Results

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Go to: Gene Set Collection: Broad.c1.CYTOBAND
Go to: Gene Set Collection: Broad.c2.CGP
Go to: Gene Set Collection: Broad.c2.CP.REACTOME
Go to: Gene Set Collection: Broad.c4.CM
Go to: Gene Set Collection: PMID
Go to: Gene Set Collection: ChromosomalTiles5Mb
Go to: Gene Set Collection: Prosite
Go to: Gene Set Collection: pathwayCommons.reactome
Go to: Gene Set Collection: mirbase.targets
Go to: Gene Set Collection: hprdBatch.DIFFERENT
Go to: Gene Set Collection: hprdManual.DIFFERENT

AFA results for: tlineda2SAHA

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

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 chr8q24 View Gene Set 2.095e-20 162 6.831e-18 1 Genes in cytogenetic band chr8q24 www.broad.mit.e...
Broad chr19p13 View Gene Set 2.037e-16 514 3.32e-14 2 Genes in cytogenetic band chr19p13 www.broad.mit.e...
Broad chr3p25 View Gene Set 1.222e-09 83 1.328e-07 3 Genes in cytogenetic band chr3p25 www.broad.mit.e...
Broad chr8q22 View Gene Set 5.227e-08 80 4.26e-06 4 Genes in cytogenetic band chr8q22 www.broad.mit.e...
Broad chr3p21 View Gene Set 1.541e-07 226 1.005e-05 5 Genes in cytogenetic band chr3p21 www.broad.mit.e...
Broad chrxp11 View Gene Set 4.213e-07 224 2.289e-05 6 Genes in cytogenetic band chrxp11 www.broad.mit.e...
Broad chr3q12 View Gene Set 1.195e-06 42 4.33e-05 7 Genes in cytogenetic band chr3q12 www.broad.mit.e...
Broad chr2q12 View Gene Set 1.177e-06 48 4.33e-05 7 Genes in cytogenetic band chr2q12 www.broad.mit.e...
Broad chr20q11 View Gene Set 9.906e-07 119 4.33e-05 7 Genes in cytogenetic band chr20q11 www.broad.mit.e...
Broad chr14q23 View Gene Set 1.52e-06 62 4.956e-05 10 Genes in cytogenetic band chr14q23 www.broad.mit.e...
Broad chr11q13 View Gene Set 7.224e-06 276 0.0002141 11 Genes in cytogenetic band chr11q13 www.broad.mit.e...
Broad chr3q13 View Gene Set 9.689e-06 96 0.0002632 12 Genes in cytogenetic band chr3q13 www.broad.mit.e...
Broad chr17q25 View Gene Set 2.264e-05 172 0.0005678 13 Genes in cytogenetic band chr17q25 www.broad.mit.e...
Broad chr8q21 View Gene Set 2.441e-05 73 0.0005684 14 Genes in cytogenetic band chr8q21 www.broad.mit.e...
Broad chr20p11 View Gene Set 3.212e-05 73 0.0006981 15 Genes in cytogenetic band chr20p11 www.broad.mit.e...
Broad chr3p22 View Gene Set 4.07e-05 64 0.0008292 16 Genes in cytogenetic band chr3p22 www.broad.mit.e...
Broad chr20q13 View Gene Set 4.732e-05 183 0.0009075 17 Genes in cytogenetic band chr20q13 www.broad.mit.e...
Broad chrxp22 View Gene Set 5.447e-05 158 0.0009865 18 Genes in cytogenetic band chrxp22 www.broad.mit.e...
Broad chr20p12 View Gene Set 9.024e-05 45 0.001548 19 Genes in cytogenetic band chr20p12 www.broad.mit.e...
Broad chr17q23 View Gene Set 0.0001176 77 0.001917 20 Genes in cytogenetic band chr17q23 www.broad.mit.e...
Broad chrxq26 View Gene Set 0.0001964 70 0.003049 21 Genes in cytogenetic band chrxq26 www.broad.mit.e...
Broad chrxq24 View Gene Set 0.0002378 44 0.003524 22 Genes in cytogenetic band chrxq24 www.broad.mit.e...
Broad chrxq28 View Gene Set 0.0002764 145 0.003755 23 Genes in cytogenetic band chrxq28 www.broad.mit.e...
Broad chr1q41 View Gene Set 0.0002685 41 0.003755 23 Genes in cytogenetic band chr1q41 www.broad.mit.e...
Broad chr2p11 View Gene Set 0.0003516 143 0.004032 25 Genes in cytogenetic band chr2p11 www.broad.mit.e...
