.e...
Broad module_181	View Gene Set	2.177e-06	292	0.0002471	3	Genes in module_181	www.broad.mit.e...
Broad module_13	View Gene Set	3.941e-06	498	0.0003008	5	Genes in module_13	www.broad.mit.e...
Broad module_252	View Gene Set	3.975e-06	224	0.0003008	5	Genes in module_252	www.broad.mit.e...
Broad module_183	View Gene Set	5.539e-06	52	0.0003593	7	Genes in module_183	www.broad.mit.e...
Broad module_111	View Gene Set	1.606e-05	151	0.0008101	8	Genes in module_111	www.broad.mit.e...
Broad module_242	View Gene Set	1.52e-05	204	0.0008101	8	Genes in module_242	www.broad.mit.e...
Broad module_53	View Gene Set	2.182e-05	389	0.0009004	10	Genes in module_53	www.broad.mit.e...
Broad module_198	View Gene Set	2.004e-05	288	0.0009004	10	Genes in module_198	www.broad.mit.e...
Broad module_18	View Gene Set	3.46e-05	434	0.001309	12	Genes in module_18	www.broad.mit.e...
Broad module_16	View Gene Set	7.207e-05	495	0.002337	13	Genes in module_16	www.broad.mit.e...
Broad module_379	View Gene Set	7.089e-05	194	0.002337	13	Genes in module_379	www.broad.mit.e...
Broad module_403	View Gene Set	8.982e-05	44	0.002719	15	Genes in module_403	www.broad.mit.e...
Broad module_98	View Gene Set	0.0001068	375	0.003031	16	Genes in module_98	www.broad.mit.e...
Broad module_157	View Gene Set	0.0003081	105	0.008227	17	Genes in module_157	www.broad.mit.e...
Broad module_20	View Gene Set	0.0003291	81	0.008301	18	Genes in module_20	www.broad.mit.e...
Broad module_352	View Gene Set	0.0004339	17	0.01037	19	Genes in module_352	www.broad.mit.e...
Broad module_57	View Gene Set	0.0004953	54	0.01124	20	Genes in module_57	www.broad.mit.e...
Broad module_451	View Gene Set	0.001569	29	0.03391	21	Genes in module_451	www.broad.mit.e...
Broad module_17	View Gene Set	0.001698	351	0.03505	22	Genes in module_17	www.broad.mit.e...
Broad module_216	View Gene Set	0.002502	9	0.04938	23	Genes in module_216	www.broad.mit.e...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad M_PHASE_OF_MITOTIC_CELL_CYCLE	View Gene Set	8.618e-09	83	7.11e-06	1	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 MITOSIS	View Gene Set	2.395e-08	81	9.878e-06	2	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 MITOTIC_CELL_CYCLE	View Gene Set	1.145e-07	148	3.149e-05	3	Genes annotated by the GO term GO:0000278. Progression through the phases of the mitotic cell cycle the most common eukaryotic cell cycle which canonically comprises four successive phases called G1 S G2 and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division or G1 and G2 phases may be absent.	www.broad.mit.e...
Broad M_PHASE	View Gene Set	3.39e-07	111	6.992e-05	4	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 NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS	View Gene Set	9.507e-07	1197	0.0001569	5	Genes annotated by the GO term GO:0006139. The chemical reactions and pathways involving nucleobases nucleosides nucleotides and nucleic acids.	www.broad.mit.e...
Broad RNA_METABOLIC_PROCESS	View Gene Set	1.913e-06	801	0.000263	6	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 CELL_CYCLE_PROCESS	View Gene Set	9.687e-06	187	0.001069	7	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 CELL_CYCLE_PHASE	View Gene Set	1.037e-05	167	0.001069	7	Genes annotated by the GO term GO:0022403. A cell cycle process comprising the steps by which a cell progresses through one of the biochemical and morphological phases and events that occur during successive cell replication or nuclear replication events.	www.broad.mit.e...
Broad RNA_SPLICING	View Gene Set	6.827e-05	73	0.006258	9	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 MITOTIC_SISTER_CHROMATID_SEGREGATION	View Gene Set	9.918e-05	16	0.008183	10	Genes annotated by the GO term GO:0000070. The cell cycle process whereby replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome composed of two sister chromatids aligns at the cell equator paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets.	www.broad.mit.e...
Broad RNA_PROCESSING	View Gene Set	0.0001111	147	0.008333	11	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 SISTER_CHROMATID_SEGREGATION	View Gene Set	0.000138	17	0.009485	12	Genes annotated by the GO term GO:0000819. The process by which sister chromatids are organized and then physically separated and apportioned to two or more sets.	www.broad.mit.e...
Broad REGULATION_OF_GENE_EXPRESSION	View Gene Set	0.0001679	660	0.01065	13	Genes annotated by the GO term GO:0010468. Any process that modulates the frequency rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.	www.broad.mit.e...
Broad TRANSCRIPTION	View Gene Set	0.0003797	738	0.02088	14	Genes annotated by the GO term GO:0006350. The synthesis of either RNA on a template of DNA or DNA on a template of RNA.	www.broad.mit.e...
Broad CHROMOSOME_ORGANIZATION_AND_BIOGENESIS	View Gene Set	0.0003565	117	0.02088	14	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 VIRAL_INFECTIOUS_CYCLE	View Gene Set	0.0005416	32	0.02793	16	Genes annotated by the GO term GO:0019058. A set of processes which all viruses follow to ensure survival; includes attachment and entry of the virus particle decoding of genome information translation of viral mRNA by host ribosomes genome replication and assembly and release of viral particles containing the genome.	www.broad.mit.e...
Broad VIRAL_GENOME_REPLICATION	View Gene Set	0.0005787	21	0.02808	17	Genes annotated by the GO term GO:0019079. Any process involved directly in viral genome replication including viral nucleotide metabolism.	www.broad.mit.e...
Broad CHROMOSOME_SEGREGATION	View Gene Set	0.0006249	31	0.02864	18	Genes annotated by the GO term GO:0007059. The process by which genetic material in the form of chromosomes is organized and then physically separated and apportioned to two or more sets.	www.broad.mit.e...
Broad REGULATION_OF_TRANSCRIPTION	View Gene Set	0.0007918	555	0.03438	19	Genes annotated by the GO term GO:0045449. Any process that modulates the frequency rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.	www.broad.mit.e...
Broad POSITIVE_REGULATION_OF_CELLULAR_PROCESS	View Gene Set	0.0009513	644	0.03924	20	Genes annotated by the GO term GO:0048522. Any process that activates or increases the frequency rate or extent of cellular processes those that are carried out at the cellular level but are not necessarily restricted to a single cell. For example cell communication occurs among more than one cell but occurs at the cellular level.	www.broad.mit.e...
Broad CELL_CYCLE_GO_0007049	View Gene Set	0.001035	304	0.04066	21	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 VIRAL_REPRODUCTIVE_PROCESS	View Gene Set	0.001392	36	0.04831	22	Genes annotated by the GO term GO:0022415. A reproductive process involved in viral reproduction. Usually this is by infection of a host cell replication of the viral genome and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently under particular circumstances 'complete' its life cycle.	www.broad.mit.e...
Broad REGULATION_OF_NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS	View Gene Set	0.001365	601	0.04831	22	Genes annotated by the GO term GO:0019219. Any process that modulates the frequency rate or extent of the chemical reactions and pathways involving nucleobases nucleosides nucleotides and nucleic acids.	www.broad.mit.e...
Broad REGULATION_OF_VIRAL_REPRODUCTION	View Gene Set	0.001405	12	0.04831	22	Genes annotated by the GO term GO:0050792. Any process that modulates the rate or extent of the viral life cycle the set of processes by which a virus reproduces and spreads among hosts.	www.broad.mit.e...

