Results

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Go to: Gene Set Collection: KEGG
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Go to: Gene Set Collection: hprdManual.DIFFERENT

AFA results for: VPA5e04.ls

Click on the heading for any column to sort by that column.

Gene Set Collection: KEGG

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
KEGG 01100 View Gene Set 1.064e-08 1120 2.278e-06 1 Metabolic pathways www.genome.jp/d...
KEGG 00980 View Gene Set 2.723e-05 71 0.00203 2 Metabolism of xenobiotics by cytochrome P450 www.genome.jp/d...
KEGG 00982 View Gene Set 3.319e-05 73 0.00203 2 Drug metabolism - cytochrome P450 www.genome.jp/d...
KEGG 04146 View Gene Set 3.794e-05 78 0.00203 2 Peroxisome www.genome.jp/d...
KEGG 00480 View Gene Set 7.211e-05 50 0.003086 5 Glutathione metabolism www.genome.jp/d...
KEGG 04142 View Gene Set 0.0005388 121 0.01922 6 Lysosome www.genome.jp/d...
KEGG 04145 View Gene Set 0.001295 158 0.03958 7 Phagosome www.genome.jp/d...
KEGG 00100 View Gene Set 0.002047 17 0.04261 8 Steroid biosynthesis www.genome.jp/d...
KEGG 00190 View Gene Set 0.001836 134 0.04261 8 Oxidative phosphorylation www.genome.jp/d...
KEGG 00260 View Gene Set 0.002389 31 0.04261 8 Glycine serine and threonine metabolism www.genome.jp/d...
KEGG 00533 View Gene Set 0.001755 15 0.04261 8 Glycosaminoglycan biosynthesis - keratan sulfate www.genome.jp/d...
KEGG 04966 View Gene Set 0.002244 27 0.04261 8 Collecting duct acid secretion www.genome.jp/d...
KEGG 01040 View Gene Set 0.002655 21 0.04371 13 Biosynthesis of unsaturated fatty acids www.genome.jp/d...

Gene Set Collection: GO

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
GO GO:0016020 View Gene Set 1.894e-16 7286 2.531e-12 1 membrane amigo.geneontol...
GO GO:0044425 View Gene Set 6.671e-13 6145 4.456e-09 2 membrane part amigo.geneontol...
GO GO:0031224 View Gene Set 5.504e-12 5387 2.451e-08 3 intrinsic to membrane amigo.geneontol...
GO GO:0016021 View Gene Set 2.491e-11 5278 8.321e-08 4 integral to membrane amigo.geneontol...
GO GO:0044444 View Gene Set 1.363e-10 5184 3.641e-07 5 cytoplasmic part amigo.geneontol...
GO GO:0005737 View Gene Set 4.426e-10 7676 8.447e-07 6 cytoplasm amigo.geneontol...
GO GO:0005886 View Gene Set 4.361e-10 3759 8.447e-07 6 plasma membrane amigo.geneontol...
GO GO:0044281 View Gene Set 5.659e-09 1698 9.45e-06 8 small molecule metabolic process amigo.geneontol...
GO GO:0003824 View Gene Set 1.009e-07 5198 0.0001498 9 catalytic activity amigo.geneontol...
GO GO:0006629 View Gene Set 1.699e-07 910 0.0002269 10 lipid metabolic process amigo.geneontol...
GO GO:0055114 View Gene Set 2.956e-07 647 0.000359 11 oxidation reduction amigo.geneontol...
GO GO:0044459 View Gene Set 1.138e-06 2023 0.001086 12 plasma membrane part amigo.geneontol...
GO GO:0004871 View Gene Set 1.095e-06 2128 0.001086 12 signal transducer activity amigo.geneontol...
GO GO:0060089 View Gene Set 1.095e-06 2128 0.001086 12 molecular transducer activity amigo.geneontol...
GO GO:0016491 View Gene Set 1.709e-06 689 0.001523 15 oxidoreductase activity amigo.geneontol...
GO GO:0008289 View Gene Set 2.144e-06 424 0.00179 16 lipid binding amigo.geneontol...
GO GO:0005773 View Gene Set 3.092e-06 286 0.00243 17 vacuole amigo.geneontol...
GO GO:0031090 View Gene Set 3.522e-06 1905 0.002614 18 organelle membrane amigo.geneontol...
GO GO:0031226 View Gene Set 4.163e-06 1208 0.002781 19 intrinsic to plasma membrane amigo.geneontol...
GO GO:0004364 View Gene Set 4.109e-06 21 0.002781 19 glutathione transferase activity amigo.geneontol...
GO GO:0032787 View Gene Set 5.304e-06 356 0.003291 21 monocarboxylic acid metabolic process amigo.geneontol...
GO GO:0044282 View Gene Set 5.666e-06 441 0.003291 21 small molecule catabolic process amigo.geneontol...
GO GO:0042612 View Gene Set 5.626e-06 22 0.003291 21 MHC class I protein complex amigo.geneontol...
GO GO:0005887 View Gene Set 9.155e-06 1186 0.005096 24 integral to plasma membrane amigo.geneontol...
GO GO:0005739 View Gene Set 1.465e-05 1274 0.007832 25 mitochondrion amigo.geneontol...
GO GO:0000323 View Gene Set 1.645e-05 239 0.008141 26 lytic vacuole amigo.geneontol...
GO GO:0005764 View Gene Set 1.645e-05 239 0.008141 26 lysosome amigo.geneontol...
GO GO:0006766 View Gene Set 1.922e-05 85 0.009169 28 vitamin metabolic process amigo.geneontol...
GO GO:0006082 View Gene Set 2.1e-05 620 0.009672 29 organic acid metabolic process amigo.geneontol...
GO GO:0004872 View Gene Set 2.25e-05 1688 0.009697 30 receptor activity amigo.geneontol...
GO GO:0048037 View Gene Set 2.18e-05 249 0.009697 30 cofactor binding amigo.geneontol...
GO GO:0019882 View Gene Set 3.4e-05 62 0.0142 32 antigen processing and presentation amigo.geneontol...
GO GO:0030135 View Gene Set 4.587e-05 179 0.01857 33 coated vesicle amigo.geneontol...
GO GO:0050896 View Gene Set 4.97e-05 3765 0.01953 34 response to stimulus amigo.geneontol...
GO GO:0006091 View Gene Set 5.785e-05 339 0.02077 35 generation of precursor metabolites and energy amigo.geneontol...
GO GO:0019752 View Gene Set 6.12e-05 613 0.02077 35 carboxylic acid metabolic process amigo.geneontol...
GO GO:0043436 View Gene Set 6.12e-05 613 0.02077 35 oxoacid metabolic process amigo.geneontol...
GO GO:0016469 View Gene Set 6.375e-05 46 0.02077 35 proton-transporting two-sector ATPase complex amigo.geneontol...
GO GO:0030136 View Gene Set 6.258e-05 147 0.02077 35 clathrin-coated vesicle amigo.geneontol...
GO GO:0031300 View Gene Set 6.322e-05 153 0.02077 35 intrinsic to organelle membrane amigo.geneontol...
GO GO:0050662 View Gene Set 6.012e-05 176 0.02077 35 coenzyme binding amigo.geneontol...
GO GO:0044255 View Gene Set 6.931e-05 588 0.02205 42 cellular lipid metabolic process amigo.geneontol...
GO GO:0016614 View Gene Set 7.94e-05 115 0.02467 43 oxidoreductase activity acting on CH-OH group of donors amigo.geneontol...
GO GO:0006066 View Gene Set 8.87e-05 471 0.02693 44 alcohol metabolic process amigo.geneontol...
GO GO:0042180 View Gene Set 9.159e-05 627 0.02719 45 cellular ketone metabolic process amigo.geneontol...
GO GO:0000267 View Gene Set 9.783e-05 1077 0.02781 46 cell fraction amigo.geneontol...
GO GO:0004888 View Gene Set 9.615e-05 1275 0.02781 46 transmembrane receptor activity amigo.geneontol...
GO GO:0008202 View Gene Set 0.0001007 238 0.02802 48 steroid metabolic process amigo.geneontol...
GO GO:0042611 View Gene Set 0.0001033 36 0.02815 49 MHC protein complex amigo.geneontol...
GO GO:0006631 View Gene Set 0.0001168 245 0.03121 50 fatty acid metabolic process amigo.geneontol...
GO GO:0012505 View Gene Set 0.0001362 1454 0.03568 51 endomembrane system amigo.geneontol...
GO GO:0015985 View Gene Set 0.000144 42 0.03629 52 energy coupled proton transport down electrochemical gradient amigo.geneontol...
GO GO:0015986 View Gene Set 0.000144 42 0.03629 52 ATP synthesis coupled proton transport amigo.geneontol...
GO GO:0002474 View Gene Set 0.0001607 18 0.03976 54 antigen processing and presentation of peptide antigen via MHC class I amigo.geneontol...
GO GO:0005774 View Gene Set 0.0001867 131 0.04536 55 vacuolar membrane amigo.geneontol...
GO GO:0005777 View Gene Set 0.0002116 99 0.04676 56 peroxisome amigo.geneontol...
GO GO:0005794 View Gene Set 0.0001984 893 0.04676 56 Golgi apparatus amigo.geneontol...
GO GO:0016023 View Gene Set 0.0002063 651 0.04676 56 cytoplasmic membrane-bounded vesicle amigo.geneontol...
GO GO:0031988 View Gene Set 0.0002135 670 0.04676 56 membrane-bounded vesicle amigo.geneontol...
GO GO:0042579 View Gene Set 0.0002116 99 0.04676 56 microbody amigo.geneontol...
GO GO:0004175 View Gene Set 0.0002029 372 0.04676 56 endopeptidase activity amigo.geneontol...

Gene Set Collection: Broad.c1.CYTOBAND

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad chr6p21 View Gene Set 8.788e-06 479 0.002865 1 Genes in cytogenetic band chr6p21 www.broad.mit.e...