Broad chr19q13 View Gene Set 0.0003524 765 0.004032 25 Genes in cytogenetic band chr19q13 www.broad.mit.e...
Broad chr11q23 View Gene Set 0.0003275 124 0.004032 25 Genes in cytogenetic band chr11q23 www.broad.mit.e...
Broad chr1p36 View Gene Set 0.0003587 385 0.004032 25 Genes in cytogenetic band chr1p36 www.broad.mit.e...
Broad chrxq22 View Gene Set 0.0003183 102 0.004032 25 Genes in cytogenetic band chrxq22 www.broad.mit.e...
Broad chr2q13 View Gene Set 0.0003963 39 0.004306 30 Genes in cytogenetic band chr2q13 www.broad.mit.e...
Broad chr3p24 View Gene Set 0.0004611 47 0.004849 31 Genes in cytogenetic band chr3p24 www.broad.mit.e...
Broad chrxq13 View Gene Set 0.0007159 75 0.007293 32 Genes in cytogenetic band chrxq13 www.broad.mit.e...
Broad chr11q24 View Gene Set 0.0007572 95 0.00748 33 Genes in cytogenetic band chr11q24 www.broad.mit.e...
Broad chr2q37 View Gene Set 0.0009095 143 0.008721 34 Genes in cytogenetic band chr2q37 www.broad.mit.e...
Broad chr4q12 View Gene Set 0.0009619 44 0.00896 35 Genes in cytogenetic band chr4q12 www.broad.mit.e...
Broad chr11p11 View Gene Set 0.001314 100 0.0119 36 Genes in cytogenetic band chr11p11 www.broad.mit.e...
Broad chr2q11 View Gene Set 0.002028 69 0.0174 37 Genes in cytogenetic band chr2q11 www.broad.mit.e...
Broad chr16p13 View Gene Set 0.001983 254 0.0174 37 Genes in cytogenetic band chr16p13 www.broad.mit.e...
Broad chr10q22 View Gene Set 0.003748 109 0.0313 39 Genes in cytogenetic band chr10q22 www.broad.mit.e...
Broad chr11q11 View Gene Set 0.00384 102 0.0313 39 Genes in cytogenetic band chr11q11 www.broad.mit.e...
Broad chr17q24 View Gene Set 0.004117 44 0.03196 41 Genes in cytogenetic band chr17q24 www.broad.mit.e...
Broad chr3q11 View Gene Set 0.004029 20 0.03196 41 Genes in cytogenetic band chr3q11 www.broad.mit.e...
Broad chr2q View Gene Set 0.00476 9 0.03609 43 Genes in cytogenetic band chr2q www.broad.mit.e...
Broad chr20p13 View Gene Set 0.005222 76 0.03869 44 Genes in cytogenetic band chr20p13 www.broad.mit.e...
Broad chr4q13 View Gene Set 0.005499 74 0.03984 45 Genes in cytogenetic band chr4q13 www.broad.mit.e...
Broad chr18p11 View Gene Set 0.005634 107 0.03993 46 Genes in cytogenetic band chr18p11 www.broad.mit.e...
Broad chr11q12 View Gene Set 0.00612 179 0.04094 47 Genes in cytogenetic band chr11q12 www.broad.mit.e...
Broad chr1q32 View Gene Set 0.006012 149 0.04094 47 Genes in cytogenetic band chr1q32 www.broad.mit.e...
Broad chr2q14 View Gene Set 0.006154 56 0.04094 47 Genes in cytogenetic band chr2q14 www.broad.mit.e...
Broad chr10q21 View Gene Set 0.007493 52 0.04886 50 Genes in cytogenetic band chr10q21 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 NIKOLSKY_BREAST_CANCER_8Q23_Q24_AMPLICON View Gene Set 1.484e-24 150 3.551e-21 1 Genes within amplicon 8q23-q24 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad COLDREN_GEFITINIB_RESISTANCE_DN View Gene Set 7.584e-16 217 9.07e-13 2 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 NIKOLSKY_BREAST_CANCER_8Q12_Q22_AMPLICON View Gene Set 2.169e-13 128 1.73e-10 3 Genes within amplicon 8q12-q22 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_24HR_DN View Gene Set 1.325e-11 920 7.923e-09 4 Genes down-regulated in HL-60 cells (acute promyelocytic leukemia APL) after treatment with the aminopeptidase inhibitor tosedostat (CHR-2797) [PubChem=15547703] for 24 h. www.broad.mit.e...
Broad WEI_MYCN_TARGETS_WITH_E_BOX View Gene Set 5.221e-10 757 2.082e-07 5 Genes whose promoters contain E-box motifs and whose expression changed in MYCN-3 cells (neuroblastoma) upon induction of MYCN [Gene ID=4613]. www.broad.mit.e...