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 Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad NUCLEUS	View Gene Set	6.645e-07	1353	0.0001548	1	Genes annotated by the GO term GO:0005634. A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells the nucleus contains all of the cell's chromosomes except the organellar chromosomes and is the site of RNA synthesis and processing. In some species or in specialized cell types RNA metabolism or DNA replication may be absent.	www.broad.mit.e...
Broad RIBONUCLEOPROTEIN_COMPLEX	View Gene Set	1.391e-05	129	0.00135	2	Genes annotated by the GO term GO:0030529. A macromolecular complex containing both protein and RNA molecules.	www.broad.mit.e...
Broad CHROMOSOMEPERICENTRIC_REGION	View Gene Set	2.317e-05	31	0.00135	2	Genes annotated by the GO term GO:0000775. The central region of a chromosome that includes the centromere and associated proteins. In monocentric chromosomes this region corresponds to a single area of the chromosome whereas in holocentric chromosomes it is evenly distributed along the chromosome.	www.broad.mit.e...
Broad CHROMOSOMAL_PART	View Gene Set	1.966e-05	95	0.00135	2	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 NUCLEAR_PART	View Gene Set	6.393e-05	543	0.002979	5	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 CHROMOSOME	View Gene Set	9.584e-05	122	0.003722	6	Genes annotated by the GO term GO:0005694. A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.	www.broad.mit.e...
Broad KINETOCHORE	View Gene Set	0.0001289	25	0.004289	7	Genes annotated by the GO term GO:0000776. A multisubunit complex that is located at the pericentric region of DNA and provides an attachment point for the spindle microtubules.	www.broad.mit.e...
Broad SPINDLE_MICROTUBULE	View Gene Set	0.0002913	15	0.008485	8	Genes annotated by the GO term GO:0005876. Any microtubule that is part of a mitotic or meiotic spindle; anchored at one spindle pole.	www.broad.mit.e...
Broad MACROMOLECULAR_COMPLEX	View Gene Set	0.0004201	914	0.01088	9	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 SPLICEOSOME	View Gene Set	0.001882	44	0.04385	10	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...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Broad TRANSCRIPTION_ACTIVATOR_ACTIVITY	View Gene Set	7.218e-07	169	0.0002858	1	Genes annotated by the GO term GO:0016563. Any transcription regulator activity required for initiation or upregulation of transcription.	www.broad.mit.e...
Broad DNA_BINDING	View Gene Set	4.065e-05	587	0.005865	2	Genes annotated by the GO term GO:0003677. Interacting selectively with DNA (deoxyribonucleic acid).	www.broad.mit.e...
Broad TRANSCRIPTION_COFACTOR_ACTIVITY	View Gene Set	4.443e-05	222	0.005865	2	Genes annotated by the GO term GO:0003712. The function that links a sequence-specific transcription factor to the core RNA polymerase II complex but does not bind DNA itself.	www.broad.mit.e...
Broad TRANSCRIPTION_COACTIVATOR_ACTIVITY	View Gene Set	7.93e-05	121	0.007851	4	Genes annotated by the GO term GO:0003713. The function of a transcription cofactor that activates transcription from a RNA polymerase II promoter; does not bind DNA itself.	www.broad.mit.e...
Broad SUBSTRATE_SPECIFIC_CHANNEL_ACTIVITY	View Gene Set	0.0001643	154	0.01084	5	Genes annotated by the GO term GO:0022838. Catalysis of energy-independent facilitated diffusion mediated by passage of a specific solute through a transmembrane aqueous pore or channel. Stereospecificity is not exhibited but this transport may be specific for a particular molecular species or class of molecules.	www.broad.mit.e...
Broad STEROID_HORMONE_RECEPTOR_BINDING	View Gene Set	0.0001382	10	0.01084	5	Genes annotated by the GO term GO:0035258. Interacting selectively with a steroid hormone receptor.	www.broad.mit.e...
Broad TRANSCRIPTION_FACTOR_BINDING	View Gene Set	0.0002075	300	0.01174	7	Genes annotated by the GO term GO:0008134. Interacting selectively with a transcription factor any protein required to initiate or regulate transcription.	www.broad.mit.e...
Broad CATION_CHANNEL_ACTIVITY	View Gene Set	0.0005238	118	0.01756	8	Genes annotated by the GO term GO:0005261. Catalysis of the energy-independent passage of cations across a lipid bilayer down a concentration gradient.	www.broad.mit.e...
Broad RNA_SPLICING_FACTOR_ACTIVITYTRANSESTERIFICATION_MECHANISM	View Gene Set	0.0005639	14	0.01756	8	Genes annotated by the GO term GO:0031202. An activity which binds RNA and functions to assist splicing of substrate RNA(s) by facilitating the formation and stabilization of a catalytic conformation in which the splice junctions of the RNA(s) to be spliced are positioned for a transesterification reaction that occurs between two sites within the RNA(s) to be spliced.	www.broad.mit.e...
Broad NUCLEAR_HORMONE_RECEPTOR_BINDING	View Gene Set	0.0005059	28	0.01756	8	Genes annotated by the GO term GO:0035257. Interacting selectively with a nuclear hormone receptor a ligand-dependent receptor found in the nucleus of the cell.	www.broad.mit.e...
Broad ION_CHANNEL_ACTIVITY	View Gene Set	0.0005765	147	0.01756	8	Genes annotated by the GO term GO:0005216. Catalysis of facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.	www.broad.mit.e...
Broad CHROMATIN_BINDING	View Gene Set	0.000473	32	0.01756	8	Genes annotated by the GO term GO:0003682. Interacting selectively with chromatin the network of fibers of DNA and protein that make up the chromosomes of the eukaryotic nucleus during interphase.	www.broad.mit.e...
Broad HORMONE_RECEPTOR_BINDING	View Gene Set	0.0003886	29	0.01756	8	Genes annotated by the GO term GO:0051427. Interacting selectively with a receptor for hormones.	www.broad.mit.e...
Broad GATED_CHANNEL_ACTIVITY	View Gene Set	0.0008916	121	0.02473	14	Genes annotated by the GO term GO:0022836. Catalysis of the transmembrane transfer of a solute by a channel that opens in response to a specific stimulus.	www.broad.mit.e...
Broad RNA_BINDING	View Gene Set	0.0009994	236	0.02473	14	Genes annotated by the GO term GO:0003723. Interacting selectively with an RNA molecule or a portion thereof.	www.broad.mit.e...
Broad NEUROTRANSMITTER_RECEPTOR_ACTIVITY	View Gene Set	0.000972	50	0.02473	14	Genes annotated by the GO term GO:0030594. Combining with a neurotransmitter to initiate a change in cell activity.	www.broad.mit.e...
Broad G_PROTEIN_COUPLED_RECEPTOR_ACTIVITY	View Gene Set	0.001158	185	0.02697	17	Genes annotated by the GO term GO:0004930. A receptor that binds an extracellular ligand and transmits the signal to a heterotrimeric G-protein complex. These receptors are characteristically seven-transmembrane receptors and are made up of hetero- or homodimers.	www.broad.mit.e...
Broad RHODOPSIN_LIKE_RECEPTOR_ACTIVITY	View Gene Set	0.001682	131	0.037	18	Genes annotated by the GO term GO:0001584. A G-protein coupled receptor that is structurally/functionally related to the rhodopsin receptor.	www.broad.mit.e...
Broad TRANSMEMBRANE_RECEPTOR_ACTIVITY	View Gene Set	0.001971	411	0.04108	19	Genes annotated by the GO term GO:0004888. Combining with an extracellular or intracellular messenger to initiate a change in cell activity and spanning to the membrane of either the cell or an organelle.	www.broad.mit.e...
Broad VOLTAGE_GATED_CATION_CHANNEL_ACTIVITY	View Gene Set	0.00217	66	0.04296	20	Genes annotated by the GO term GO:0022843. Catalysis of the transmembrane transfer of a cation by a voltage-gated channel. A cation is a positively charged ion.	www.broad.mit.e...
Broad NEUROTRANSMITTER_BINDING	View Gene Set	0.002619	53	0.04939	21	Genes annotated by the GO term GO:0042165. Interacting selectively with a neurotransmitter any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell.	www.broad.mit.e...