Gene Set Collection: Broad.c2.CGP

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad ONDER_CDH1_TARGETS_2_DN View Gene Set 2.658e-32 453 6.358e-29 1 Genes down-regulated in HMLE cells (immortalized nontransformed mammary epithelium) after E-cadhedrin (CDH1) [Gene ID=999] knockdown by RNAi. www.broad.mit.e...
Broad CHARAFE_BREAST_CANCER_LUMINAL_VS_MESENCHYMAL_UP View Gene Set 9.861e-24 422 1.179e-20 2 Genes up-regulated in luminal-like breast cancer cell lines compared to the mesenchymal-like ones. www.broad.mit.e...
Broad COLDREN_GEFITINIB_RESISTANCE_DN View Gene Set 2.569e-21 217 2.048e-18 3 Genes down-regulated in NSCLC (non-small cell lung carcinoma) cell lines resistant to gefitinib [PubChem=123631] compared to the sensitive ones. www.broad.mit.e...
Broad DODD_NASOPHARYNGEAL_CARCINOMA_UP View Gene Set 2.193e-12 1582 1.049e-09 4 Genes up-regulated in nasopharyngeal carcinoma (NPC) compared to the normal tissue. www.broad.mit.e...
Broad CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_3 View Gene Set 1.798e-12 681 1.049e-09 4 The 'group 3 set' of genes associated with acquired endocrine therapy resistance in breast tumors expressing ESR1 and ERBB2 [Gene ID=2099 2064]. www.broad.mit.e...
Broad DELYS_THYROID_CANCER_UP View Gene Set 3.513e-12 397 1.4e-09 6 Genes up-regulated in papillary thyroid carcinoma (PTC) compared to normal tissue. www.broad.mit.e...
Broad STEIN_ESRRA_TARGETS_UP View Gene Set 4.504e-12 368 1.539e-09 7 Genes up-regulated by ESRRA [Gene ID=2101] only. www.broad.mit.e...
Broad CHARAFE_BREAST_CANCER_BASAL_VS_MESENCHYMAL_UP View Gene Set 1.191e-11 114 3.56e-09 8 Genes up-regulated in basal-like breast cancer cell lines as compared to the mesenchymal-like ones. www.broad.mit.e...
Broad KOBAYASHI_EGFR_SIGNALING_24HR_UP View Gene Set 1.646e-10 96 4.376e-08 9 Genes up-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 MONNIER_POSTRADIATION_TUMOR_ESCAPE_DN View Gene Set 3.861e-10 317 9.234e-08 10 The postradiation tumor escape signature: genes down-regulated in tumors from irradiated stroma vs those from non-irradiated stroma. www.broad.mit.e...
Broad JISON_SICKLE_CELL_DISEASE_UP View Gene Set 1.439e-09 175 3.128e-07 11 Genes up-regulated in peripheral blood mononuclear cells (PBMC) from sickle cell disease patients compared to those from healthy subjects. www.broad.mit.e...
Broad WU_CELL_MIGRATION View Gene Set 3.392e-09 182 6.76e-07 12 Genes associated with migration rate of 40 human bladder cancer cells. www.broad.mit.e...
Broad BERENJENO_TRANSFORMED_BY_RHOA_DN View Gene Set 4.978e-09 353 9.16e-07 13 Genes down-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 STEIN_ESRRA_TARGETS View Gene Set 6.081e-09 508 1.039e-06 14 Genes regulated by ESRRA [Gene ID=2101] in MCF-7 cells (breast cancer). www.broad.mit.e...
Broad MASSARWEH_TAMOXIFEN_RESISTANCE_UP View Gene Set 7.271e-09 531 1.159e-06 15 Genes up-regulated in breast cancer tumors (formed by MCF-7 xenografts) resistant to tamoxifen [PubChem=5376]. www.broad.mit.e...
Broad ENK_UV_RESPONSE_KERATINOCYTE_UP View Gene Set 1.165e-08 517 1.741e-06 16 Genes up-regulated in NHEK cells (normal epidermal keratinocytes) after UVB irradiation. www.broad.mit.e...
Broad ROZANOV_MMP14_TARGETS_UP View Gene Set 3.081e-08 260 4.335e-06 17 Genes up-regulated in HT1080 cells (fibrosarcoma) over-expressing MMP14 [Gene ID=4323] compared to those with knockdown of the gene by RNAi. www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_1_UP View Gene Set 4.478e-08 131 5.951e-06 18 Genes up-regulated in HMLE cells (mmortalized nontransformed mammary epithelial) by expression of a dominant-negative form of E-cadhedrin (CDH1) [Gene ID=999]. www.broad.mit.e...
Broad JAEGER_METASTASIS_DN View Gene Set 7.067e-08 252 8.897e-06 19 Genes down-regulated in metastases from malignant melanoma compared to the primary tumors. www.broad.mit.e...
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_24HR_UP View Gene Set 9.911e-08 716 1.185e-05 20 Genes up-regulated in HL-60 cells (acute promyelocytic leukemia APL) after treatment with the aminopeptidase inhibitor tosedostat (CHR-2797) [PubChem=15547703] for 24 h. www.broad.mit.e...
Broad GOZGIT_ESR1_TARGETS_DN View Gene Set 1.17e-07 710 1.333e-05 21 Genes down-regulated in TMX2-28 cells (breast cancer) which do not express ESR1 [Gene ID=2099]) compared to the parental MCF7 cells which do. www.broad.mit.e...
Broad LI_WILMS_TUMOR_VS_FETAL_KIDNEY_1_UP View Gene Set 2.067e-07 178 2.247e-05 22 Genes up-regulated in Wilm's tumor samples compared to fetal kidney. www.broad.mit.e...
Broad LIEN_BREAST_CARCINOMA_METAPLASTIC_VS_DUCTAL_DN View Gene Set 2.478e-07 104 2.577e-05 23 Genes down-regulated between two breast carcinoma subtypes: metaplastic (MCB) and ductal (DCB). www.broad.mit.e...
Broad KIM_RESPONSE_TO_TSA_AND_DECITABINE_UP View Gene Set 2.656e-07 126 2.647e-05 24 Genes up-regulated in glioma cell lines treated with both decitabine [PubChem=451668] and TSA [PubChem=5562]. www.broad.mit.e...
Broad DACOSTA_UV_RESPONSE_VIA_ERCC3_UP View Gene Set 3.53e-07 301 3.127e-05 25 Genes up-regulated in fibroblasts expressing mutant forms of ERCC3 [Gene ID=2071] after UV irradiation. www.broad.mit.e...
Broad CHIANG_LIVER_CANCER_SUBCLASS_UNANNOTATED_DN View Gene Set 3.421e-07 155 3.127e-05 25 Marker genes down-regulated in the 'unannotated' subclass of hepatocellular carcinoma (HCC) samples. www.broad.mit.e...
Broad BROWNE_INTERFERON_RESPONSIVE_GENES View Gene Set 3.306e-07 67 3.127e-05 25 Genes up-regulated in primary fibroblast culture after treatment with interferon alpha for 6 h. www.broad.mit.e...
Broad STARK_PREFRONTAL_CORTEX_22Q11_DELETION_DN View Gene Set 7.84e-07 437 6.698e-05 28 Genes down-regulated in prefrontal cortex (PFC) of mice carrying a hemizygotic microdeletion in the 22q11.2 region. www.broad.mit.e...
Broad CHIARADONNA_NEOPLASTIC_TRANSFORMATION_CDC25_DN View Gene Set 8.443e-07 140 6.964e-05 29 Genes down-regulated in reverted NIH3T3 cells (fibroblasts transformed by activated KRAS [Gene ID=3845] which then reverted to normal cells upon stable over-expression of a dominant negative form of CDC25 [Gene ID=5923]) vs normal fibroblasts. www.broad.mit.e...
Broad FARMER_BREAST_CANCER_APOCRINE VS LUMINAL View Gene Set 1.091e-06 312 8.696e-05 30 Genes which best discriminate between two groups of breast cancer according to the status of ESR1 and AR [Gene ID=2099 367]: apocrine (ESR1- AR+) and luminal (ESR1+ AR+). www.broad.mit.e...
Broad AIGNER_ZEB1_TARGETS View Gene Set 1.233e-06 29 9.518e-05 31 Genes up-regulated in MDA-MB-231 cells (breast cancer) after knockdown of ZEB1 [Gene ID=6935] by RNAi. www.broad.mit.e...
Broad NUYTTEN_EZH2_TARGETS_UP View Gene Set 1.416e-06 944 0.0001059 32 Genes up-regulated in PC3 cells (prostate cancer) after knockdown of EZH2 [Gene ID=2146] by RNAi. www.broad.mit.e...
Broad TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_8D_UP View Gene Set 2.054e-06 153 0.0001489 33 Genes up-regulated in CD34+ [Gene ID=947] hematopoetic cells by expression of NUP98-HOXA9 fusion [Gene ID=4928 3205] off a retroviral vector at 8 days after transduction. www.broad.mit.e...
Broad ELVIDGE_HYPOXIA_UP View Gene Set 2.798e-06 163 0.0001948 34 Genes up-regulated in MCF7 cells (breast cancer) under hypoxia conditions. www.broad.mit.e...
Broad HOSHIDA_LIVER_CANCER_SUBCLASS_S3 View Gene Set 2.851e-06 266 0.0001948 34 Genes from 'subtype S3' signature of hepatocellular carcinoma (HCC): hepatocyte differentiation. www.broad.mit.e...
Broad LANDIS_ERBB2_BREAST_TUMORS_324_UP View Gene Set 3.06e-06 132 0.0001966 36 The 324 genes identified by two analytical methods as changed in the mammary tumors induced by transgenic expression of ERBB2 [Gene ID=2064]. www.broad.mit.e...
Broad GOLDRATH_IMMUNE_MEMORY View Gene Set 3.152e-06 57 0.0001966 36 'Memory genes' expressed uniquely in CD8+ [Gene ID=925] memory T lymphocytes (compared with effector or na??ve cells) www.broad.mit.e...
Broad GALE_APL_WITH_FLT3_MUTATED_DN View Gene Set 3.117e-06 17 0.0001966 36 Genes down-regulated in acute promyelocytic leukemia (APL) patients with mutated FLT3 [Gene ID=2322]. www.broad.mit.e...
Broad CHANG_IMMORTALIZED_BY_HPV31_DN View Gene Set 3.205e-06 47 0.0001966 36 Genes down-regulated in normal keratinocytes immortalized by infection with the high risk HPV31 (human papilloma virus) strain. www.broad.mit.e...
Broad PASQUALUCCI_LYMPHOMA_BY_GC_STAGE_UP View Gene Set 4.05e-06 257 0.0002422 40 Genes up-regulated in post-GC BCL6 [Gene ID=604] dependent B cell non-Hodgkin's lymphoma (B-NHL) vs MYC [Gene ID=4609] driven pre-GC lymphoma; GC = germinal center. www.broad.mit.e...
Broad SENESE_HDAC1_TARGETS_DN View Gene Set 4.829e-06 235 0.0002817 41 Genes down-regulated in U2OS cells (osteosarcoma) upon knockdown of HDAC1 [Gene ID=3065] by RNAi. www.broad.mit.e...
Broad CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_5 View Gene Set 4.962e-06 446 0.0002826 42 The 'group 5 set' of genes associated with acquired endocrine therapy resistance in breast tumors expressing ESR1 but not ERBB2 [Gene ID=2099 2064]. www.broad.mit.e...
Broad ELVIDGE_HYPOXIA_BY_DMOG_UP View Gene Set 7.581e-06 125 0.0004217 43 Genes up-regulated in MCF7 cells (breast cancer) treated with hypoxia mimetic DMOG [PubChem=3080614]. www.broad.mit.e...
Broad ONKEN_UVEAL_MELANOMA_DN View Gene Set 8.418e-06 509 0.0004498 44 Genes down-regulated in uveal melanoma: class 2 vs class 1 tumors. www.broad.mit.e...
Broad BLALOCK_ALZHEIMERS_DISEASE_DN View Gene Set 8.462e-06 1209 0.0004498 44 Genes down-regulated in brain from patients with Alzheimer's disease. www.broad.mit.e...
Broad MARKEY_RB1_ACUTE_LOF_UP View Gene Set 8.759e-06 202 0.0004555 46 Genes up-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 SENGUPTA_NASOPHARYNGEAL_CARCINOMA_DN View Gene Set 1.196e-05 296 0.0006062 47 Genes down-regulated in nsopharyngeal carcinoma relative to the normal tissue. www.broad.mit.e...
Broad WIELAND_UP_BY_HBV_INFECTION View Gene Set 1.216e-05 98 0.0006062 47 Genes induced in the liver during hepatitis B (HBV) viral clearance in chimpanzees. www.broad.mit.e...
Broad LANDIS_BREAST_CANCER_PROGRESSION_UP View Gene Set 1.478e-05 42 0.0007069 49 Genes up-regulated in preneoplastic mammary tissues and whose expression is maintained in tumors. www.broad.mit.e...
Broad MARKS_HDAC_TARGETS_UP View Gene Set 1.457e-05 21 0.0007069 49 Genes whose transcription is altered by histone deacetylase inhibitors. www.broad.mit.e...
Broad BASAKI_YBX1_TARGETS_DN View Gene Set 1.855e-05 356 0.0008531 51 Genes down-regulated in SKOC-3 cells (ovarian cancer) after YB-1 (YBX1) [Gene ID=4904] knockdown by RNAi. www.broad.mit.e...
Broad HESS_TARGETS_OF_HOXA9_AND_MEIS1_DN View Gene Set 1.851e-05 70 0.0008531 51 Genes down-regulated in hematopoietic precursor cells conditionally expressing HOXA9 and MEIS1 [Gene ID=3205 4211]. www.broad.mit.e...
Broad SEITZ_NEOPLASTIC_TRANSFORMATION_BY_8P_DELETION_UP View Gene Set 1.892e-05 72 0.0008539 53 Genes up-regulated in CT60/4 cells (breast cancer reverted to normal by transfer of chromosome 8p region) vs parental MDA-MB-231 cells (deleted chromosome 8p). www.broad.mit.e...
Broad HOEBEKE_LYMPHOID_STEM_CELL_DN View Gene Set 2.133e-05 83 0.000945 54 Genes down-regulated in the common lymphoid progenitor (CLP defined as CD34+CD38-CD7+ [Gene ID=947 952 924]) compared to a multipotent cord blood cell (defined as CD34+CD38+CD7-). www.broad.mit.e...
Broad RUIZ_TNC_TARGETS_UP View Gene Set 2.281e-05 145 0.000992 55 Genes up-regulated in T98G cells (glioblastoma) by TNC [Gene ID=3371]. www.broad.mit.e...
Broad KOBAYASHI_RESPONSE_TO_ROMIDEPSIN View Gene Set 3.534e-05 19 0.00151 56 Genes up-regulated in MM-LH cells (malignant melanoma) after treatment with the HDAC inhibitor romidepsin (FK228) [PubChem=5352062]. www.broad.mit.e...
Broad MCMURRAY_TP53_HRAS_COOPERATION_RESPONSE_DN View Gene Set 3.901e-05 64 0.001637 57 Down-regulated 'cooperation response genes': responded synergystically to the combination of mutant TP53 [Gene ID=7157] and HRAS [Gene ID=3265] in YAMC cells (colon). www.broad.mit.e...
Broad DAIRKEE_TERT_TARGETS_UP View Gene Set 4.613e-05 317 0.001902 58 Genes up-regulated in non-spontaneously immortalizing (NSI) primary breast cancer tumor cultures upon expression of TERT [Gene ID=7015] off a retroviral vector. www.broad.mit.e...
Broad TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_3D_UP View Gene Set 4.708e-05 174 0.001909 59 Genes up-regulated in CD34+ [Gene ID=947] hematopoetic cells by expression of NUP98-HOXA9 fusion [Gene ID=4928 3205] off a retroviral vector at 3 days after transduction. www.broad.mit.e...
Broad BOWIE_RESPONSE_TO_EXTRACELLULAR_MATRIX View Gene Set 5.384e-05 10 0.002147 60 Genes up-regulated by growing HMEC-E6 cells (mammary epithelial cells damaged by expression of HPV-16 E6 [Gene ID=1489078]) in extracellular matrix (ECM). www.broad.mit.e...
Broad SMID_BREAST_CANCER_BASAL_DN View Gene Set 5.981e-05 664 0.002346 61 Genes down-regulated in basal subtype of breast cancer samles. www.broad.mit.e...
Broad SANA_TNF_SIGNALING_UP View Gene Set 6.348e-05 75 0.002449 62 Genes up-regulated in five primary endothelial cell types (lung aortic iliac dermal and colon) by TNF [Gene ID=7124]. www.broad.mit.e...
Broad SCHUETZ_BREAST_CANCER_DUCTAL_INVASIVE_DN View Gene Set 7.676e-05 83 0.002915 63 Genes down-regulated in invasive ductal carcinoma (IDC) relative to ductal carcinoma in situ (DCIS non-invasive). www.broad.mit.e...
Broad REN_ALVEOLAR_RHABDOMYOSARCOMA_DN View Gene Set 8.376e-05 402 0.003131 64 Genes commonly down-regulated in human alveolar rhabdomyosarcoma (ARMS) and its mouse model overexpressing PAX3-FOXO1 [Gene ID=5077 2308] fusion. www.broad.mit.e...
Broad CAIRO_LIVER_DEVELOPMENT_DN View Gene Set 8.855e-05 208 0.003258 65 Genes down-regulated at early fetal liver stage (embryonic days E11.5 - E12.5) compared to the late fetal liver stage (embryonic days E14.5 - E16.5). www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_2_UP View Gene Set 9.385e-05 249 0.003401 66 Genes up-regulated in HMLE cells (immortalized nontransformed mammary epithelium) after E-cadhedrin (CDH1) [Gene ID=999] knockdown by RNAi. www.broad.mit.e...
Broad TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_10D_UP View Gene Set 9.967e-05 186 0.003558 67 Genes up-regulated in CD34+ [Gene ID=947] hematopoetic cells by expression of NUP98-HOXA9 fusion [Gene ID=4928 3205] off a retroviral vector at 10 days after transduction. www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_9 View Gene Set 0.000103 68 0.003623 68 Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 9. www.broad.mit.e...
