Rank ID GeneSet BroadUrl Description PubMedID NumGenes Contributor p.value p.adj vote.rank avg.rank med.rank min.pvalue min.rank avg.logfc avg.logfc.dir direction significance 1 M2580 LIM_MAMMARY_LUMINAL_MATURE_DN http://www.broadinstitute.org/gsea/msigdb/cards/LIM_MAMMARY_LUMINAL_MATURE_DN.html Genes consistently down-regulated in mature mammary luminal cells both in mouse and human species. 20346151 161/176 Daniel Hollern 1.63907795249668e-31 1.64605275229454e-29 5 502.090909090909 36 4.96690288635362e-33 1 2.3503405258964 2.45384842069519 1 23.8264246783892 2 M2574 LIM_MAMMARY_STEM_CELL_DN http://www.broadinstitute.org/gsea/msigdb/cards/LIM_MAMMARY_STEM_CELL_DN.html Genes consistently down-regulated in mammary stem cells both in mouse and human species. 20346151 572/695 Daniel Hollern 2.19056979270451e-45 6.08205260092077e-43 5 699.757575757576 37 7.30189930901499e-47 1 1.86526084140005 -1.88489861160035 -1 17.2116212346316 3 M2761 NAKAYAMA_SOFT_TISSUE_TUMORS_PCA2_UP http://www.broadinstitute.org/gsea/msigdb/cards/NAKAYAMA_SOFT_TISSUE_TUMORS_PCA2_UP.html Top 100 probe sets contrubuting to the positive side of the 2nd principal component; associated with adipocytic differentiation. 17464315 132/209 Nikolaos Papanikolaou 3.37422657880793e-22 1.94223773804554e-20 15 1197.30303030303 70 1.02249290266907e-23 4 2.27000869644173 2.36810315244778 1 13.2833250203623 4 M2578 LIM_MAMMARY_LUMINAL_MATURE_UP http://www.broadinstitute.org/gsea/msigdb/cards/LIM_MAMMARY_LUMINAL_MATURE_UP.html Genes consistently up-regulated in mature mammary luminal cells both in mouse and human species. 20346151 153/201 Daniel Hollern 3.66174281929211e-24 2.46906087243697e-22 5 580.545454545455 92 1.10961903614913e-25 1 2.1521514777003 -2.22700912800079 -1 22.9651928704689 5 M6744 COLDREN_GEFITINIB_RESISTANCE_DN http://www.broadinstitute.org/gsea/msigdb/cards/COLDREN_GEFITINIB_RESISTANCE_DN.html Genes down-regulated in NSCLC (non-small cell lung carcinoma) cell lines resistant to gefitinib [PubChem=123631] compared to the sensitive ones. 16877703 320/386 Arthur Liberzon 1.22860864724754e-16 3.97194028425232e-15 80 943.848484848485 128 3.72305650681074e-18 11 2.01827460722915 -2.02625065502562 -1 8.49486560454785 6 M2573 LIM_MAMMARY_STEM_CELL_UP http://www.broadinstitute.org/gsea/msigdb/cards/LIM_MAMMARY_STEM_CELL_UP.html Genes consistently up-regulated in mammary stem cells both in mouse and human species. 20346151 691/782 Daniel Hollern 6.6824834063636e-107 3.15413216780362e-103 5 1070.09090909091 134 2.22749446878789e-108 1 2.57875174955902 2.6641977435835 1 72.4049391124617 7 M17299 CHARAFE_BREAST_CANCER_LUMINAL_VS_MESENCHYMAL_UP http://www.broadinstitute.org/gsea/msigdb/cards/CHARAFE_BREAST_CANCER_LUMINAL_VS_MESENCHYMAL_UP.html Genes up-regulated in luminal-like breast cancer cell lines compared to the mesenchymal-like ones. 16288205 583/712 Arthur Liberzon 1.68071819241667e-17 5.96465403624562e-16 125 822.060606060606 142 5.60239397472224e-19 3 1.87958392877843 -1.88560906631987 -1 9.2836829103876 8 M2575 LIM_MAMMARY_LUMINAL_PROGENITOR_UP http://www.broadinstitute.org/gsea/msigdb/cards/LIM_MAMMARY_LUMINAL_PROGENITOR_UP.html Genes consistently up-regulated in mammary luminal progenitor cells both in mouse and human species. 20346151 79/91 Daniel Hollern 3.52703477919527e-32 3.87153585065155e-30 5 620.181818181818 180 1.06879841793796e-33 2 2.90160669596458 -1.76672346706863 -0.333333333333333 37.0459869761774 9 M10605 BERTUCCI_MEDULLARY_VS_DUCTAL_BREAST_CANCER_DN http://www.broadinstitute.org/gsea/msigdb/cards/BERTUCCI_MEDULLARY_VS_DUCTAL_BREAST_CANCER_DN.html Genes down-regulated in medullary breast cancer (MBC) relative to ductal breast cancer (DBD). 16651414 229/309 Arthur Liberzon 1.38346077163868e-17 5.02302680164198e-16 195 708.69696969697 184 4.19230536860205e-19 7 2.18899934058239 2.33701864866195 1 14.1136768695005 10 M1967 MIKKELSEN_IPS_WITH_HCP_H3K27ME3 http://www.broadinstitute.org/gsea/msigdb/cards/MIKKELSEN_IPS_WITH_HCP_H3K27ME3.html Genes with high-CpG-density promoters (HCP) bearing the tri-methylation mark at H3K27 (H3K27me3) in MCV8.1 (induced pluripotent cells, iPS). 