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
PMID 12706105	View Gene Set	9.172e-07	182	0.001964	1	Identification and characterization of over 100 mitochondrial ribosomal protein pseudogenes in the human genome.	www.ncbi.nlm.ni...
PMID 14559993	View Gene Set	1.621e-06	51	0.001964	1	Regulation of alternative splicing by SRrp86 and its interacting proteins.	www.ncbi.nlm.ni...
PMID 15302935	View Gene Set	2.35e-06	773	0.001964	1	Large-scale characterization of HeLa cell nuclear phosphoproteins.	www.ncbi.nlm.ni...
PMID 11991638	View Gene Set	4.844e-06	74	0.002429	4	Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis.	www.ncbi.nlm.ni...
PMID 12226669	View Gene Set	4.594e-06	108	0.002429	4	Comprehensive proteomic analysis of the human spliceosome.	www.ncbi.nlm.ni...
PMID 15461802	View Gene Set	1.1e-05	293	0.004595	6	A genome annotation-driven approach to cloning the human ORFeome.	www.ncbi.nlm.ni...
PMID 10591208	View Gene Set	1.616e-05	299	0.005789	7	The DNA sequence of human chromosome 22.	www.ncbi.nlm.ni...
PMID 11500380	View Gene Set	2.598e-05	10	0.008105	8	A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site.	www.ncbi.nlm.ni...
PMID 15504738	View Gene Set	2.91e-05	19	0.008105	8	Genes affecting the cell cycle growth maintenance and drug sensitivity are preferentially regulated by anti-HER2 antibody through phosphatidylinositol 3-kinase-AKT signaling.	www.ncbi.nlm.ni...
PMID 11543634	View Gene Set	3.233e-05	58	0.008105	10	The human mitochondrial ribosomal protein genes: mapping of 54 genes to the chromosomes and implications for human disorders.	www.ncbi.nlm.ni...
PMID 12837248	View Gene Set	3.694e-05	22	0.008419	11	The chromatin-remodeling complex WINAC targets a nuclear receptor to promoters and is impaired in Williams syndrome.	www.ncbi.nlm.ni...
PMID 12429849	View Gene Set	4.411e-05	106	0.008574	12	Functional proteomic analysis of human nucleolus.	www.ncbi.nlm.ni...
PMID 9731529	View Gene Set	4.446e-05	24	0.008574	12	Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex.	www.ncbi.nlm.ni...
PMID 11076961	View Gene Set	0.0001005	14	0.01399	14	Characterization of vertebrate cohesin complexes and their regulation in prophase.	www.ncbi.nlm.ni...
PMID 15635413	View Gene Set	9.898e-05	421	0.01399	14	Nucleolar proteome dynamics.	www.ncbi.nlm.ni...
PMID 17643375	View Gene Set	9.296e-05	391	0.01399	14	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 19047128	View Gene Set	8.183e-05	19	0.01399	14	Single nucleotide polymorphisms of microRNA machinery genes modify the risk of renal cell carcinoma.	www.ncbi.nlm.ni...
PMID 20516191	View Gene Set	8.607e-05	12	0.01399	14	A rational nomenclature for serine/arginine-rich protein splicing factors (SR proteins).	www.ncbi.nlm.ni...
PMID 15931389	View Gene Set	0.0001901	12	0.02508	19	Microarray analysis identifies a death-from-cancer signature predicting therapy failure in patients with multiple types of cancer.	www.ncbi.nlm.ni...
PMID 15146077	View Gene Set	0.0002513	32	0.0315	20	The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome.	www.ncbi.nlm.ni...
PMID 11279123	View Gene Set	0.0002709	31	0.03234	21	The small subunit of the mammalian mitochondrial ribosome. Identification of the full complement of ribosomal proteins present.	www.ncbi.nlm.ni...
PMID 18997788	View Gene Set	0.0002943	10	0.03353	22	The APC/C maintains the spindle assembly checkpoint by targeting Cdc20 for destruction.	www.ncbi.nlm.ni...
PMID 18485873	View Gene Set	0.0003304	13	0.03529	23	Mechanism of ubiquitin-chain formation by the human anaphase-promoting complex.	www.ncbi.nlm.ni...
PMID 19851445	View Gene Set	0.0003427	176	0.03529	23	High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions.	www.ncbi.nlm.ni...
PMID 8724849	View Gene Set	0.0003519	41	0.03529	23	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 19060904	View Gene Set	0.0004181	130	0.04031	26	An empirical framework for binary interactome mapping.	www.ncbi.nlm.ni...
PMID 11551941	View Gene Set	0.0004761	26	0.0442	27	The large subunit of the mammalian mitochondrial ribosome. Analysis of the complement of ribosomal proteins present.	www.ncbi.nlm.ni...
PMID 11285280	View Gene Set	0.0004979	62	0.04458	28	Anaphase-promoting complex/cyclosome-dependent proteolysis of human cyclin A starts at the beginning of mitosis and is not subject to the spindle assembly checkpoint.	www.ncbi.nlm.ni...
PMID 10983978	View Gene Set	0.0005932	10	0.04655	29	Direct coupling of transcription and mRNA processing through the thermogenic coactivator PGC-1.	www.ncbi.nlm.ni...
PMID 11018012	View Gene Set	0.0006128	11	0.04655	29	Functional selectivity of recombinant mammalian SWI/SNF subunits.	www.ncbi.nlm.ni...
PMID 15057824	View Gene Set	0.0005592	274	0.04655	29	The DNA sequence and biology of human chromosome 19.	www.ncbi.nlm.ni...
PMID 18162579	View Gene Set	0.0005824	22	0.04655	29	Identification of novel human Cdt1-binding proteins by a proteomics approach: proteolytic regulation by APC/CCdh1.	www.ncbi.nlm.ni...
PMID 9472028	View Gene Set	0.0006111	12	0.04655	29	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...