Broad CHIARADONNA_NEOPLASTIC_TRANSFORMATION_KRAS_DN View Gene Set 0.0001108 133 0.003841 69 Genes down-regulated in transformed NIH3T3 cells (fibroblasts transformed by activated KRAS [Gene ID=3845]) vs normal cells. www.broad.mit.e...
Broad CHARAFE_BREAST_CANCER_LUMINAL_VS_BASAL_DN View Gene Set 0.0001337 437 0.004323 70 Genes down-regulated in luminal-like breast cancer cell lines compared to the basal-like ones. www.broad.mit.e...
Broad CASTELLANO_NRAS_TARGETS_UP View Gene Set 0.0001321 59 0.004323 70 Genes up-regulated in MEF cells (embryonic fibroblast) isolated from NRAS [Gene ID=4893] knockout mice. www.broad.mit.e...
Broad FURUKAWA_DUSP6_TARGETS_PCI35_UP View Gene Set 0.000131 64 0.004323 70 Genes up-regulated in PCI-35 cells (pancreatic cancer lack endogenous DUSP6 [Gene ID=1848]) upon expression of DUSP6 off an adenoviral vector. www.broad.mit.e...
Broad HELLER_HDAC_TARGETS_SILENCED_BY_METHYLATION_UP View Gene Set 0.0001335 399 0.004323 70 Genes up-regulated in multiple myeloma (MM) cell lines treated with both decitabine [PubChem=451668] TSA [PubChem=5562]. www.broad.mit.e...
Broad HUANG_FOXA2_TARGETS_DN View Gene Set 0.000127 36 0.004323 70 Genes down-regulated in H358 cells (lung cancer) by inducible expression of FOXA2 [GeneID=3170] in a Tet-off system. www.broad.mit.e...
Broad TONKS_TARGETS_OF_RUNX1_RUNX1T1_FUSION_HSC_UP View Gene Set 0.0001416 182 0.004456 75 Genes up-regulated in normal hematopoietic progenitors by RUNX1-RUNX1T1 [Gene ID=861 862] fusion. www.broad.mit.e...
Broad BIDUS_METASTASIS_DN View Gene Set 0.0001416 145 0.004456 75 Genes down-regulated in endometroid endometrial tumors from patients with lymph node metastases compared to those without the metastases. www.broad.mit.e...
Broad SASAKI_ADULT_T_CELL_LEUKEMIA View Gene Set 0.0001475 137 0.004583 77 Genes up-regulated in adult T-cell leukemia (ATL) cells compared to T lymphocytes from healthy controls. www.broad.mit.e...
Broad ALCALA_APOPTOSIS View Gene Set 0.0001647 87 0.004747 78 Genes able to induce cell death in an expression cDNA library screen. www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_1Q21_AMPLICON View Gene Set 0.0001628 37 0.004747 78 Genes within amplicon 1q21 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad LE_EGR2_TARGETS_DN View Gene Set 0.0001585 100 0.004747 78 Genes down-regulated in P14 nerves of transgenic mice having hypomorhic (reduced function) allele of EGR2 [Gene ID=1959]. www.broad.mit.e...
Broad MOSERLE_IFNA_RESPONSE View Gene Set 0.0001613 30 0.004747 78 Top 50 genes up-regulated in ovarian cancer progenitor cells (also known as side population SP cells) in response to interferon alpha (IFNA). www.broad.mit.e...
Broad BRUECKNER_TARGETS_OF_MIRLET7A3_UP View Gene Set 0.0001633 105 0.004747 78 Genes up-regulated in A549 cells (lung cancer) expressing MIRLET7A3 [Gene ID=406883] microRNA off a plasmid vector. www.broad.mit.e...
Broad GAJATE_RESPONSE_TO_TRABECTEDIN_UP View Gene Set 0.0001612 53 0.004747 78 Genes up-regulated in HeLa cells (cervical carcinoma) by trabectedin [PubChem=3199]. www.broad.mit.e...
Broad VECCHI_GASTRIC_CANCER_ADVANCED_VS_EARLY_DN View Gene Set 0.0001769 129 0.005021 84 Down-regulated genes distinguishing between two subtypes of gastric cancer: advanced (AGC) and early (EGC). www.broad.mit.e...
Broad SATO_SILENCED_BY_METHYLATION_IN_PANCREATIC_CANCER_1 View Gene Set 0.0001784 407 0.005021 84 Genes up-regulated in the pancreatic cancer cell lines (AsPC1 Hs766T MiaPaCa2 Panc1) but not in the non-neoplastic cells (HPDE) by decitabine (5-aza-2'-deoxycytidine) [PubChem=451668]. www.broad.mit.e...
Broad WAMUNYOKOLI_OVARIAN_CANCER_LMP_UP View Gene Set 0.0001889 244 0.005254 86 Genes up-regulated in mucinous ovarian carcinoma tumors of low malignant potential (LMP) compared to normal ovarian surface epithelium tissue. www.broad.mit.e...
Broad RODRIGUES_DCC_TARGETS_DN View Gene Set 0.0001962 121 0.005333 87 Genes down-regulated in HCT8/S1 cells (colon cancer) which normally lack DCC [Gene ID=9423] compared to those stably expressing wild type DCC off a plasmid vector. www.broad.mit.e...
Broad WAMUNYOKOLI_OVARIAN_CANCER_GRADES_1_2_UP View Gene Set 0.0001955 131 0.005333 87 Genes up-regulated in mucinous ovarian carcinoma tumors of grades 1 and 2 compared to the normal ovarian survace epithelium tissue. www.broad.mit.e...
Broad KIM_LRRC3B_TARGETS View Gene Set 0.0002115 30 0.005684 89 Immune response genes up-regulated in zenograft tumors formed by SNU-601 cells (gastric cancer) made to express LRRC3B [Gene ID=116135]. www.broad.mit.e...
Broad RIGGINS_TAMOXIFEN_RESISTANCE_UP View Gene Set 0.0002254 65 0.00599 90 Genes up-regulated SUM44/LCCTam cells (breast cancer) resistant to 4-hydroxytamoxifen [PubChem=63062] relative to the parental SUM44 cells sensitive to the drug. www.broad.mit.e...
Broad BENNETT_SYSTEMIC_LUPUS_ERYTHEMATOSUS View Gene Set 0.0002492 23 0.006551 91 Genes significantly up-regulated in the blood mononuclear cells from patients with systemic lupus erythematosus compared to those from healthy persons. www.broad.mit.e...
Broad HAN_SATB1_TARGETS_DN View Gene Set 0.0002586 320 0.006724 92 Genes down-regulated in MDA-MB-231 cells (breast cancer) after knockdown of SATB1 [Gene ID=6304] by RNAi. www.broad.mit.e...
Broad KERLEY_RESPONSE_TO_CISPLATIN_UP View Gene Set 0.0002755 38 0.007087 93 Genes genes up-regulated in NT2/D1 cells (embryonal carcinoma) in response to treatment with cisplatin [PubChem=2767]. www.broad.mit.e...
Broad DOANE_BREAST_CANCER_ESR1_UP View Gene Set 0.000279 104 0.007101 94 Genes changed in breast cancer samples according to the ESR1 [Gene ID=2099] status: ER positive vs ER negative tumors. www.broad.mit.e...
Broad BOYLAN_MULTIPLE_MYELOMA_C_D_DN View Gene Set 0.0002938 232 0.007397 95 Genes down-regulated both in group C and D of tumors arising from overexpression of BCL2L1 and MYC [Gene ID=598 4609] in plasma cells. www.broad.mit.e...
Broad LINDGREN_BLADDER_CANCER_CLUSTER_1_UP View Gene Set 0.0003124 109 0.007785 96 Genes whose expression profile is specific to Custer I of urothelial cell carcinoma (UCC) tumors. www.broad.mit.e...
Broad LEE_EARLY_T_LYMPHOCYTE_DN View Gene Set 0.0003237 44 0.007983 97 Genes down-regulated at early stages of progenitor T lymphocyte maturation compared to the late stages. www.broad.mit.e...
Broad BOWIE_RESPONSE_TO_TAMOXIFEN View Gene Set 0.0003301 14 0.008056 98 Genes up-regulated by tamoxifen [PubChem=5376] in HMEC-E6 cells (mammary epithelial cells damaged by expression of HPV-16 E6 [Gene ID=1489078]). www.broad.mit.e...
Broad BECKER_TAMOXIFEN_RESISTANCE_UP View Gene Set 0.0003338 38 0.008066 99 Genes up-regulated in a breast cancer cell line resistant to tamoxifen [PubChem ID=5376] compared to the parental line sensitive to the drug. www.broad.mit.e...
Broad SMITH_TERT_TARGETS_DN View Gene Set 0.0003383 71 0.008093 100 Genes consistently down-regulated in HMEC cells (primary mammary epithelium) upon expression of TERT [Gene ID=7015] off a retroviral vector. www.broad.mit.e...
Broad HELLER_HDAC_TARGETS_UP View Gene Set 0.0003455 268 0.008184 101 Genes up-regulated in at least one of three multiple myeloma (MM) cell lines by TSA [PubChem=5562]. www.broad.mit.e...
Broad MOREAUX_MULTIPLE_MYELOMA_BY_TACI_UP View Gene Set 0.0003667 365 0.0086 102 Genes distinguishing in multiple myeloma (MM) samples with higher expression of TACI [Gene ID=23495]. www.broad.mit.e...
Broad TARTE_PLASMA_CELL_VS_PLASMABLAST_UP View Gene Set 0.0003841 386 0.008921 103 Genes up-regulated in mature plasma cells compared with plasmablastic B lymphocytes. www.broad.mit.e...
Broad MISSIAGLIA_REGULATED_BY_METHYLATION_UP View Gene Set 0.0004041 99 0.009295 104 Genes up-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 YAGI_AML_FAB_MARKERS View Gene Set 0.0004137 189 0.009425 105 Genes specifically expressed in FAB subtypes M2 M4 M5 and M7 of pediatric AML (acute myeloid leukemia). www.broad.mit.e...
Broad MARTINEZ_RESPONSE_TO_TRABECTEDIN_UP View Gene Set 0.0004394 59 0.009916 106 Genes up-regulated in at least 8 of 11 sarcoma cell lines by trabectedin [PubChem=3199]. www.broad.mit.e...
Broad TSAI_DNAJB4_TARGETS_UP View Gene Set 0.000444 13 0.009926 107 Genes up-regulated in CL1-5 cells (lung cancer) overexpressing DNAJB4 [Gene ID=11080] off a plasmid vector. www.broad.mit.e...
Broad DAZARD_UV_RESPONSE_CLUSTER_G24 View Gene Set 0.0004488 18 0.00994 108 Cluster G24: genes induced in NHEK (normal keratinocyte) but not in SCC12B2 cells (squamous cell carcinoma) by UV-B radiation. www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_6 View Gene Set 0.0004652 64 0.01021 109 Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 6. www.broad.mit.e...
Broad COULOUARN_TEMPORAL_TGFB1_SIGNATURE_DN View Gene Set 0.0004797 118 0.01043 110 'Early-TGFB1 signature': genes overexpressed in primary hepatocytes at an early phase of TGFB1 [Gene ID=7040] treatment; is associated with a less invasive phenotype. www.broad.mit.e...
Broad SMID_BREAST_CANCER_LUMINAL_B_DN View Gene Set 0.000484 549 0.01043 111 Genes down-regulated in the luminal B subtype of breast cancer. www.broad.mit.e...
Broad LINDSTEDT_DENDRITIC_CELL_MATURATION_A View Gene Set 0.0005041 54 0.01077 112 Maturation of monocyte-derived dendritic cells (DC) in response to inflammatory stimuli: genes up-regulated only at 8 hr after the stimulation (cluster A). www.broad.mit.e...
Broad LANDIS_ERBB2_BREAST_TUMORS_324_DN View Gene Set 0.0005266 137 0.01115 113 The 324 genes identified by two analytical methods as changed in the mammary tumors induced by transgenic expression of ERBB2 [Gene ID=2064]. www.broad.mit.e...
Broad NEWMAN_ERCC6_TARGETS_UP View Gene Set 0.0005515 25 0.01147 114 Genes up-regulated in Cockayne syndrome fibroblasts rescued by expression of ERCC6 [Gene ID=2074] off a plasmid vector. www.broad.mit.e...
Broad GESERICK_TERT_TARGETS_DN View Gene Set 0.0005468 20 0.01147 114 Genes down-regulated in MEF cells (embryonic fibroblasts) with TERT [Gene ID=7015] knockout after expression of the gene off a retroviral vector. www.broad.mit.e...
Broad HOFFMANN_PRE_BI_TO_LARGE_PRE_BII_LYMPHOCYTE_DN View Gene Set 0.0005776 55 0.01191 116 Genes down-regulated during differentiation from pre-BI to large pre-BII lymphocyte. www.broad.mit.e...
Broad HOLLMAN_APOPTOSIS_VIA_CD40_DN View Gene Set 0.000589 255 0.01204 117 Genes down-regulated in DLBCL (diffuse large B-cell lymphoma) cell lines sensitive to stimulation of CD40 [Gene ID=958] relative to the resistant ones. www.broad.mit.e...
Broad NIELSEN_GIST_AND_SYNOVIAL_SARCOMA_UP View Gene Set 0.0005938 7 0.01204 117 Top 20 genes whose up-regulation correlated with gastrointestinal stromal tumors (GIST) and synovial sarcoma compared to other tumors. www.broad.mit.e...
Broad MULLIGHAN_MLL_SIGNATURE_1_UP View Gene Set 0.0006089 358 0.01224 119 The 'MLL signature 1': genes up-regulated in pediatric AML (acute myeloid leukemia) with rearranged MLL [Gene ID=4297] compared to all AML cases with the intact gene. www.broad.mit.e...
Broad HSIAO_LIVER_SPECIFIC_GENES View Gene Set 0.0006336 236 0.01263 120 Liver selective genes www.broad.mit.e...
Broad FARMER_BREAST_CANCER_CLUSTER_7 View Gene Set 0.0006596 20 0.01304 121 Cluster 7: selected apocrine and luminal genes clustered together across breast cancer samples. www.broad.mit.e...
Broad LOPEZ_MBD_TARGETS View Gene Set 0.0006698 855 0.01307 122 Genes up-regulated in HeLa cells (cervical cancer) after simultaneus knockdown of all three MBD (methyl-CpG binding domain) proteins MeCP2 MBD1 and MBD2 [Gene ID=4204 4152 8932] by RNAi. www.broad.mit.e...
Broad YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_12 View Gene Set 0.0006721 72 0.01307 122 Genes co-regulated in uterus during a time course response to progesterone [PubChem=5994]: SOM cluster 12. www.broad.mit.e...
Broad DIRMEIER_LMP1_RESPONSE_LATE_DN View Gene Set 0.0006914 26 0.01334 124 Cluster 4: genes down-regulated in B2264-19/3 cells (primary B lymphocytes) within 60-180 min after activation of LMP1 (an oncogene encoded by Epstein???Barr virus EBV). www.broad.mit.e...
Broad XU_RESPONSE_TO_TRETINOIN_AND_NSC682994_UP View Gene Set 0.0006972 14 0.01334 125 Genes up-regulated synergistically in NB4 cells (acute promyelocytic leukemia APL) by tretinoin and NSC682994 [PubChem=5538 388304]. www.broad.mit.e...
Broad ROETH_TERT_TARGETS_UP View Gene Set 0.0007133 8 0.01354 126 Genes up-regulated in T lymphocytes overexpressing TERT [Gene ID=7015] off a retrovirus vector. www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_8Q23_Q24_AMPLICON View Gene Set 0.0007774 150 0.01453 127 Genes within amplicon 8q23-q24 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad RUTELLA_RESPONSE_TO_HGF_VS_CSF2RB_AND_IL4_UP View Gene Set 0.0007749 394 0.01453 127 Genes up-regulated in peripheral blood mononucleocytes by HGF [Gene ID=3082] compared to those regulated by CSF2RB (GM-CSF) [Gene ID=1437] and IL4 [Gene ID=3565]. www.broad.mit.e...
Broad CHIANG_LIVER_CANCER_SUBCLASS_CTNNB1_DN View Gene Set 0.0007977 144 0.01479 129 Top 200 marker genes down-regulated in the 'CTNNB1' subclass of hepatocellular carcinoma (HCC); characterized by activated CTNNB1 [Gene ID=1499]. www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_3_UP View Gene Set 0.0008633 16 0.01589 130 Genes up-regulated in HMLE cells (immortalized nontransformed mammary epithelial) cells after loss of function of E-cadhedrin (CDH1) [Gene ID=999] which was achieved either by RNAi knockdown or by expression of a dominan-negative form of CDH1. www.broad.mit.e...
Broad MCBRYAN_PUBERTAL_BREAST_4_5WK_UP View Gene Set 0.0008801 243 0.01607 131 Genes up-regulated during pubertal mammary gland development between week 4 and 5. www.broad.mit.e...
Broad SMID_BREAST_CANCER_ERBB2_UP View Gene Set 0.0009226 138 0.01672 132 Genes up-regulated in the erbb2 subype of breast cancer samples characterized by higher expression of ERBB2 [Gene ID=2064]. www.broad.mit.e...
Broad ZHANG_RESPONSE_TO_IKK_INHIBITOR_AND_TNF_UP View Gene Set 0.001015 208 0.01826 133 Genes up-regulated in BxPC3 cells (pancreatic cancer) after treatment with TNF [Gene ID=7124] or IKI-1 an inhibitor of I?B kinase (IKK). www.broad.mit.e...
Broad PODAR_RESPONSE_TO_ADAPHOSTIN_UP View Gene Set 0.001024 140 0.01828 134 Up-regulated genes in MM1.S cells (multiple myeloma) treated with adaphostin [PubChem=387042] a tyrosine kinase inhibitor with anticancer properties. www.broad.mit.e...