18509334 80/196 Jessica Robertson 2.22776475743219e-20 1.0840257376371e-18 195 1098.93939393939 195 6.75080229524903e-22 36 2.79960668835385 1.80000895696551 0.333333333333333 20.1281962731452 11 M12895 CHARAFE_BREAST_CANCER_BASAL_VS_MESENCHYMAL_DN http://www.broadinstitute.org/gsea/msigdb/cards/CHARAFE_BREAST_CANCER_BASAL_VS_MESENCHYMAL_DN.html Genes down-regulated in basal-like breast cancer cell lines as compared to the mesenchymal-like ones. 16288205 87/104 Arthur Liberzon 8.87285732192782e-08 7.24565511410023e-07 90 641.121212121212 201 2.688744758678e-09 20 1.97376659147472 2.0274651689168 1 5.55025265819242 12 M12602 WOO_LIVER_CANCER_RECURRENCE_UP http://www.broadinstitute.org/gsea/msigdb/cards/WOO_LIVER_CANCER_RECURRENCE_UP.html Genes positively correlated with recurrence free survival in patients with hepatitis B-related (HBV) hepatocellular carcinoma (HCC). 18381945 176/200 Yujin Hoshida 3.91895192008763e-18 1.49173008571078e-16 380 605.969696969697 209 1.18756118790534e-19 51 2.25428079800545 2.41111221390305 1 12.6861143228318 13 M19391 LIU_PROSTATE_CANCER_DN http://www.broadinstitute.org/gsea/msigdb/cards/LIU_PROSTATE_CANCER_DN.html Genes down-regulated in prostate cancer samples. 16618720 646/808 Arthur Liberzon 4.49018393164997e-41 8.15141082976456e-39 210 982.393939393939 227 1.49672797721666e-42 8 2.25215202549815 2.41243384717327 1 37.019471203359 14 M1796 ZHENG_GLIOBLASTOMA_PLASTICITY_UP http://www.broadinstitute.org/gsea/msigdb/cards/ZHENG_GLIOBLASTOMA_PLASTICITY_UP.html The glioblastoma multiforme (GBM) plasticity signature: genes up-regulated in neural stem cells (NSC) with double knockout of TP53 and PTEN [GeneID=7157;5728] vs those with knockout of TP53 alone. 18948956 342/447 Jessica Robertson 2.1815282598901e-28 1.80645848889145e-26 25 1081.39393939394 235 6.6106916966367e-30 21 2.0444961661986 2.10871101955671 1 15.9787685768313 15 M2571 ACEVEDO_FGFR1_TARGETS_IN_PROSTATE_CANCER_MODEL_DN http://www.broadinstitute.org/gsea/msigdb/cards/ACEVEDO_FGFR1_TARGETS_IN_PROSTATE_CANCER_MODEL_DN.html Genes down-regulated during prostate cancer progression in the JOCK1 model due to inducible activation of FGFR1 [GeneID=2260] gene in prostate. 18068632 392/587 Yujin Hoshida 1.04610043711729e-47 3.52685290228115e-45 40 725.545454545455 236 3.17000132459788e-49 8 2.48179807438841 2.72302608551041 1 47.3774321441283 16 M506 REACTOME_INSULIN_RECEPTOR_RECYCLING http://www.broadinstitute.org/gsea/msigdb/cards/REACTOME_INSULIN_RECEPTOR_RECYCLING.html Genes involved in Insulin receptor recycling 20/27 Reactome 1.19752616827193e-07 8.03261078983211e-07 110 1747.93939393939 238 3.62886738728046e-09 4 1.17017391914657 -0.467529881618638 -0.333333333333333 2.12093329135735 17 M6906 SENESE_HDAC2_TARGETS_DN http://www.broadinstitute.org/gsea/msigdb/cards/SENESE_HDAC2_TARGETS_DN.html Genes down-regulated in U2OS cells (osteosarcoma) upon knockdown of HDAC2 [GeneID=3066] by RNAi. 17470557 169/210 Leona Saunders 4.60054635562013e-24 3.05839138007423e-22 240 823.848484848485 238 1.39410495624853e-25 37 2.66501615221924 2.70215151424047 1 25.5476956016478 18 M991 REACTOME_TRANSFERRIN_ENDOCYTOSIS_AND_RECYCLING http://www.broadinstitute.org/gsea/msigdb/cards/REACTOME_TRANSFERRIN_ENDOCYTOSIS_AND_RECYCLING.html Genes involved in Transferrin endocytosis and recycling 24/29 Reactome 1.30793757797957e-07 8.1183323803309e-07 80 1548.93939393939 249 3.96344745734132e-09 5 1.52021544941473 -0.713783648540078 -0.333333333333333 2.98085858035464 19 M8448 BENPORATH_PRC2_TARGETS http://www.broadinstitute.org/gsea/msigdb/cards/BENPORATH_PRC2_TARGETS.html Set 'PRC2 targets': Polycomb Repression Complex 2 (PRC) targets; identified by ChIP on chip on human embryonic stem cells as genes that: posess the trimethylated H3K27 mark in their promoters and are bound by SUZ12 [GeneID=23512] and EED [GeneID=8726] Polycomb proteins. 18443585 489/952 Jessica Robertson 7.23960502389389e-83 1.13903119042597e-79 5 603.393939393939 250 2.19381970421028e-84 1 2.56168909235386 2.68804910058913 1 85.732199335708 20 M8519 DAVICIONI_MOLECULAR_ARMS_VS_ERMS_DN http://www.broadinstitute.org/gsea/msigdb/cards/DAVICIONI_MOLECULAR_ARMS_VS_ERMS_DN.html Genes down-regulated in mARMS (molecular ARMS) compared to the mERMS (molecular ERMS) class of rhabdomyosarcoma tumors. 16849537 255/354 Arthur Liberzon 4.48640475577921e-15 1.15086035039554e-13 475 690.454545454545 258 1.35951659266037e-16 9 2.03332351721216 2.25532867248744 1 10.3998657892088