Gene Set Collection: Prosite

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.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 PS50102	View Gene Set	5.6e-14	229	4.116e-11	1	RRM	expasy.org/pros...
Null PS00028	View Gene Set	0.0001164	830	0.01956	2	ZINC_FINGER_C2H2_1	expasy.org/pros...
Null PS00237	View Gene Set	0.0001667	555	0.01956	2	G_PROTEIN_RECEP_F1_1	expasy.org/pros...
Null PS50014	View Gene Set	0.0002231	41	0.01956	2	BROMODOMAIN_2	expasy.org/pros...
Null PS50051	View Gene Set	0.0002396	8	0.01956	2	MCM_2	expasy.org/pros...
Null PS50157	View Gene Set	6.251e-05	811	0.01956	2	ZINC_FINGER_C2H2_2	expasy.org/pros...
Null PS50168	View Gene Set	0.0002266	7	0.01956	2	DED	expasy.org/pros...
Null PS50262	View Gene Set	0.0001148	765	0.01956	2	G_PROTEIN_RECEP_F1_2	expasy.org/pros...
Null PS50280	View Gene Set	0.0002388	47	0.01956	2	SET	expasy.org/pros...
Null PS00847	View Gene Set	0.00047	6	0.03455	10	MCM_1	expasy.org/pros...
Null PS50240	View Gene Set	0.0005743	122	0.03837	11	TRYPSIN_DOM	expasy.org/pros...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.WBP4	View Gene Set	2.275e-06	35	0.005226	1	Protein-protein-interaction for WBP4	www.ncbi.nlm.ni...
Null ppi.155871	View Gene Set	5.695e-06	236	0.00654	2	Protein-protein-interaction for 155871	www.ncbi.nlm.ni...
Null ppi.PRPF40A	View Gene Set	9.142e-06	53	0.007	3	Protein-protein-interaction for PRPF40A	www.ncbi.nlm.ni...
Null ppi.HIST1H4A	View Gene Set	2.172e-05	28	0.01248	4	Protein-protein-interaction for HIST1H4A	www.ncbi.nlm.ni...
Null ppi.MEPCE	View Gene Set	3.852e-05	147	0.01769	5	Protein-protein-interaction for MEPCE	www.ncbi.nlm.ni...
Null ppi.SRRM1	View Gene Set	6.989e-05	64	0.02676	6	Protein-protein-interaction for SRRM1	www.ncbi.nlm.ni...
Null ppi.DEDD2	View Gene Set	0.0001379	10	0.04102	7	Protein-protein-interaction for DEDD2	www.ncbi.nlm.ni...
Null ppi.CDC16	View Gene Set	0.0001429	10	0.04102	7	Protein-protein-interaction for CDC16	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.SFRS12	View Gene Set	1.23e-06	49	0.00292	1	Protein-protein-interaction for SFRS12	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null ppi.SFRS12	View Gene Set	7.736e-07	50	0.001451	1	Protein-protein-interaction for SFRS12	www.ncbi.nlm.ni...
Null ppi.PRPF40A	View Gene Set	8.074e-07	96	0.001451	1	Protein-protein-interaction for PRPF40A	www.ncbi.nlm.ni...
Null ppi.WBP4	View Gene Set	2.275e-06	35	0.002632	3	Protein-protein-interaction for WBP4	www.ncbi.nlm.ni...
Null ppi.155871	View Gene Set	2.929e-06	251	0.002632	3	Protein-protein-interaction for 155871	www.ncbi.nlm.ni...
Null ppi.MEPCE	View Gene Set	3.852e-05	147	0.02769	5	Protein-protein-interaction for MEPCE	www.ncbi.nlm.ni...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null mRNA Splicing - Major Pathway	View Gene Set	9.004e-06	107	0.002012	1	REACTOME - mRNA Splicing - Major Pathway gene set	www.pathwaycomm...
Null mRNA Splicing	View Gene Set	9.004e-06	107	0.002012	1	REACTOME - mRNA Splicing gene set	www.pathwaycomm...
Null Processing of Capped Intron-Containing Pre-mRNA	View Gene Set	5.302e-06	138	0.002012	1	REACTOME - Processing of Capped Intron-Containing Pre-mRNA gene set	www.pathwaycomm...
Null Mitotic M-M/G1 phases	View Gene Set	8.453e-06	180	0.002012	1	REACTOME - Mitotic M-M/G1 phases gene set	www.pathwaycomm...
Null Phosphorylation of the APC/C	View Gene Set	7.786e-06	26	0.002012	1	REACTOME - Phosphorylation of the APC/C gene set	www.pathwaycomm...
Null DNA Replication	View Gene Set	1.253e-05	200	0.002333	6	REACTOME - DNA Replication gene set	www.pathwaycomm...
Null M Phase	View Gene Set	2.828e-05	90	0.004156	7	REACTOME - M Phase gene set	www.pathwaycomm...
Null Phosphorylation of Emi1	View Gene Set	2.976e-05	12	0.004156	7	REACTOME - Phosphorylation of Emi1 gene set	www.pathwaycomm...
Null mRNA Processing	View Gene Set	4.603e-05	158	0.005713	9	REACTOME - mRNA Processing gene set	www.pathwaycomm...
Null Mitotic Prometaphase	View Gene Set	7.524e-05	86	0.008404	10	REACTOME - Mitotic Prometaphase gene set	www.pathwaycomm...
Null Post-Elongation Processing of Intron-Containing pre-mRNA	View Gene Set	0.0001142	34	0.01063	11	REACTOME - Post-Elongation Processing of Intron-Containing pre-mRNA gene set	www.pathwaycomm...
Null mRNA 3'-end processing	View Gene Set	0.0001142	34	0.01063	11	REACTOME - mRNA 3'-end processing gene set	www.pathwaycomm...
Null Transport of Mature mRNA derived from an Intron-Containing Transcript	View Gene Set	0.000184	51	0.01335	13	REACTOME - Transport of Mature mRNA derived from an Intron-Containing Transcript gene set	www.pathwaycomm...
Null Formation and Maturation of mRNA Transcript	View Gene Set	0.0001838	185	0.01335	13	REACTOME - Formation and Maturation of mRNA Transcript gene set	www.pathwaycomm...
Null Polo-like kinase mediated events	View Gene Set	0.0001913	10	0.01335	13	REACTOME - Polo-like kinase mediated events gene set	www.pathwaycomm...
Null GPCR ligand binding	View Gene Set	0.0001702	339	0.01335	13	REACTOME - GPCR ligand binding gene set	www.pathwaycomm...
Null Post-Elongation Processing of the Transcript	View Gene Set	0.0002501	43	0.01397	17	REACTOME - Post-Elongation Processing of the Transcript gene set	www.pathwaycomm...
Null Cleavage of Growing Transcript in the Termination Region	View Gene Set	0.0002501	43	0.01397	17	REACTOME - Cleavage of Growing Transcript in the Termination Region gene set	www.pathwaycomm...
Null RNA Polymerase II Transcription Termination	View Gene Set	0.0002501	43	0.01397	17	REACTOME - RNA Polymerase II Transcription Termination gene set	www.pathwaycomm...
Null Activation of APC/C and APC/C:Cdc20 mediated degradation of mitotic proteins	View Gene Set	0.000247	86	0.01397	17	REACTOME - Activation of APC/C and APC/C:Cdc20 mediated degradation of mitotic proteins gene set	www.pathwaycomm...
Null Regulation of mitotic cell cycle	View Gene Set	0.0002816	95	0.0143	21	REACTOME - Regulation of mitotic cell cycle gene set	www.pathwaycomm...
Null APC/C-mediated degradation of cell cycle proteins	View Gene Set	0.0002816	95	0.0143	21	REACTOME - APC/C-mediated degradation of cell cycle proteins gene set	www.pathwaycomm...
Null Deadenylation of mRNA	View Gene Set	0.000482	22	0.02341	23	REACTOME - Deadenylation of mRNA gene set	www.pathwaycomm...
Null Mitotic Metaphase/Anaphase Transition	View Gene Set	0.0005934	8	0.02651	24	REACTOME - Mitotic Metaphase/Anaphase Transition gene set	www.pathwaycomm...
Null Regulation of APC/C activators between G1/S and early anaphase	View Gene Set	0.0005745	88	0.02651	24	REACTOME - Regulation of APC/C activators between G1/S and early anaphase gene set	www.pathwaycomm...
Null Transport of Mature Transcript to Cytoplasm	View Gene Set	0.0008099	55	0.03422	26	REACTOME - Transport of Mature Transcript to Cytoplasm gene set	www.pathwaycomm...
Null Class A/1 (Rhodopsin-like receptors)	View Gene Set	0.0008273	277	0.03422	26	REACTOME - Class A/1 (Rhodopsin-like receptors) gene set	www.pathwaycomm...
Null Pyrimidine biosynthesis	View Gene Set	0.001079	6	0.04281	28	REACTOME - Pyrimidine biosynthesis gene set	www.pathwaycomm...
Null Mitotic Telophase /Cytokinesis	View Gene Set	0.001111	10	0.04281	28	REACTOME - Mitotic Telophase /Cytokinesis gene set	www.pathwaycomm...