Broad HAMAI_APOPTOSIS_VIA_TRAIL_DN View Gene Set 0.001032 125 0.01828 135 Genes down-regulated in T1 cells (primary melanoma sensitive to TRAIL [Gene ID=8743]) compared to G1 cells (metastatic melanoma resistant to TRAIL). www.broad.mit.e...
Broad CHANG_CORE_SERUM_RESPONSE_DN View Gene Set 0.001143 30 0.0201 136 Down-regulated genes in the canonical gene expression signature of the fibroblast core serum response (CSR) defined by the Stanford group. www.broad.mit.e...
Broad CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_4 View Gene Set 0.001206 285 0.02091 137 The 'group 4 set' of genes associated with acquired endocrine therapy resistance in breast tumors expressing ESR1 but not ERBB2 [Gene ID=2099 2064]. www.broad.mit.e...
Broad BROWNE_HCMV_INFECTION_48HR_UP View Gene Set 0.001202 175 0.02091 137 Genes up-regulated in primary fibroblast cell culture after infection with HCMV (AD169 strain) at 48 h time point that were not up-regulated at the previous time point 24 h. www.broad.mit.e...
Broad WELCSH_BRCA1_TARGETS_1_UP View Gene Set 0.001222 171 0.02102 139 Upregulated by induction of exogenous BRCA1 in EcR-293 cells www.broad.mit.e...
Broad RIGGINS_TAMOXIFEN_RESISTANCE_DN View Gene Set 0.001239 211 0.02117 140 Genes down-regulated SUM44/LCCTam cells (breast cancer) resistant to 4-hydroxytamoxifen [PubChem=63062] relative to the parental SUM44 cells sensitive to the drug. www.broad.mit.e...
Broad RICKMAN_TUMOR_DIFFERENTIATED_WELL_VS_MODERATELY_DN View Gene Set 0.001305 109 0.02206 141 Down-regulated genes that vary between HNSCC (head and neck squamous cell carcinoma) groups formed on the basis of their level of pathological differentiation: well vs moderately differentiated tumors. www.broad.mit.e...
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_UP View Gene Set 0.00131 869 0.02206 141 Genes up-regulated in HL-60 cells (acute promyelocytic leukemia APL) after treatment with the aminopeptidase inhibitor tosedostat (CHR-2797) [PubChem=15547703] for 6 h. www.broad.mit.e...
Broad VALK_AML_CLUSTER_11 View Gene Set 0.001331 36 0.02227 143 Top 40 genes from cluster 11 of acute myeloid leukemia (AML) expression profile; 67% of the samples are FAB M4 or M5. www.broad.mit.e...
Broad RUTELLA_RESPONSE_TO_HGF_UP View Gene Set 0.001382 409 0.02293 144 Genes up-regulated in peripheral blood monocytes by HGF [Gene ID=3082]. www.broad.mit.e...
Broad ZHAN_MULTIPLE_MYELOMA_CD1_UP View Gene Set 0.00139 44 0.02293 144 Top 50 up-regulated genes in cluster CD-1 of multiple myeloma samples with the characteristic expression spike of CCND1 [Gene ID=595]. www.broad.mit.e...
Broad ZHANG_INTERFERON_RESPONSE View Gene Set 0.001411 21 0.02311 146 Interferon-inducible genes up-regulated in A549 cells (lung cancer) infected with a respiratory syncytial virus (RSV) that had its NS1 [Gene ID=1494468] gene knocked down by RNAi. www.broad.mit.e...
Broad SIMBULAN_UV_RESPONSE_NORMAL_UP View Gene Set 0.001492 8 0.02427 147 Genes up-regulated in HFK cells (primary keratinocytes) in response to UVB irradiation. www.broad.mit.e...
Broad ZEMBUTSU_SENSITIVITY_TO_CISPLATIN View Gene Set 0.001516 7 0.0245 148 Top genes associated with chemosensitivity to cisplatin [PubChem=2767] across 85 tumor xenografts. www.broad.mit.e...
Broad LEI_MYB_TARGETS View Gene Set 0.001557 13 0.02499 149 Myb-regulated genes in MCF7 (breast cancer) and lung epithelial cell lines overexpressing MYBL2 MYBL1 or MYB [Gene ID=4605 4603 4602]. www.broad.mit.e...
Broad HOSHIDA_LIVER_CANCER_SUBCLASS_S1 View Gene Set 0.00162 237 0.02584 150 Genes from 'subtype S1' signature of hepatocellular carcinoma (HCC): aberrant activation of the WNT signaling pathway. www.broad.mit.e...
Broad SANA_RESPONSE_TO_IFNG_UP View Gene Set 0.001649 68 0.02612 151 Genes up-regulated in five primary endothelial cell types (lung aortic iliac dermal and colon) by IFNG [Gene ID=3458]. www.broad.mit.e...
Broad YANG_BREAST_CANCER_ESR1_UP View Gene Set 0.001692 25 0.02662 152 Genes up-regulated in early primary breast tumors expressing ESR1 [Gene ID=2099] vs the ESR1 negative ones. www.broad.mit.e...
Broad ABE_VEGFA_TARGETS_2HR View Gene Set 0.001747 20 0.02731 153 Genes up-regulated in HUVEC cells (endothelium) at 2 h after VEGFA [Gene ID=7422] stimulation. www.broad.mit.e...
Broad LANDIS_BREAST_CANCER_PROGRESSION_DN View Gene Set 0.001833 64 0.02775 154 Genes down-regulated in preneoplastic mammary tissues and whose expression is maintained in tumors. www.broad.mit.e...
Broad LUI_THYROID_CANCER_CLUSTER_5 View Gene Set 0.00179 14 0.02775 154 Cluster 5: genes with similar expression profiles across follicular thyroid carcinoma (FTC) samples. www.broad.mit.e...
Broad RICKMAN_TUMOR_DIFFERENTIATED_WELL_VS_POORLY_DN View Gene Set 0.001815 361 0.02775 154 Down-regulated genes that vary between HNSCC (head and neck squamous cell carcinoma) groups formed on the basis of their level of pathological differentiation: well vs poorly differentiated tumors. www.broad.mit.e...
Broad OSAWA_TNF_TARGETS View Gene Set 0.001845 10 0.02775 154 Genes up-regulated in Hc cells (normal hepatocyte) by TNF [Gene ID=7124]. www.broad.mit.e...
Broad BASSO_CD40_SIGNALING_UP View Gene Set 0.0018 100 0.02775 154 Gene changed by CD40 [Gene ID=958] signaling in Ramos cells (EBV negative Burkitt lymphoma). www.broad.mit.e...
Broad ELLWOOD_MYC_TARGETS_DN View Gene Set 0.001843 34 0.02775 154 Genes down-regulated in transgenic mice expressing human MYC [Gene ID=4609] in prostate. www.broad.mit.e...
Broad WU_SILENCED_BY_METHYLATION_IN_BLADDER_CANCER View Gene Set 0.001877 43 0.02807 160 Genes silenced by DNA methylation in bladder cancer cell lines. www.broad.mit.e...
Broad CAIRO_HEPATOBLASTOMA_DN View Gene Set 0.001931 264 0.02869 161 Genes down-regulated in hepatoblastoma samples compared to normal liver tissue. www.broad.mit.e...
Broad VANTVEER_BREAST_CANCER_ESR1_UP View Gene Set 0.001948 140 0.02877 162 Up-regulated genes from the optimal set of 550 markers discriminating breast cancer samples by ESR1 [Gene ID=2099] expression: ER(+) vs ER(-) tumors. www.broad.mit.e...
Broad LIU_PROSTATE_CANCER_DN View Gene Set 0.001971 446 0.02893 163 Genes down-regulated in prostate cancer samples. www.broad.mit.e...
Broad IVANOVA_HEMATOPOIESIS_MATURE_CELL View Gene Set 0.001989 96 0.02901 164 Genes in the expression cluster 'MBC Shared': up-regulated in mature blood cell populations from adult bone marrow and fetal liver. www.broad.mit.e...
Broad ENK_UV_RESPONSE_EPIDERMIS_UP View Gene Set 0.002074 283 0.02989 165 Genes up-regulated in epidermis after to UVB irradiation. www.broad.mit.e...
Broad DER_IFN_ALPHA_RESPONSE_UP View Gene Set 0.002063 57 0.02989 165 Genes up-regulated in HT1080 cells (fibrosarcoma) by treatment with interferon alpha for 6 h. www.broad.mit.e...
Broad DACOSTA_UV_RESPONSE_VIA_ERCC3_TTD_UP View Gene Set 0.002113 47 0.03027 167 Genes exclusively up-regulated in fibroblasts expressing the TTD mutant form of ERCC3 [Gene ID=2071] after UVC irradiation. www.broad.mit.e...
Broad MELLMAN_TUT1_TARGETS_DN View Gene Set 0.002287 47 0.03219 168 Genes down-regulated in HEK293 cells (embryo kidney) after knockdown of TUT1 [Gene ID=64852] by RNAi. www.broad.mit.e...
Broad KORKOLA_EMBRYONIC_CARCINOMA_VS_SEMINOMA_UP View Gene Set 0.002272 21 0.03219 168 Top 25 most highly expressed genes in embryonic carcinoma relative to seminoma tumors. www.broad.mit.e...
Broad XU_GH1_AUTOCRINE_TARGETS_UP View Gene Set 0.00228 174 0.03219 168 Genes up-regulated in MFCF-7 cells (breast cancer) upon stable autocrine expression of HG1 [Gene ID=2688]. www.broad.mit.e...
Broad HUPER_BREAST_BASAL_VS_LUMINAL_DN View Gene Set 0.002305 59 0.03224 171 Genes down-regulated in basal mammary epithelial cells compared to the luminal ones. www.broad.mit.e...
Broad SWEET_LUNG_CANCER_KRAS_DN View Gene Set 0.002411 397 0.03353 172 Genes down-regulated in the mouse lung cancer model with mutated KRAS [Gene ID=3845]. www.broad.mit.e...
Broad DER_IFN_GAMMA_RESPONSE_UP View Gene Set 0.002465 58 0.03369 173 Genes up-regulated in HT1080 (fibrosarcoma) cells by treatment with interferon gamma for 6 h. www.broad.mit.e...
Broad ZHAN_V1_LATE_DIFFERENTIATION_GENES_UP View Gene Set 0.002438 31 0.03369 173 The v1LDG set: most variable late differentiation genes (LDG) with similar expression patterns in tonsil plasma cells (TPC) and multiple myeloma (MM) samples. www.broad.mit.e...
Broad BOYLAN_MULTIPLE_MYELOMA_PCA1_UP View Gene Set 0.002455 80 0.03369 173 Top up-regulated genes from principal component 1 (PCA1) which captures variation between normal plasma cells and tumors arising from aberrant expression of BCL2L1 and MYC [Gene ID=598 4609]. www.broad.mit.e...
Broad FULCHER_INFLAMMATORY_RESPONSE_LECTIN_VS_LPS_DN View Gene Set 0.002488 431 0.03381 176 Genes down-regulated in monocyte-derived dendritic cells (MDDC) after stimulation with galecin-1 (lectin LGALS1) [Gene ID=3956] compared to that with bacterial lipopolysaccharide (LPS). www.broad.mit.e...
Broad ELVIDGE_HIF1A_TARGETS_DN View Gene Set 0.002543 87 0.03436 177 Genes down-regulated in MCF7 cells (breast cancer) after knockdown of HIF1A [Gene ID=3091] by RNAi. www.broad.mit.e...
Broad HOOI_ST7_TARGETS_DN View Gene Set 0.002578 108 0.03439 178 Genes down-regulated in PC-3 cells (prostate cancer) stably expressing ST7 [Gene ID=7982] off a plasmid vector. www.broad.mit.e...
Broad VERHAAK_AML_WITH_NPM1_MUTATED_UP View Gene Set 0.002588 178 0.03439 178 Genes up-regulated in acute myeloid leukemia (AML) patients with mutated NPM1 [Gene ID=4869]. www.broad.mit.e...
Broad IZADPANAH_STEM_CELL_ADIPOSE_VS_BONE_DN View Gene Set 0.002564 104 0.03439 178 Genes down-regulated in adipose tissue mesenchymal stem cells (ASC) vs bone marrow mesenchymal stem cells (rBMSC) www.broad.mit.e...
Broad FAELT_B_CLL_WITH_VH3_21_DN View Gene Set 0.002618 47 0.03459 181 Genes changed in samples from B-CLL (B-cell chronic lymphocytic leukemia) using the immunoglobulin heavy chain VH3-21 gene. www.broad.mit.e...
Broad FARMER_BREAST_CANCER_APOCRINE_VS_BASAL View Gene Set 0.002701 321 0.03481 182 Genes which best discriminate between two groups of breast cancer according the status of ESR1 and AR [Gene ID=2099 367]: apocrine (ESR1- AR+) vs basal (ESR1- AR-). www.broad.mit.e...
Broad DACOSTA_ERCC3_ALLELE_XPCS_VS_TTD_UP View Gene Set 0.002705 23 0.03481 182 Genes up-regulated in fibroblasts expressing different mutant forms of ERCC3 [Gene ID=2071]: XP/CS (xeroderma pigmentosum (XP) and Cockraine's syndrome (CS)) vs TTD (trichothiodystrophy). www.broad.mit.e...
Broad GARCIA_TARGETS_OF_FLI1_AND_DAX1_UP View Gene Set 0.002674 44 0.03481 182 Genes up-regulated in the A673 cells (Ewing sarcoma) after double knockdown of both FLI1 and DAX1 [Gene ID=2313 190] by RNAi. www.broad.mit.e...
Broad FLECHNER_BIOPSY_KIDNEY_TRANSPLANT_REJECTED_VS_OK_DN View Gene Set 0.002651 532 0.03481 182 Genes differentially expressed in kidney biopsies from patients with acute transplant rejection compared to the biopsies from patients with well functioning kidneys more than 1-year post transplant. www.broad.mit.e...
Broad SEKI_INFLAMMATORY_RESPONSE_LPS_UP View Gene Set 0.002706 75 0.03481 182 Genes up-regulated in hepatic stellar cells after stimulation with bacterial lipopolysacharide (LPS). www.broad.mit.e...
Broad MULLIGHAN_MLL_SIGNATURE_2_UP View Gene Set 0.002727 393 0.03488 187 The 'MLL signature 2': genes up-regulated in pediatric AML (acute myeloid leukemia) with rearranged MLL [Gene ID=4297] compared to the AML cases with intact MLL and NPM1 [Gene ID=4869]. www.broad.mit.e...
Broad MARKEY_RB1_CHRONIC_LOF_DN View Gene Set 0.002855 111 0.03625 188 Genes down-regulated in MEF cells (embryonic fibroblasts) isolated from RB1 [Gene ID=5925] knockout mice: chronic loss of function (LOF) of RB1. www.broad.mit.e...
Broad KIM_MYCN_AMPLIFICATION_TARGETS_DN View Gene Set 0.002865 78 0.03625 188 Genes negatively correlated with amplifications of MYCN [Gene ID=4613] in the SCLC (small cell lung cancer) cell lines. www.broad.mit.e...
Broad DAVICIONI_MOLECULAR_ARMS_VS_ERMS_DN View Gene Set 0.002958 167 0.03725 190 Genes down-regulated in mARMS (molecular ARMS) compared to the mERMS (molecular ERMS) class of rhabdomyosarcoma tumors. www.broad.mit.e...
Broad ELVIDGE_HIF1A_AND_HIF2A_TARGETS_DN View Gene Set 0.002994 100 0.03749 191 Genes down-regulated in MCF7 cells (breast cancer) after knockdown of both HIF1A and HIF2A [Gene ID=3091 2034] by RNAi. www.broad.mit.e...
Broad PEREZ_TP63_TARGETS View Gene Set 0.003031 328 0.03766 192 Genes up-regulated in the HMEC cells (primary mammary epithelium) upon expression of the transcriptionally active isoform of TP63 [Gene ID=8626] off adenoviral vector. www.broad.mit.e...
Broad CHEOK_RESPONSE_TO_MERCAPTOPURINE_DN View Gene Set 0.003039 20 0.03766 192 Genes specifically down-regulated in pediadric acute lymphoblastic leukemia (ALL) patients by mercaptopurine [PubChem=667490]. www.broad.mit.e...
Broad IGARASHI_ATF4_TARGETS_DN View Gene Set 0.003192 87 0.03935 194 Genes down-regulated in A549 cells (lung cancer) after knockdown of ATF4 [Gene ID=468] by RNAi. www.broad.mit.e...
Broad HINATA_NFKB_TARGETS_KERATINOCYTE_UP View Gene Set 0.003221 71 0.03951 195 Genes up-regulated in primary keratinocytes by expression of p50 (NFKB1) and p65 (RELA) [Gene ID=4790 5970] components of NFKB. www.broad.mit.e...
Broad FLECHNER_BIOPSY_KIDNEY_TRANSPLANT_REJECTED_VS_OK_UP View Gene Set 0.003249 86 0.03965 196 Genes differentially expressed in kidney biopsies from patients with acute transplant rejection compared to the biopsies from patients with well functioning kidneys more than 1-year post transplant. www.broad.mit.e...
Broad PARENT_MTOR_SIGNALING_UP View Gene Set 0.003306 541 0.03999 197 Genes up-regulated in HepaRG cells (liver cancer) expressing constituvely active form of MTOR [Gene ID=2475]. www.broad.mit.e...
Broad HAN_SATB1_TARGETS_UP View Gene Set 0.003312 303 0.03999 197 Genes up-regulated in MDA-MB-231 cells (breast cancer) after knockdown of SATB1 [Gene ID=6304] by RNAi. www.broad.mit.e...
Broad WANG_CISPLATIN_RESPONSE_AND_XPC_UP View Gene Set 0.003327 135 0.03999 197 Genes up-regulated in fibroblasts with defective XPC [Gene ID=7508] in response to cisplatin [PubChem=2767]. www.broad.mit.e...
Broad MUELLER_METHYLATED_IN_GLIOBLASTOMA View Gene Set 0.003345 42 0.04 200 Genes up-regulated in short-term cultured glioblastomas after azacitidine [PubChem=9444] treatment. www.broad.mit.e...