Broad KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_DN View Gene Set 4.48e-10 832 2.082e-07 5 Genes down-regulated in HL-60 cells (acute promyelocytic leukemia APL) after treatment with the aminopeptidase inhibitor tosedostat (CHR-2797) [PubChem=15547703] for 6 h. www.broad.mit.e...
Broad VECCHI_GASTRIC_CANCER_EARLY_UP View Gene Set 2.211e-09 408 6.77e-07 7 Up-regulated genes distinguishing between early gastric cancer (EGC) and normal tissue samples. www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_2_DN View Gene Set 2.264e-09 453 6.77e-07 7 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 2.101e-08 422 5.585e-06 9 Genes up-regulated in luminal-like breast cancer cell lines compared to the mesenchymal-like ones. www.broad.mit.e...
Broad CHARAFE_BREAST_CANCER_BASAL_VS_MESENCHYMAL_UP View Gene Set 4.025e-08 114 9.627e-06 10 Genes up-regulated in basal-like breast cancer cell lines as compared to the mesenchymal-like ones. www.broad.mit.e...
Broad CAIRO_HEPATOBLASTOMA_CLASSES_UP View Gene Set 7.601e-08 577 1.653e-05 11 Genes up-regulated in robust Cluster 2 (rC2) of hepatoblastoma samples compared to those in the robust Cluster 1 (rC1). www.broad.mit.e...
Broad DAIRKEE_TERT_TARGETS_UP View Gene Set 2.044e-07 317 4.075e-05 12 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 ELVIDGE_HYPOXIA_DN View Gene Set 4.114e-07 136 7.569e-05 13 Genes down-regulated in MCF7 cells (breast cancer) under hypoxia conditions. www.broad.mit.e...
Broad TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C View Gene Set 1.405e-06 436 0.00024 14 Genes down-regulated in HCT116 cells (colon cancer) upon expression of MIR34B or MIR34C [Gene ID=407041 407042] microRNAs. www.broad.mit.e...
Broad LY_AGING_MIDDLE_DN View Gene Set 1.611e-06 15 0.0002569 15 Genes down-regulated in fibroblasts from middle-age individuals compared to those from the young donors. www.broad.mit.e...
Broad SOTIRIOU_BREAST_CANCER_GRADE_1_VS_3_UP View Gene Set 3.056e-06 143 0.0004569 16 Up-regulated genes whose expression correlated with histologic grade of invasive breast cancer tumors: comparison of grade 1 vs grade 3. www.broad.mit.e...
Broad SCHLOSSER_MYC_TARGETS_AND_SERUM_RESPONSE_DN View Gene Set 5.981e-06 46 0.0008415 17 Cluster 6: genes down-regulated in B493-6 cells (B lymphocytes) by MYC [Gene ID=4609] in combination with serum but not affected by serum alone; they are also up-regulated by MYC alone. www.broad.mit.e...
Broad KANG_DOXORUBICIN_RESISTANCE_UP View Gene Set 6.72e-06 53 0.000893 18 Genes differentialy expressed in gastric cancer cell lines: doxorubicin [PubChem=31703] resistant vs sensitive. www.broad.mit.e...
Broad AMIT_EGF_RESPONSE_120_MCF10A View Gene Set 7.766e-06 41 0.0009776 19 Genes whose expression peaked at 120 min after stimulation of MCF10A cells with EGF [Gene ID=1950]. www.broad.mit.e...
Broad NUYTTEN_NIPP1_TARGETS_DN View Gene Set 8.608e-06 758 0.001029 20 Genes down-regulated in PC3 cells (prostate cancer) after knockdown of NIPP1 [Gene ID=5511] by RNAi. www.broad.mit.e...
Broad OKAWA_NEUROBLASTOMA_1P36_31_DELETION View Gene Set 9.107e-06 23 0.001037 21 Genes in the smallest region of deletion (SRD) in 1p36.3 area in neuroblastoma samples. www.broad.mit.e...
Broad KOBAYASHI_EGFR_SIGNALING_24HR_DN View Gene Set 1.008e-05 243 0.001096 22 Genes down-regulated in H1975 cells (non-small cell lung cancer NSCLC) resistant to gefitinib [PubChem=123631] after treatment with EGFR inhibitor CL-387785 [PubChem=2776] for 24h. www.broad.mit.e...