Gene Set Collection: miranda.targets

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 Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null hsa-miR-615-5p	View Gene Set	1.946e-05	1189	0.01318	1	microRNA targets for hsa-miR-615-5p from miranda.targets	www.mirbase.org...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null hsa-miR-769-3p	View Gene Set	1.731e-09	823	1.23e-06	1	microRNA targets for hsa-miR-769-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-296-3p	View Gene Set	8.926e-08	905	3.173e-05	2	microRNA targets for hsa-miR-296-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-760	View Gene Set	3.255e-07	690	7.715e-05	3	microRNA targets for hsa-miR-760 from mirbase.targets	www.mirbase.org...
Null hsa-miR-502-5p	View Gene Set	5.758e-07	730	0.0001023	4	microRNA targets for hsa-miR-502-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-615-5p	View Gene Set	1.153e-06	848	0.0001366	5	microRNA targets for hsa-miR-615-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-637	View Gene Set	9.978e-07	672	0.0001366	5	microRNA targets for hsa-miR-637 from mirbase.targets	www.mirbase.org...
Null hsa-miR-767-3p	View Gene Set	2.317e-06	784	0.000234	7	microRNA targets for hsa-miR-767-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-877	View Gene Set	2.632e-06	668	0.000234	7	microRNA targets for hsa-miR-877 from mirbase.targets	www.mirbase.org...
Null hsa-miR-422a	View Gene Set	3.395e-06	755	0.0002682	9	microRNA targets for hsa-miR-422a from mirbase.targets	www.mirbase.org...
Null hsa-miR-671-3p	View Gene Set	4.213e-06	767	0.0002995	10	microRNA targets for hsa-miR-671-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-125a-3p	View Gene Set	5.696e-06	829	0.0003382	11	microRNA targets for hsa-miR-125a-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-611	View Gene Set	5.708e-06	671	0.0003382	11	microRNA targets for hsa-miR-611 from mirbase.targets	www.mirbase.org...
Null hsa-miR-339-5p	View Gene Set	9.4e-06	659	0.0005141	13	microRNA targets for hsa-miR-339-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-324-3p	View Gene Set	1.203e-05	788	0.0006111	14	microRNA targets for hsa-miR-324-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-550	View Gene Set	2.141e-05	669	0.0009516	15	microRNA targets for hsa-miR-550 from mirbase.targets	www.mirbase.org...
Null hsa-miR-920	View Gene Set	2.141e-05	661	0.0009516	15	microRNA targets for hsa-miR-920 from mirbase.targets	www.mirbase.org...
Null hsa-miR-28-5p	View Gene Set	2.298e-05	780	0.000961	17	microRNA targets for hsa-miR-28-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-125b	View Gene Set	2.86e-05	831	0.001093	18	microRNA targets for hsa-miR-125b from mirbase.targets	www.mirbase.org...
Null hsa-miR-296-5p	View Gene Set	3.075e-05	755	0.001093	18	microRNA targets for hsa-miR-296-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-331-3p	View Gene Set	2.978e-05	712	0.001093	18	microRNA targets for hsa-miR-331-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-214	View Gene Set	4.346e-05	797	0.001471	21	microRNA targets for hsa-miR-214 from mirbase.targets	www.mirbase.org...
Null hsa-miR-634	View Gene Set	5.288e-05	714	0.001709	22	microRNA targets for hsa-miR-634 from mirbase.targets	www.mirbase.org...
Null hsa-miR-646	View Gene Set	7.996e-05	745	0.002472	23	microRNA targets for hsa-miR-646 from mirbase.targets	www.mirbase.org...
Null hsa-miR-15a*	View Gene Set	9.156e-05	554	0.002604	24	microRNA targets for hsa-miR-15a* from mirbase.targets	www.mirbase.org...
Null hsa-miR-31	View Gene Set	9.136e-05	683	0.002604	24	microRNA targets for hsa-miR-31 from mirbase.targets	www.mirbase.org...
Null hsa-miR-330-5p	View Gene Set	9.583e-05	728	0.002621	26	microRNA targets for hsa-miR-330-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-450b-3p	View Gene Set	0.0001265	738	0.003217	27	microRNA targets for hsa-miR-450b-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-593	View Gene Set	0.0001267	556	0.003217	27	microRNA targets for hsa-miR-593 from mirbase.targets	www.mirbase.org...
Null hsa-miR-508-5p	View Gene Set	0.0001398	572	0.003427	29	microRNA targets for hsa-miR-508-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-505*	View Gene Set	0.000152	516	0.003602	30	microRNA targets for hsa-miR-505* from mirbase.targets	www.mirbase.org...
Null hsa-miR-769-5p	View Gene Set	0.0001624	790	0.003725	31	microRNA targets for hsa-miR-769-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-554	View Gene Set	0.0001854	708	0.004119	32	microRNA targets for hsa-miR-554 from mirbase.targets	www.mirbase.org...
Null hsa-miR-196a*	View Gene Set	0.0002603	526	0.005443	33	microRNA targets for hsa-miR-196a* from mirbase.targets	www.mirbase.org...
Null hsa-miR-708	View Gene Set	0.0002554	685	0.005443	33	microRNA targets for hsa-miR-708 from mirbase.targets	www.mirbase.org...
Null hsa-miR-939	View Gene Set	0.0003034	667	0.006163	35	microRNA targets for hsa-miR-939 from mirbase.targets	www.mirbase.org...
Null hsa-miR-194*	View Gene Set	0.0003142	502	0.006206	36	microRNA targets for hsa-miR-194* from mirbase.targets	www.mirbase.org...
Null hsa-miR-125a-5p	View Gene Set	0.0003544	817	0.006299	37	microRNA targets for hsa-miR-125a-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-328	View Gene Set	0.0003543	685	0.006299	37	microRNA targets for hsa-miR-328 from mirbase.targets	www.mirbase.org...