Gene Set Collection: Broad.c2.CP.KEGG

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad KEGG_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450 View Gene Set 2.723e-05 70 0.002352 1 Metabolism of xenobiotics by cytochrome P450 www.broad.mit.e...
Broad KEGG_DRUG_METABOLISM_CYTOCHROME_P450 View Gene Set 3.319e-05 72 0.002352 1 Drug metabolism - cytochrome P450 www.broad.mit.e...
Broad KEGG_PEROXISOME View Gene Set 3.794e-05 78 0.002352 1 Peroxisome www.broad.mit.e...
Broad KEGG_GLUTATHIONE_METABOLISM View Gene Set 7.211e-05 50 0.003353 4 Glutathione metabolism www.broad.mit.e...
Broad KEGG_LYSOSOME View Gene Set 0.0005388 122 0.02004 5 Lysosome www.broad.mit.e...
Broad KEGG_STEROID_BIOSYNTHESIS View Gene Set 0.002047 17 0.04759 6 Steroid biosynthesis www.broad.mit.e...
Broad KEGG_OXIDATIVE_PHOSPHORYLATION View Gene Set 0.001836 135 0.04759 6 Oxidative phosphorylation www.broad.mit.e...
Broad KEGG_GLYCOSAMINOGLYCAN_BIOSYNTHESIS_KERATAN_SULFATE View Gene Set 0.001755 15 0.04759 6 Glycosaminoglycan biosynthesis - keratan sulfate www.broad.mit.e...
Broad KEGG_GLYCINE_SERINE_AND_THREONINE_METABOLISM View Gene Set 0.002389 31 0.04938 9 Glycine serine and threonine metabolism www.broad.mit.e...