Null hsa-miR-339-3p	View Gene Set	0.0003415	797	0.006299	37	microRNA targets for hsa-miR-339-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-654-5p	View Gene Set	0.0003342	718	0.006299	37	microRNA targets for hsa-miR-654-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-193a-5p	View Gene Set	0.0003812	767	0.006611	41	microRNA targets for hsa-miR-193a-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-146b-3p	View Gene Set	0.0004166	695	0.006995	42	microRNA targets for hsa-miR-146b-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-886-5p	View Gene Set	0.0004231	793	0.006995	42	microRNA targets for hsa-miR-886-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-18a*	View Gene Set	0.0004401	491	0.007112	44	microRNA targets for hsa-miR-18a* from mirbase.targets	www.mirbase.org...
Null hsa-miR-30b*	View Gene Set	0.0004585	655	0.007244	45	microRNA targets for hsa-miR-30b* from mirbase.targets	www.mirbase.org...
Null hsa-miR-345	View Gene Set	0.0005273	696	0.00815	46	microRNA targets for hsa-miR-345 from mirbase.targets	www.mirbase.org...
Null hsa-miR-541	View Gene Set	0.0006519	711	0.009861	47	microRNA targets for hsa-miR-541 from mirbase.targets	www.mirbase.org...
Null hsa-miR-455-5p	View Gene Set	0.0007919	739	0.01123	48	microRNA targets for hsa-miR-455-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-612	View Gene Set	0.0008157	685	0.01123	48	microRNA targets for hsa-miR-612 from mirbase.targets	www.mirbase.org...
Null hsa-miR-615-3p	View Gene Set	0.0007824	757	0.01123	48	microRNA targets for hsa-miR-615-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-874	View Gene Set	0.0008214	722	0.01123	48	microRNA targets for hsa-miR-874 from mirbase.targets	www.mirbase.org...
Null hsa-miR-886-3p	View Gene Set	0.0007783	745	0.01123	48	microRNA targets for hsa-miR-886-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-326	View Gene Set	0.0009012	650	0.01172	53	microRNA targets for hsa-miR-326 from mirbase.targets	www.mirbase.org...
Null hsa-miR-638	View Gene Set	0.0008927	639	0.01172	53	microRNA targets for hsa-miR-638 from mirbase.targets	www.mirbase.org...
Null hsa-miR-671-5p	View Gene Set	0.0009065	813	0.01172	53	microRNA targets for hsa-miR-671-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-30c-1*	View Gene Set	0.0009814	741	0.01181	56	microRNA targets for hsa-miR-30c-1* from mirbase.targets	www.mirbase.org...
Null hsa-miR-378	View Gene Set	0.0009876	720	0.01181	56	microRNA targets for hsa-miR-378 from mirbase.targets	www.mirbase.org...
Null hsa-miR-378*	View Gene Set	0.0009305	686	0.01181	56	microRNA targets for hsa-miR-378* from mirbase.targets	www.mirbase.org...
Null hsa-miR-647	View Gene Set	0.0009678	724	0.01181	56	microRNA targets for hsa-miR-647 from mirbase.targets	www.mirbase.org...
Null hsa-miR-941	View Gene Set	0.0009968	590	0.01181	56	microRNA targets for hsa-miR-941 from mirbase.targets	www.mirbase.org...
Null hsa-miR-105*	View Gene Set	0.001093	540	0.01269	61	microRNA targets for hsa-miR-105* from mirbase.targets	www.mirbase.org...
Null hsa-miR-23a*	View Gene Set	0.001139	604	0.01269	61	microRNA targets for hsa-miR-23a* from mirbase.targets	www.mirbase.org...
Null hsa-miR-596	View Gene Set	0.001144	644	0.01269	61	microRNA targets for hsa-miR-596 from mirbase.targets	www.mirbase.org...
Null hsa-miR-644	View Gene Set	0.00116	692	0.01269	61	microRNA targets for hsa-miR-644 from mirbase.targets	www.mirbase.org...
Null hsa-miR-92a-2*	View Gene Set	0.001145	654	0.01269	61	microRNA targets for hsa-miR-92a-2* from mirbase.targets	www.mirbase.org...
Null hsa-miR-24-2*	View Gene Set	0.001241	581	0.01336	66	microRNA targets for hsa-miR-24-2* from mirbase.targets	www.mirbase.org...
Null hsa-miR-423-5p	View Gene Set	0.001284	767	0.01362	67	microRNA targets for hsa-miR-423-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-106b*	View Gene Set	0.001324	562	0.01376	68	microRNA targets for hsa-miR-106b* from mirbase.targets	www.mirbase.org...
Null hsa-miR-423-3p	View Gene Set	0.001335	741	0.01376	68	microRNA targets for hsa-miR-423-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-662	View Gene Set	0.001463	663	0.01486	70	microRNA targets for hsa-miR-662 from mirbase.targets	www.mirbase.org...
Null hsa-miR-149	View Gene Set	0.001539	602	0.01541	71	microRNA targets for hsa-miR-149 from mirbase.targets	www.mirbase.org...
Null hsa-miR-188-3p	View Gene Set	0.001625	637	0.01604	72	microRNA targets for hsa-miR-188-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-299-3p	View Gene Set	0.002001	732	0.01942	73	microRNA targets for hsa-miR-299-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-770-5p	View Gene Set	0.002021	702	0.01942	73	microRNA targets for hsa-miR-770-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-619	View Gene Set	0.002053	674	0.01947	75	microRNA targets for hsa-miR-619 from mirbase.targets	www.mirbase.org...
Null hsa-miR-185*	View Gene Set	0.002155	506	0.01951	76	microRNA targets for hsa-miR-185* from mirbase.targets	www.mirbase.org...
Null hsa-miR-220c	View Gene Set	0.002118	831	0.01951	76	microRNA targets for hsa-miR-220c from mirbase.targets	www.mirbase.org...
Null hsa-miR-30c-2*	View Gene Set	0.002196	758	0.01951	76	microRNA targets for hsa-miR-30c-2* from mirbase.targets	www.mirbase.org...
Null hsa-miR-452*	View Gene Set	0.002156	532	0.01951	76	microRNA targets for hsa-miR-452* from mirbase.targets	www.mirbase.org...
Null hsa-miR-765	View Gene Set	0.002192	674	0.01951	76	microRNA targets for hsa-miR-765 from mirbase.targets	www.mirbase.org...
Null hsa-miR-675	View Gene Set	0.002281	686	0.02002	81	microRNA targets for hsa-miR-675 from mirbase.targets	www.mirbase.org...
Null hsa-miR-184	View Gene Set	0.002338	713	0.02027	82	microRNA targets for hsa-miR-184 from mirbase.targets	www.mirbase.org...
Null hsa-miR-566	View Gene Set	0.002585	787	0.02188	83	microRNA targets for hsa-miR-566 from mirbase.targets	www.mirbase.org...
Null hsa-miR-604	View Gene Set	0.002565	691	0.02188	83	microRNA targets for hsa-miR-604 from mirbase.targets	www.mirbase.org...
Null hsa-miR-323-5p	View Gene Set	0.002708	763	0.02218	85	microRNA targets for hsa-miR-323-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-623	View Gene Set	0.002714	693	0.02218	85	microRNA targets for hsa-miR-623 from mirbase.targets	www.mirbase.org...
Null hsa-miR-766	View Gene Set	0.002671	517	0.02218	85	microRNA targets for hsa-miR-766 from mirbase.targets	www.mirbase.org...
Null hsa-miR-26b*	View Gene Set	0.003136	555	0.02465	88	microRNA targets for hsa-miR-26b* from mirbase.targets	www.mirbase.org...
Null hsa-miR-516a-5p	View Gene Set	0.003081	788	0.02465	88	microRNA targets for hsa-miR-516a-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-516b	View Gene Set	0.003155	845	0.02465	88	microRNA targets for hsa-miR-516b from mirbase.targets	www.mirbase.org...
Null hsa-miR-551a	View Gene Set	0.003087	676	0.02465	88	microRNA targets for hsa-miR-551a from mirbase.targets	www.mirbase.org...
Null hsa-miR-602	View Gene Set	0.003274	710	0.0253	92	microRNA targets for hsa-miR-602 from mirbase.targets	www.mirbase.org...
Null hsa-miR-211	View Gene Set	0.003706	554	0.02774	93	microRNA targets for hsa-miR-211 from mirbase.targets	www.mirbase.org...
Null hsa-miR-542-5p	View Gene Set	0.003679	774	0.02774	93	microRNA targets for hsa-miR-542-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-631	View Gene Set	0.00365	714	0.02774	93	microRNA targets for hsa-miR-631 from mirbase.targets	www.mirbase.org...
Null hsa-miR-432	View Gene Set	0.004216	691	0.03122	96	microRNA targets for hsa-miR-432 from mirbase.targets	www.mirbase.org...
Null hsa-miR-181a-2*	View Gene Set	0.005056	742	0.03706	97	microRNA targets for hsa-miR-181a-2* from mirbase.targets	www.mirbase.org...
Null hsa-miR-197	View Gene Set	0.005184	609	0.03741	98	microRNA targets for hsa-miR-197 from mirbase.targets	www.mirbase.org...
Null hsa-miR-875-3p	View Gene Set	0.005208	739	0.03741	98	microRNA targets for hsa-miR-875-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-218-2*	View Gene Set	0.005415	641	0.03782	100	microRNA targets for hsa-miR-218-2* from mirbase.targets	www.mirbase.org...
Null hsa-miR-650	View Gene Set	0.005347	693	0.03782	100	microRNA targets for hsa-miR-650 from mirbase.targets	www.mirbase.org...
Null hsa-miR-885-3p	View Gene Set	0.005426	799	0.03782	100	microRNA targets for hsa-miR-885-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-186*	View Gene Set	0.005505	485	0.038	103	microRNA targets for hsa-miR-186* from mirbase.targets	www.mirbase.org...
Null hsa-miR-486-3p	View Gene Set	0.005693	773	0.03892	104	microRNA targets for hsa-miR-486-3p from mirbase.targets	www.mirbase.org...
Null hsa-miR-370	View Gene Set	0.005765	710	0.03904	105	microRNA targets for hsa-miR-370 from mirbase.targets	www.mirbase.org...
Null hsa-miR-362-5p	View Gene Set	0.005856	815	0.03928	106	microRNA targets for hsa-miR-362-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-221*	View Gene Set	0.00594	525	0.03947	107	microRNA targets for hsa-miR-221* from mirbase.targets	www.mirbase.org...
Null hsa-miR-150	View Gene Set	0.006056	595	0.03987	108	microRNA targets for hsa-miR-150 from mirbase.targets	www.mirbase.org...
Null hsa-miR-25*	View Gene Set	0.006145	418	0.04008	109	microRNA targets for hsa-miR-25* from mirbase.targets	www.mirbase.org...
Null hsa-miR-518c*	View Gene Set	0.006224	606	0.04023	110	microRNA targets for hsa-miR-518c* from mirbase.targets	www.mirbase.org...
Null hsa-miR-504	View Gene Set	0.006419	621	0.04111	111	microRNA targets for hsa-miR-504 from mirbase.targets	www.mirbase.org...
Null hsa-miR-195	View Gene Set	0.006684	714	0.04243	112	microRNA targets for hsa-miR-195 from mirbase.targets	www.mirbase.org...
Null hsa-miR-557	View Gene Set	0.006852	748	0.04275	113	microRNA targets for hsa-miR-557 from mirbase.targets	www.mirbase.org...
Null hsa-miR-564	View Gene Set	0.006855	706	0.04275	113	microRNA targets for hsa-miR-564 from mirbase.targets	www.mirbase.org...
Null hsa-miR-892b	View Gene Set	0.007161	726	0.04428	115	microRNA targets for hsa-miR-892b from mirbase.targets	www.mirbase.org...
Null hsa-miR-24-1*	View Gene Set	0.007381	581	0.04524	116	microRNA targets for hsa-miR-24-1* from mirbase.targets	www.mirbase.org...
Null hsa-miR-125b-1*	View Gene Set	0.007887	622	0.04793	117	microRNA targets for hsa-miR-125b-1* from mirbase.targets	www.mirbase.org...
Null hsa-miR-555	View Gene Set	0.00804	690	0.04844	118	microRNA targets for hsa-miR-555 from mirbase.targets	www.mirbase.org...
Null hsa-miR-329	View Gene Set	0.008305	652	0.04962	119	microRNA targets for hsa-miR-329 from mirbase.targets	www.mirbase.org...
Null hsa-miR-501-5p	View Gene Set	0.008451	749	0.04966	120	microRNA targets for hsa-miR-501-5p from mirbase.targets	www.mirbase.org...
Null hsa-miR-565	View Gene Set	0.008438	689	0.04966	120	microRNA targets for hsa-miR-565 from mirbase.targets	www.mirbase.org...