Gene Set Collection: Broad.c4.CGN

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad GNF2_HLA-C View Gene Set 3.381e-05 44 0.01097 1 Neighborhood of HLA-C www.broad.mit.e...
Broad GNF2_LYN View Gene Set 7.513e-05 26 0.01097 1 Neighborhood of LYN www.broad.mit.e...
Broad GNF2_SERPINB5 View Gene Set 7.71e-05 25 0.01097 1 Neighborhood of SERPINB5 www.broad.mit.e...
Broad GNF2_CDH3 View Gene Set 0.0001169 24 0.01248 4 Neighborhood of CDH3 www.broad.mit.e...
Broad GNF2_CD53 View Gene Set 0.0001921 54 0.01641 5 Neighborhood of CD53 www.broad.mit.e...
Broad GNF2_CD48 View Gene Set 0.0003248 31 0.02311 6 Neighborhood of CD48 www.broad.mit.e...
Broad GNF2_PTPRC View Gene Set 0.0005657 60 0.0302 7 Neighborhood of PTPRC www.broad.mit.e...
Broad GNF2_STAT6 View Gene Set 0.0005125 75 0.0302 7 Neighborhood of STAT6 www.broad.mit.e...
Broad GNF2_PTPN6 View Gene Set 0.000758 44 0.03596 9 Neighborhood of PTPN6 www.broad.mit.e...
Broad GNF2_RAB3A View Gene Set 0.001018 34 0.03951 10 Neighborhood of RAB3A www.broad.mit.e...
Broad GNF2_VAV1 View Gene Set 0.001007 34 0.03951 10 Neighborhood of VAV1 www.broad.mit.e...
Broad GNF2_INPP5D View Gene Set 0.001253 38 0.04458 12 Neighborhood of INPP5D www.broad.mit.e...

Gene Set Collection: Broad.c4.CM

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad module_6 View Gene Set 5.788e-10 403 2.04e-07 1 Genes in module_6 www.broad.mit.e...
Broad module_180 View Gene Set 8.985e-10 113 2.04e-07 1 Genes in module_180 www.broad.mit.e...
Broad module_151 View Gene Set 7.347e-09 297 1.112e-06 3 Genes in module_151 www.broad.mit.e...
Broad module_114 View Gene Set 1.795e-08 314 2.037e-06 4 Genes in module_114 www.broad.mit.e...
Broad module_88 View Gene Set 3.341e-08 812 3.034e-06 5 Genes in module_88 www.broad.mit.e...
Broad module_23 View Gene Set 7.68e-08 552 5.389e-06 6 Genes in module_23 www.broad.mit.e...
Broad module_139 View Gene Set 8.31e-08 74 5.389e-06 6 Genes in module_139 www.broad.mit.e...
Broad module_342 View Gene Set 1.253e-07 195 7.112e-06 8 Genes in module_342 www.broad.mit.e...
Broad module_5 View Gene Set 2.456e-07 420 1.133e-05 9 Genes in module_5 www.broad.mit.e...
Broad module_45 View Gene Set 2.496e-07 563 1.133e-05 9 Genes in module_45 www.broad.mit.e...
Broad module_55 View Gene Set 2.928e-07 807 1.208e-05 11 Genes in module_55 www.broad.mit.e...
Broad module_212 View Gene Set 3.705e-07 316 1.402e-05 12 Genes in module_212 www.broad.mit.e...
Broad module_137 View Gene Set 4.704e-07 525 1.643e-05 13 Genes in module_137 www.broad.mit.e...
Broad module_93 View Gene Set 5.433e-07 180 1.762e-05 14 Genes in module_93 www.broad.mit.e...
Broad module_11 View Gene Set 6.146e-07 520 1.86e-05 15 Genes in module_11 www.broad.mit.e...
Broad module_66 View Gene Set 1.092e-06 530 3.1e-05 16 Genes in module_66 www.broad.mit.e...
Broad module_100 View Gene Set 1.207e-06 523 3.225e-05 17 Genes in module_100 www.broad.mit.e...
Broad module_44 View Gene Set 2.909e-06 319 7.338e-05 18 Genes in module_44 www.broad.mit.e...
Broad module_38 View Gene Set 1.638e-05 453 0.0003914 19 Genes in module_38 www.broad.mit.e...
Broad module_29 View Gene Set 2.102e-05 28 0.0004771 20 Genes in module_29 www.broad.mit.e...
Broad module_101 View Gene Set 5.839e-05 10 0.001205 21 Genes in module_101 www.broad.mit.e...
Broad module_144 View Gene Set 5.709e-05 8 0.001205 21 Genes in module_144 www.broad.mit.e...
Broad module_132 View Gene Set 7.411e-05 13 0.001463 23 Genes in module_132 www.broad.mit.e...
Broad module_24 View Gene Set 8.097e-05 443 0.001532 24 Genes in module_24 www.broad.mit.e...
Broad module_60 View Gene Set 0.0001303 403 0.002365 25 Genes in module_60 www.broad.mit.e...
Broad module_84 View Gene Set 0.0001686 526 0.002836 26 Genes in module_84 www.broad.mit.e...
Broad module_92 View Gene Set 0.000165 146 0.002836 26 Genes in module_92 www.broad.mit.e...
Broad module_12 View Gene Set 0.0002197 346 0.003563 28 Genes in module_12 www.broad.mit.e...
Broad module_143 View Gene Set 0.0003267 14 0.005115 29 Genes in module_143 www.broad.mit.e...
Broad module_2 View Gene Set 0.0003844 373 0.005818 30 Genes in module_2 www.broad.mit.e...
Broad module_310 View Gene Set 0.0004074 21 0.005966 31 Genes in module_310 www.broad.mit.e...
Broad module_106 View Gene Set 0.0004512 14 0.006401 32 Genes in module_106 www.broad.mit.e...
Broad module_87 View Gene Set 0.0006258 44 0.008609 33 Genes in module_87 www.broad.mit.e...
Broad module_26 View Gene Set 0.0007358 178 0.009825 34 Genes in module_26 www.broad.mit.e...
Broad module_249 View Gene Set 0.0007999 21 0.01038 35 Genes in module_249 www.broad.mit.e...
Broad module_83 View Gene Set 0.0008842 296 0.01085 36 Genes in module_83 www.broad.mit.e...
Broad module_389 View Gene Set 0.0008728 182 0.01085 36 Genes in module_389 www.broad.mit.e...
Broad module_223 View Gene Set 0.000936 140 0.01118 38 Genes in module_223 www.broad.mit.e...
Broad module_116 View Gene Set 0.0009837 29 0.01145 39 Genes in module_116 www.broad.mit.e...
Broad module_33 View Gene Set 0.001088 369 0.01204 40 Genes in module_33 www.broad.mit.e...
Broad module_86 View Gene Set 0.001077 43 0.01204 40 Genes in module_86 www.broad.mit.e...
Broad module_286 View Gene Set 0.001184 37 0.0128 42 Genes in module_286 www.broad.mit.e...
Broad module_488 View Gene Set 0.001253 28 0.01323 43 Genes in module_488 www.broad.mit.e...
Broad module_135 View Gene Set 0.001428 25 0.01473 44 Genes in module_135 www.broad.mit.e...
Broad module_293 View Gene Set 0.001509 12 0.01523 45 Genes in module_293 www.broad.mit.e...
Broad module_172 View Gene Set 0.00163 93 0.01575 46 Genes in module_172 www.broad.mit.e...
Broad module_456 View Gene Set 0.0016 108 0.01575 46 Genes in module_456 www.broad.mit.e...
Broad module_357 View Gene Set 0.002118 78 0.02003 48 Genes in module_357 www.broad.mit.e...
Broad module_530 View Gene Set 0.002303 16 0.02134 49 Genes in module_530 www.broad.mit.e...
Broad module_163 View Gene Set 0.00252 495 0.02288 50 Genes in module_163 www.broad.mit.e...
Broad module_95 View Gene Set 0.002633 490 0.02344 51 Genes in module_95 www.broad.mit.e...
Broad module_426 View Gene Set 0.002865 82 0.02502 52 Genes in module_426 www.broad.mit.e...
Broad module_63 View Gene Set 0.003111 210 0.02665 53 Genes in module_63 www.broad.mit.e...
Broad module_297 View Gene Set 0.003382 78 0.02843 54 Genes in module_297 www.broad.mit.e...
Broad module_152 View Gene Set 0.003769 121 0.03111 55 Genes in module_152 www.broad.mit.e...
Broad module_436 View Gene Set 0.004778 129 0.03874 56 Genes in module_436 www.broad.mit.e...
Broad module_129 View Gene Set 0.005178 215 0.04124 57 Genes in module_129 www.broad.mit.e...
Broad module_75 View Gene Set 0.005281 391 0.04133 58 Genes in module_75 www.broad.mit.e...
Broad module_15 View Gene Set 0.005729 347 0.04145 59 Genes in module_15 www.broad.mit.e...
Broad module_43 View Gene Set 0.005474 97 0.04145 59 Genes in module_43 www.broad.mit.e...
Broad module_46 View Gene Set 0.005524 386 0.04145 59 Genes in module_46 www.broad.mit.e...
Broad module_119 View Gene Set 0.005716 135 0.04145 59 Genes in module_119 www.broad.mit.e...
Broad module_345 View Gene Set 0.005752 118 0.04145 59 Genes in module_345 www.broad.mit.e...
Broad module_491 View Gene Set 0.006456 74 0.0458 64 Genes in module_491 www.broad.mit.e...
Broad module_432 View Gene Set 0.00675 15 0.04714 65 Genes in module_432 www.broad.mit.e...
Broad module_154 View Gene Set 0.006864 73 0.04721 66 Genes in module_154 www.broad.mit.e...
Broad module_107 View Gene Set 0.007362 77 0.04943 67 Genes in module_107 www.broad.mit.e...
Broad module_327 View Gene Set 0.007404 21 0.04943 67 Genes in module_327 www.broad.mit.e...

Gene Set Collection: Broad.c5.CC

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad INTRINSIC_TO_PLASMA_MEMBRANE View Gene Set 7.289e-06 978 0.0004366 1 Genes annotated by the GO term GO:0031226. Located in the plasma membrane such that some covalently attached portion of the gene product for example part of a peptide sequence or some other covalently attached moiety such as a GPI anchor spans or is embedded in one or both leaflets of the membrane. www.broad.mit.e...
Broad INTRINSIC_TO_MEMBRANE View Gene Set 5.078e-06 1319 0.0004366 1 Genes annotated by the GO term GO:0031224. Located in a membrane such that some covalently attached portion of the gene product for example part of a peptide sequence or some other covalently attached moiety such as a GPI anchor spans or is embedded in one or both leaflets of the membrane. www.broad.mit.e...
Broad MEMBRANE View Gene Set 1.124e-05 1939 0.0004366 1 Genes annotated by the GO term GO:0016020. Double layer of lipid molecules that encloses all cells and in eukaryotes many organelles; may be a single or double lipid bilayer; also includes associated proteins. www.broad.mit.e...
Broad INTEGRAL_TO_MEMBRANE View Gene Set 8.784e-06 1301 0.0004366 1 Genes annotated by the GO term GO:0016021. Penetrating at least one phospholipid bilayer of a membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer. When used to describe a protein indicates that all or part of the peptide sequence is embedded in the membrane. www.broad.mit.e...
Broad INTEGRAL_TO_PLASMA_MEMBRANE View Gene Set 1.08e-05 964 0.0004366 1 Genes annotated by the GO term GO:0005887. Penetrating at least one phospholipid bilayer of a plasma membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer. www.broad.mit.e...
Broad PLASMA_MEMBRANE_PART View Gene Set 8.65e-06 1142 0.0004366 1 Genes annotated by the GO term GO:0044459. Any constituent part of the plasma membrane the membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins. www.broad.mit.e...
Broad MEMBRANE_PART View Gene Set 1.622e-05 1632 0.0005401 7 Genes annotated by the GO term GO:0044425. Any constituent part of a membrane a double layer of lipid molecules that encloses all cells and in eukaryotes many organelles; may be a single or double lipid bilayer; also includes associated proteins. www.broad.mit.e...
Broad PLASMA_MEMBRANE View Gene Set 2.999e-05 1392 0.0008734 8 Genes annotated by the GO term GO:0005886. The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins. www.broad.mit.e...
Broad PEROXISOMAL_PART View Gene Set 4.753e-05 13 0.0009229 9 Genes annotated by the GO term GO:0044439. Any constituent part of a peroxisome a small membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules; contains some enzymes that produce and others that degrade hydrogen peroxide (H2O2). www.broad.mit.e...
Broad MICROBODY_PART View Gene Set 4.753e-05 13 0.0009229 9 Genes annotated by the GO term GO:0044438. Any constituent part of a microbody a cytoplasmic organelle spherical or oval in shape that is bounded by a single membrane and contains oxidative enzymes especially those utilizing hydrogen peroxide (H2O2). www.broad.mit.e...
Broad MICROBODY View Gene Set 4.502e-05 46 0.0009229 9 Genes annotated by the GO term GO:0042579. Cytoplasmic organelles spherical or oval in shape that are bounded by a single membrane and contain oxidative enzymes especially those utilizing hydrogen peroxide (H2O2). www.broad.mit.e...
Broad PEROXISOME View Gene Set 4.502e-05 46 0.0009229 9 Genes annotated by the GO term GO:0005777. A small membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules; contains some enzymes that produce and others that degrade hydrogen peroxide (H2O2). www.broad.mit.e...
Broad PEROXISOMAL_MEMBRANE View Gene Set 0.0001822 12 0.003032 13 Genes annotated by the GO term GO:0005778. The lipid bilayer surrounding a peroxisome. www.broad.mit.e...
Broad MICROBODY_MEMBRANE View Gene Set 0.0001822 12 0.003032 13 Genes annotated by the GO term GO:0031903. The lipid bilayer surrounding a microbody. www.broad.mit.e...
Broad CYTOPLASMIC_PART View Gene Set 0.0004706 1350 0.00731 15 Genes annotated by the GO term GO:0044444. Any constituent part of the cytoplasm all of the contents of a cell excluding the plasma membrane and nucleus but including other subcellular structures. www.broad.mit.e...
Broad VACUOLE View Gene Set 0.0007777 68 0.01133 16 Genes annotated by the GO term GO:0005773. A closed structure found only in eukaryotic cells that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products as a degradative compartment as a cost-effective way of increasing cell size and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol. www.broad.mit.e...
Broad EXTERNAL_SIDE_OF_PLASMA_MEMBRANE View Gene Set 0.001701 16 0.02331 17 Genes annotated by the GO term GO:0009897. The side of the plasma membrane that is opposite to the side that faces the cytoplasm. www.broad.mit.e...
Broad CYTOPLASM View Gene Set 0.0028 2054 0.03541 18 Genes annotated by the GO term GO:0005737. All of the contents of a cell excluding the plasma membrane and nucleus but including other subcellular structures. www.broad.mit.e...
Broad CYTOPLASMIC_MEMBRANE_BOUND_VESICLE View Gene Set 0.002888 111 0.03541 18 Genes annotated by the GO term GO:0016023. A membrane-bound vesicle found in the cytoplasm of the cell. www.broad.mit.e...
Broad CYTOPLASMIC_VESICLE View Gene Set 0.003116 115 0.0363 20 Genes annotated by the GO term GO:0031410. A vesicle formed of membrane or protein found in the cytoplasm of a cell. www.broad.mit.e...
Broad MEMBRANE_BOUND_VESICLE View Gene Set 0.00346 113 0.03839 21 Genes annotated by the GO term GO:0031988. Any small fluid-filled spherical organelle enclosed by a lipid bilayer. www.broad.mit.e...
Broad CELL_SURFACE View Gene Set 0.004284 76 0.04339 22 Genes annotated by the GO term GO:0009986. The external part of the cell wall and/or plasma membrane. www.broad.mit.e...
Broad CYTOSOL View Gene Set 0.00427 203 0.04339 22 Genes annotated by the GO term GO:0005829. That part of the cytoplasm that does not contain membranous or particulate subcellular components. www.broad.mit.e...