Gene Set Name	GeneSetDescription	Value	Gene Set Size	Corrected Value	Ranking	Description	URL
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-615-5p	View Gene Set	4.681e-09	1865	1.083e-05	1	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-615-5p from miRNAtargetUnion	www.mirbase.org...
Null mirbase.mirtarget2.targetscan.targetsUnion.hsa-miR-296-3p	View Gene Set	3.44e-06	1042	0.00398	2	microRNA targets for mirbase.mirtarget2.targetscan.targetsUnion.hsa-miR-296-3p from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-654-5p	View Gene Set	1.196e-05	1681	0.009225	3	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-654-5p from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-920	View Gene Set	1.993e-05	1935	0.01153	4	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-920 from miRNAtargetUnion	www.mirbase.org...
Null mirbase.pictar.targetscan.targetsUnion.hsa-miR-328	View Gene Set	5.997e-05	916	0.02775	5	microRNA targets for mirbase.pictar.targetscan.targetsUnion.hsa-miR-328 from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-615-3p	View Gene Set	0.0001285	1113	0.04345	6	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-615-3p from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.targetscan.targetsUnion.hsa-miR-615-3p	View Gene Set	0.0001315	1112	0.04345	6	microRNA targets for miranda.mirbase.targetscan.targetsUnion.hsa-miR-615-3p from miRNAtargetUnion	www.mirbase.org...
Null mirbase.mirtarget2.targetscan.targetsUnion.hsa-miR-422a	View Gene Set	0.0001548	955	0.04477	8	microRNA targets for mirbase.mirtarget2.targetscan.targetsUnion.hsa-miR-422a from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-611	View Gene Set	0.0002573	1017	0.04587	9	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-611 from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-661	View Gene Set	0.0001824	2615	0.04587	9	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-661 from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-744	View Gene Set	0.0002314	1378	0.04587	9	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-744 from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-760	View Gene Set	0.0002142	2252	0.04587	9	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-760 from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-939	View Gene Set	0.0002577	2729	0.04587	9	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-939 from miRNAtargetUnion	www.mirbase.org...
Null miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-604	View Gene Set	0.0002983	1079	0.04693	14	microRNA targets for miranda.mirbase.mirtarget2.targetsUnion.hsa-miR-604 from miRNAtargetUnion	www.mirbase.org...
Null mirbase.mirtarget2.pictar.targetsUnion.hsa-miR-326	View Gene Set	0.0003042	1066	0.04693	14	microRNA targets for mirbase.mirtarget2.pictar.targetsUnion.hsa-miR-326 from miRNAtargetUnion	www.mirbase.org...

Results

AFA results for: TSA.ls

Gene Set Collection: KEGG

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

Gene Set Collection: GO

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

Gene Set Collection: Broad.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: Prosite

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.reactome

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

Gene Set Collection: miranda.targets

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: miRNAtargetUnion

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