Gene Set Collection: Broad.c5.MF

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Broad OXIDOREDUCTASE_ACTIVITY View Gene Set 1.555e-05 280 0.00308 1 Genes annotated by the GO term GO:0016491. Catalysis of an oxidation-reduction (redox) reaction a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized while the other acts as hydrogen or electron acceptor and becomes reduced. www.broad.mit.e...
Broad OXIDOREDUCTASE_ACTIVITY_ACTING_ON_CH_OH_GROUP_OF_DONORS View Gene Set 1.375e-05 63 0.00308 1 Genes annotated by the GO term GO:0016614. Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor. www.broad.mit.e...
Broad GLUTATHIONE_TRANSFERASE_ACTIVITY View Gene Set 5.626e-05 15 0.007426 3 Genes annotated by the GO term GO:0004364. Catalysis of the reaction: R-X + glutathione = H-X + R-S-glutathione. R may be an aliphatic aromatic or heterocyclic group; X may be a sulfate nitrile or halide group. www.broad.mit.e...
Broad OXIDOREDUCTASE_ACTIVITY_GO_0016616 View Gene Set 7.733e-05 57 0.007656 4 Genes annotated by the GO term GO:0016616. Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP. www.broad.mit.e...
Broad PROTEASE_INHIBITOR_ACTIVITY View Gene Set 0.0001538 41 0.01218 5 Genes annotated by the GO term GO:0030414. Stops prevents or reduces the activity of a protease any enzyme catalyzes the hydrolysis peptide bonds. www.broad.mit.e...

Gene Set Collection: PMID

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
PMID 15078178 View Gene Set 3.422e-06 19 0.006556 1 HIV/SIV escape from immune surveillance: focus on Nef. www.ncbi.nlm.ni...
PMID 19692168 View Gene Set 5.23e-06 422 0.006556 1 Genetic susceptibility to distinct bladder cancer subphenotypes. www.ncbi.nlm.ni...
PMID 12975309 View Gene Set 3.146e-05 1000 0.02306 3 The secreted protein discovery initiative (SPDI) a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. www.ncbi.nlm.ni...
PMID 18258609 View Gene Set 7.226e-05 14 0.02306 3 A comprehensive analysis of phase I and phase II metabolism gene polymorphisms and risk of non-small cell lung cancer in smokers. www.ncbi.nlm.ni...
PMID 18676680 View Gene Set 7.29e-05 381 0.02306 3 Pathway-based evaluation of 380 candidate genes and lung cancer susceptibility suggests the importance of the cell cycle pathway. www.ncbi.nlm.ni...
PMID 19027726 View Gene Set 6.577e-05 73 0.02306 3 The SDR (short-chain dehydrogenase/reductase and related enzymes) nomenclature initiative. www.ncbi.nlm.ni...
PMID 19170196 View Gene Set 8.305e-05 384 0.02306 3 Polymorphisms in innate immunity genes and lung cancer risk in Xuanwei China. www.ncbi.nlm.ni...
PMID 19343046 View Gene Set 9.198e-05 193 0.02306 3 Association study between single-nucleotide polymorphisms in 199 drug-related genes and commonly measured quantitative traits of 752 healthy Japanese subjects. www.ncbi.nlm.ni...
PMID 20029944 View Gene Set 8.914e-05 11 0.02306 3 Genetic polymorphisms in the metabolic pathway and non-Hodgkin lymphoma survival. www.ncbi.nlm.ni...
PMID 20136364 View Gene Set 8.666e-05 16 0.02306 3 Errors and reproducibility of DNA array-based detection of allelic variants in ADME genes: PHARMAchip. www.ncbi.nlm.ni...
PMID 19424794 View Gene Set 0.0001255 17 0.02431 11 Genetic polymorphisms in phase I and phase II enzymes and breast cancer risk associated with menopausal hormone therapy in postmenopausal women. www.ncbi.nlm.ni...
PMID 19625176 View Gene Set 0.000121 376 0.02431 11 PTEN identified as important risk factor of chronic obstructive pulmonary disease. www.ncbi.nlm.ni...
PMID 19851445 View Gene Set 0.0001261 176 0.02431 11 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 20032816 View Gene Set 0.0001396 10 0.02488 14 The GSTP1 Ile105 Val polymorphism modifies the metabolism of toluene di-isocyanate. www.ncbi.nlm.ni...
PMID 9442887 View Gene Set 0.0001489 19 0.02488 14 Structure function and regulation of the vacuolar (H+)-ATPase. www.ncbi.nlm.ni...
PMID 10601346 View Gene Set 0.0002028 12 0.02991 16 Direct binding of three tight junction-associated MAGUKs ZO-1 ZO-2 and ZO-3 with the COOH termini of claudins. www.ncbi.nlm.ni...
PMID 16702430 View Gene Set 0.0001925 30 0.02991 16 Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity. www.ncbi.nlm.ni...
PMID 15883184 View Gene Set 0.0002644 31 0.03488 18 Mass spectrometric analysis of the human 40S ribosomal subunit: native and HCV IRES-bound complexes. www.ncbi.nlm.ni...
PMID 7539755 View Gene Set 0.0002535 21 0.03488 18 Modulation of CD4 lateral interaction with lymphocyte surface molecules induced by HIV-1 gp120. www.ncbi.nlm.ni...
PMID 10221984 View Gene Set 0.0004744 18 0.03604 20 Vacuolar and plasma membrane proton-adenosinetriphosphatases. www.ncbi.nlm.ni...
PMID 10224039 View Gene Set 0.0004744 18 0.03604 20 Structure and properties of the vacuolar (H+)-ATPases. www.ncbi.nlm.ni...
PMID 10340843 View Gene Set 0.0004744 18 0.03604 20 Introduction: V-ATPases 1992-1998. www.ncbi.nlm.ni...
PMID 10440860 View Gene Set 0.0004744 18 0.03604 20 Animal plasma membrane energization by proton-motive V-ATPases. www.ncbi.nlm.ni...
PMID 11836511 View Gene Set 0.0004123 22 0.03604 20 The vacuolar (H+)-ATPases--nature's most versatile proton pumps. www.ncbi.nlm.ni...
PMID 12788495 View Gene Set 0.0004123 22 0.03604 20 Proton translocation driven by ATP hydrolysis in V-ATPases. www.ncbi.nlm.ni...
PMID 14580332 View Gene Set 0.0004123 22 0.03604 20 Revised nomenclature for mammalian vacuolar-type H+ -ATPase subunit genes. www.ncbi.nlm.ni...
PMID 14597263 View Gene Set 0.0004123 22 0.03604 20 Neurotransmitter release: the dark side of the vacuolar-H+ATPase. www.ncbi.nlm.ni...
PMID 16091223 View Gene Set 0.0003589 14 0.03604 20 HIV accessory proteins and surviving the host cell. www.ncbi.nlm.ni...
PMID 17449559 View Gene Set 0.000369 15 0.03604 20 Gene-environment interactions in parkinsonism and Parkinson's disease: the Geoparkinson study. www.ncbi.nlm.ni...
PMID 18990750 View Gene Set 0.0003854 15 0.03604 20 Red meat intake doneness polymorphisms in genes that encode carcinogen-metabolizing enzymes and colorectal cancer risk. www.ncbi.nlm.ni...
PMID 19558318 View Gene Set 0.0003066 10 0.03604 20 Association between kallikrein-related peptidases (KLKs) and macroscopic indicators of semen analysis: their relation to sperm motility. www.ncbi.nlm.ni...
PMID 20461808 View Gene Set 0.0004145 14 0.03604 20 A case-control study of Parkinson's disease and tobacco use: gene-tobacco interactions. www.ncbi.nlm.ni...
PMID 9210392 View Gene Set 0.0004744 18 0.03604 20 The vacuolar H+-ATPase: a universal proton pump of eukaryotes. www.ncbi.nlm.ni...
PMID 15014966 View Gene Set 0.0004934 21 0.03638 34 Sequence organization and matrix attachment regions of the human serine protease inhibitor gene cluster at 14q32.1. www.ncbi.nlm.ni...
PMID 17149600 View Gene Set 0.0005387 10 0.03858 35 Genetic polymorphisms in the oxidative stress pathway and susceptibility to non-Hodgkin lymphoma. www.ncbi.nlm.ni...
PMID 11054574 View Gene Set 0.0006808 14 0.04622 36 Sequencing and expression analysis of the serine protease gene cluster located in chromosome 19q13 region. www.ncbi.nlm.ni...
PMID 8706699 View Gene Set 0.0006821 35 0.04622 36 Characterization of the human small-ribosomal-subunit proteins by N-terminal and internal sequencing and mass spectrometry. www.ncbi.nlm.ni...
PMID 16543247 View Gene Set 0.0007435 10 0.04905 38 Polymorphisms in oxidative stress genes and risk for non-Hodgkin lymphoma. www.ncbi.nlm.ni...

Gene Set Collection: Prosite

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null PS50404 View Gene Set 3.8e-07 25 0.0002793 1 GST_NTER expasy.org/pros...
Null PS50405 View Gene Set 1.25e-05 38 0.004594 2 GST_CTER expasy.org/pros...
Null PS50003 View Gene Set 6.335e-05 259 0.01552 3 PH_DOMAIN expasy.org/pros...

Gene Set Collection: Enzyme

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null EC:2.5.1.18 View Gene Set 1.905e-06 20 0.000301 1 Glutathione transferase expasy.org/enzy...
Null EC:3.6.3.14 View Gene Set 8.975e-05 45 0.00709 2 H(+)-transporting two-sector ATPase expasy.org/enzy...

Gene Set Collection: pathwayCommons.humancyc

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null glutathione-mediated detoxification View Gene Set 4.785e-07 19 0.0001244 1 HUMANCYC - glutathione-mediated detoxification gene set www.pathwaycomm...

Gene Set Collection: mirbase.targets

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null hsa-miR-484 View Gene Set 7.802e-09 733 5.547e-06 1 microRNA targets for hsa-miR-484 from mirbase.targets www.mirbase.org...
Null hsa-miR-874 View Gene Set 3.063e-08 722 1.089e-05 2 microRNA targets for hsa-miR-874 from mirbase.targets www.mirbase.org...
Null hsa-miR-328 View Gene Set 1.389e-07 685 3.291e-05 3 microRNA targets for hsa-miR-328 from mirbase.targets www.mirbase.org...
Null hsa-miR-296-5p View Gene Set 3.836e-07 755 6.819e-05 4 microRNA targets for hsa-miR-296-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-615-5p View Gene Set 5.724e-07 848 8.139e-05 5 microRNA targets for hsa-miR-615-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-339-3p View Gene Set 9.224e-06 797 0.001093 6 microRNA targets for hsa-miR-339-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-124 View Gene Set 1.237e-05 793 0.001123 7 microRNA targets for hsa-miR-124 from mirbase.targets www.mirbase.org...
Null hsa-miR-661 View Gene Set 1.264e-05 575 0.001123 7 microRNA targets for hsa-miR-661 from mirbase.targets www.mirbase.org...
Null hsa-miR-26b* View Gene Set 1.933e-05 555 0.001374 9 microRNA targets for hsa-miR-26b* from mirbase.targets www.mirbase.org...
Null hsa-miR-877* View Gene Set 1.745e-05 479 0.001374 9 microRNA targets for hsa-miR-877* from mirbase.targets www.mirbase.org...
Null hsa-miR-129-3p View Gene Set 3.377e-05 712 0.002001 11 microRNA targets for hsa-miR-129-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-554 View Gene Set 3.354e-05 708 0.002001 11 microRNA targets for hsa-miR-554 from mirbase.targets www.mirbase.org...
Null hsa-miR-572 View Gene Set 3.876e-05 602 0.00212 13 microRNA targets for hsa-miR-572 from mirbase.targets www.mirbase.org...
Null hsa-miR-18a* View Gene Set 4.817e-05 491 0.00229 14 microRNA targets for hsa-miR-18a* from mirbase.targets www.mirbase.org...
Null hsa-miR-564 View Gene Set 4.831e-05 706 0.00229 14 microRNA targets for hsa-miR-564 from mirbase.targets www.mirbase.org...
Null hsa-miR-483-3p View Gene Set 7.832e-05 702 0.003481 16 microRNA targets for hsa-miR-483-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-326 View Gene Set 8.975e-05 650 0.003545 17 microRNA targets for hsa-miR-326 from mirbase.targets www.mirbase.org...
Null hsa-miR-615-3p View Gene Set 8.536e-05 757 0.003545 17 microRNA targets for hsa-miR-615-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-663 View Gene Set 0.0001017 743 0.003804 19 microRNA targets for hsa-miR-663 from mirbase.targets www.mirbase.org...
Null hsa-miR-516a-3p View Gene Set 0.0001379 780 0.004902 20 microRNA targets for hsa-miR-516a-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-18b* View Gene Set 0.0001536 565 0.005202 21 microRNA targets for hsa-miR-18b* from mirbase.targets www.mirbase.org...
Null hsa-miR-486-3p View Gene Set 0.0001791 773 0.005787 22 microRNA targets for hsa-miR-486-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-454* View Gene Set 0.0001876 429 0.005798 23 microRNA targets for hsa-miR-454* from mirbase.targets www.mirbase.org...
Null hsa-miR-146a* View Gene Set 0.0002177 556 0.006143 24 microRNA targets for hsa-miR-146a* from mirbase.targets www.mirbase.org...
Null hsa-miR-324-3p View Gene Set 0.0002246 788 0.006143 24 microRNA targets for hsa-miR-324-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-940 View Gene Set 0.0002146 660 0.006143 24 microRNA targets for hsa-miR-940 from mirbase.targets www.mirbase.org...
Null hsa-miR-623 View Gene Set 0.0003219 693 0.008174 27 microRNA targets for hsa-miR-623 from mirbase.targets www.mirbase.org...
Null hsa-miR-886-5p View Gene Set 0.0003208 793 0.008174 27 microRNA targets for hsa-miR-886-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-485-5p View Gene Set 0.0003341 556 0.008192 29 microRNA targets for hsa-miR-485-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-185* View Gene Set 0.0004559 506 0.01073 30 microRNA targets for hsa-miR-185* from mirbase.targets www.mirbase.org...
Null hsa-miR-199a-5p View Gene Set 0.0004866 826 0.01073 30 microRNA targets for hsa-miR-199a-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-423-5p View Gene Set 0.0005131 767 0.01073 30 microRNA targets for hsa-miR-423-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-542-5p View Gene Set 0.0005091 774 0.01073 30 microRNA targets for hsa-miR-542-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-871 View Gene Set 0.0004907 707 0.01073 30 microRNA targets for hsa-miR-871 from mirbase.targets www.mirbase.org...
Null hsa-let-7c* View Gene Set 0.0006642 755 0.01243 35 microRNA targets for hsa-let-7c* from mirbase.targets www.mirbase.org...
Null hsa-miR-193b View Gene Set 0.0006561 716 0.01243 35 microRNA targets for hsa-miR-193b from mirbase.targets www.mirbase.org...
Null hsa-miR-339-5p View Gene Set 0.0006505 659 0.01243 35 microRNA targets for hsa-miR-339-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-502-5p View Gene Set 0.0006223 730 0.01243 35 microRNA targets for hsa-miR-502-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-525-3p View Gene Set 0.0007536 790 0.01374 39 microRNA targets for hsa-miR-525-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-760 View Gene Set 0.0007971 690 0.01417 40 microRNA targets for hsa-miR-760 from mirbase.targets www.mirbase.org...
Null hsa-miR-127-3p View Gene Set 0.0008313 653 0.01442 41 microRNA targets for hsa-miR-127-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-342-5p View Gene Set 0.000931 698 0.01576 42 microRNA targets for hsa-miR-342-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-145 View Gene Set 0.001029 746 0.01701 43 microRNA targets for hsa-miR-145 from mirbase.targets www.mirbase.org...
Null hsa-miR-769-5p View Gene Set 0.001065 790 0.01721 44 microRNA targets for hsa-miR-769-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-129* View Gene Set 0.001202 504 0.01896 45 microRNA targets for hsa-miR-129* from mirbase.targets www.mirbase.org...
Null hsa-miR-149 View Gene Set 0.001227 602 0.01896 45 microRNA targets for hsa-miR-149 from mirbase.targets www.mirbase.org...
Null hsa-miR-10b* View Gene Set 0.001358 651 0.01906 47 microRNA targets for hsa-miR-10b* from mirbase.targets www.mirbase.org...
Null hsa-miR-146b-3p View Gene Set 0.001344 695 0.01906 47 microRNA targets for hsa-miR-146b-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-191* View Gene Set 0.001306 462 0.01906 47 microRNA targets for hsa-miR-191* from mirbase.targets www.mirbase.org...
Null hsa-miR-193a-5p View Gene Set 0.001321 767 0.01906 47 microRNA targets for hsa-miR-193a-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-654-5p View Gene Set 0.00138 718 0.01906 47 microRNA targets for hsa-miR-654-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-937 View Gene Set 0.001394 654 0.01906 47 microRNA targets for hsa-miR-937 from mirbase.targets www.mirbase.org...
Null hsa-miR-639 View Gene Set 0.001458 561 0.01956 53 microRNA targets for hsa-miR-639 from mirbase.targets www.mirbase.org...
Null hsa-miR-204 View Gene Set 0.001897 640 0.02498 54 microRNA targets for hsa-miR-204 from mirbase.targets www.mirbase.org...
Null hsa-miR-875-3p View Gene Set 0.001986 739 0.02567 55 microRNA targets for hsa-miR-875-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-659 View Gene Set 0.002078 705 0.02638 56 microRNA targets for hsa-miR-659 from mirbase.targets www.mirbase.org...
Null hsa-miR-324-5p View Gene Set 0.002316 801 0.02888 57 microRNA targets for hsa-miR-324-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-370 View Gene Set 0.002406 710 0.02949 58 microRNA targets for hsa-miR-370 from mirbase.targets www.mirbase.org...
Null hsa-miR-455-3p View Gene Set 0.002638 824 0.03179 59 microRNA targets for hsa-miR-455-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-330-3p View Gene Set 0.002742 765 0.03249 60 microRNA targets for hsa-miR-330-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-768-5p View Gene Set 0.002831 763 0.033 61 microRNA targets for hsa-miR-768-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-647 View Gene Set 0.002943 724 0.03375 62 microRNA targets for hsa-miR-647 from mirbase.targets www.mirbase.org...
Null hsa-miR-188-5p View Gene Set 0.003094 732 0.03491 63 microRNA targets for hsa-miR-188-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-34c-5p View Gene Set 0.003167 879 0.03518 64 microRNA targets for hsa-miR-34c-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-30c-2* View Gene Set 0.003292 758 0.03601 65 microRNA targets for hsa-miR-30c-2* from mirbase.targets www.mirbase.org...
Null hsa-miR-412 View Gene Set 0.003547 627 0.03821 66 microRNA targets for hsa-miR-412 from mirbase.targets www.mirbase.org...
Null hsa-miR-637 View Gene Set 0.003829 672 0.04064 67 microRNA targets for hsa-miR-637 from mirbase.targets www.mirbase.org...
Null hsa-miR-520d-3p View Gene Set 0.004057 852 0.04242 68 microRNA targets for hsa-miR-520d-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-486-5p View Gene Set 0.004315 729 0.0434 69 microRNA targets for hsa-miR-486-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-588 View Gene Set 0.004334 660 0.0434 69 microRNA targets for hsa-miR-588 from mirbase.targets www.mirbase.org...
Null hsa-miR-631 View Gene Set 0.004227 714 0.0434 69 microRNA targets for hsa-miR-631 from mirbase.targets www.mirbase.org...
Null hsa-miR-194* View Gene Set 0.005054 502 0.04923 72 microRNA targets for hsa-miR-194* from mirbase.targets www.mirbase.org...
Null hsa-miR-346 View Gene Set 0.005015 568 0.04923 72 microRNA targets for hsa-miR-346 from mirbase.targets www.mirbase.org...

Gene Set Collection: miRNAtargetUnion

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null mirbase.mirtarget2.targetscan.targetsUnion.hsa-miR-328 View Gene Set 9.097e-06 872 0.02105 1 microRNA targets for mirbase.mirtarget2.targetscan.targetsUnion.hsa-miR-328 from miRNAtargetUnion www.mirbase.org...

Gene Set Collection: hprdBatch.UP

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null TNF-alpha Signaling Pathway View Gene Set 9.815e-05 728 0.001963 1 From NetPath for TNF-alpha Signaling Pathway www.netpath.org...
Null Androgen Receptor Signaling Pathway View Gene Set 0.0004196 437 0.004196 2 From NetPath for Androgen Receptor Signaling Pathway www.netpath.org...

Gene Set Collection: hprdBatch.DOWN

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null EGFR1 Signaling Pathway View Gene Set 4.743e-06 98 9.011e-05 1 From NetPath for EGFR1 Signaling Pathway www.netpath.org...
Null TGF-beta Receptor Signaling Pathway View Gene Set 0.0001796 739 0.001706 2 From NetPath for TGF-beta Receptor Signaling Pathway www.netpath.org...

Gene Set Collection: hprdBatch.DIFFERENT

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null Androgen Receptor Signaling Pathway View Gene Set 0.0001027 586 0.001027 1 From NetPath for Androgen Receptor Signaling Pathway www.netpath.org...
Null TNF-alpha Signaling Pathway View Gene Set 8.783e-05 863 0.001027 1 From NetPath for TNF-alpha Signaling Pathway www.netpath.org...
Null EGFR1 Signaling Pathway View Gene Set 0.0008168 253 0.005445 3 From NetPath for EGFR1 Signaling Pathway www.netpath.org...
Null IL-1 Signaling Pathway View Gene Set 0.004683 233 0.0234 4 From NetPath for IL-1 Signaling Pathway www.netpath.org...
Null IL-4 Signaling Pathway View Gene Set 0.00702 301 0.0234 4 From NetPath for IL-4 Signaling Pathway www.netpath.org...
Null TGF-beta Receptor Signaling Pathway View Gene Set 0.006555 1296 0.0234 4 From NetPath for TGF-beta Receptor Signaling Pathway www.netpath.org...

Gene Set Collection: hprdManual.UP

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null TNFalpha View Gene Set 0.0008605 113 0.02065 1 From NetPath for TNFalpha www.netpath.org...

Gene Set Collection: hprdManual.DOWN

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null TGF_beta_Receptor View Gene Set 0.0005598 399 0.01064 1 From NetPath for TGF_beta_Receptor www.netpath.org...
Null TCR View Gene Set 0.003087 178 0.02933 2 From NetPath for TCR www.netpath.org...

Gene Set Collection: hprdManual.DIFFERENT

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

Gene Set Name GeneSetDescription Value Gene Set Size Corrected Value Ranking Description URL
Null TCR View Gene Set 0.003027 605 0.02421 1 From NetPath for TCR www.netpath.org...
Null TGF_beta_Receptor View Gene Set 0.00274 594 0.02421 1 From NetPath for TGF_beta_Receptor www.netpath.org...
Null TNFalpha View Gene Set 0.001056 121 0.02421 1 From NetPath for TNFalpha www.netpath.org...
Null IL4 View Gene Set 0.008084 269 0.0485 4 From NetPath for IL4 www.netpath.org...