Broad MOOTHA_MITOCHONDRIA View Gene Set 1.182e-05 433 0.001229 23 Mitochondrial genes www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_17Q21_Q25_AMPLICON View Gene Set 1.306e-05 317 0.001302 24 Genes within amplicon 17q21-q25 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad LY_AGING_OLD_DN View Gene Set 1.578e-05 47 0.00151 25 Genes up-regulated in fibroblasts from old individuals compared to those from young donors. www.broad.mit.e...
Broad SHEDDEN_LUNG_CANCER_POOR_SURVIVAL_A6 View Gene Set 2.214e-05 435 0.002037 26 Cluster 6 of method A: up-regulation of these genes in patients with non???small cell lung cancer (NSCLC) predicts poor survival outcome. www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_20Q12_Q13_AMPLICON View Gene Set 5.343e-05 134 0.004565 27 Genes within amplicon 20q12-q13 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad SCHUHMACHER_MYC_TARGETS_UP View Gene Set 5.344e-05 68 0.004565 27 Genes up-regulated in P493-6 cells (Burkitt's lymphoma) induced to express MYC [Gene ID=4609]. www.broad.mit.e...
Broad BERENJENO_TRANSFORMED_BY_RHOA_UP View Gene Set 5.606e-05 485 0.004624 29 Genes up-regulated in NIH3T3 cells (fibroblasts) transformed by expression of contitutively active (Q63L) form of RHOA [Gene ID=387] off plasmid vector. www.broad.mit.e...
Broad NUYTTEN_EZH2_TARGETS_DN View Gene Set 5.811e-05 859 0.004633 30 Genes down-regulated in PC3 cells (prostate cancer) after knockdown of EZH2 [Gene ID=2146] by RNAi. www.broad.mit.e...
Broad MANALO_HYPOXIA_DN View Gene Set 6.117e-05 276 0.00472 31 Genes down-regulated in response to both hypoxia and overexpression of an active form of HIF1A [Gene ID=3091]. www.broad.mit.e...
Broad GRADE_COLON_CANCER_UP View Gene Set 6.462e-05 711 0.00483 32 Up-regulated genes in colon carcinoma tumors compared to the matched normal mucosa samples. www.broad.mit.e...
Broad TURASHVILI_BREAST_CARCINOMA_DUCTAL_VS_LOBULAR_UP View Gene Set 7.799e-05 19 0.005653 33 Genes up-regulated in ductal vs lobular carcinoma breast tumor cells. www.broad.mit.e...
Broad AMUNDSON_GAMMA_RADIATION_RESPONSE View Gene Set 8.304e-05 36 0.005842 34 Genes down-regulated across the entire panel of NCI-60 cell lines in response to gamma radiation. www.broad.mit.e...
Broad LIN_SILENCED_BY_TUMOR_MICROENVIRONMENT View Gene Set 9.944e-05 100 0.006796 35 Genes downregulated in MCF10A cells (breast cancer) co-cultured with cancer-associated fibroblasts (CAF). www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_11Q12_Q14_AMPLICON View Gene Set 0.0001333 150 0.008855 36 Genes within amplicon 11q12-q14 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad BILD_MYC_ONCOGENIC_SIGNATURE View Gene Set 0.0001375 187 0.008887 37 Genes selected in supervised analyses to discriminate cells expressing c-Myc [Gene ID=4609] from control cells expressing GFP. www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_3_DN View Gene Set 0.0001583 52 0.009709 38 Genes down-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 SESTO_RESPONSE_TO_UV_C3 View Gene Set 0.0001567 20 0.009709 38 Cluster 3: genes changed in primary keratinocytes by UVB irradiation. www.broad.mit.e...
Broad OLSSON_E2F3_TARGETS_DN View Gene Set 0.0001646 28 0.009843 40 Genes down-regulated in the 5637 cell line (bladder cancer) after knockdown of E2F3 [Gene ID=1871] by RNAi. www.broad.mit.e...
Broad HOFFMANN_LARGE_TO_SMALL_PRE_BII_LYMPHOCYTE_UP View Gene Set 0.0001697 93 0.009843 40 Genes up-regulated during differentiation from large pre-BII to small pre-BII lymphocyte. www.broad.mit.e...
Broad DAZARD_UV_RESPONSE_CLUSTER_G2 View Gene Set 0.0001728 21 0.009843 40 Cluster G2: genes increasingly up-regulated in NHEK cells (normal keratinocyte) and reaching maximum levels at 12 h and 24 h after UV-B irradiation. www.broad.mit.e...
Broad ONDER_CDH1_TARGETS_1_DN View Gene Set 0.0001944 161 0.01081 43 Genes down-regulated in HMLE cells (mmortalized nontransformed mammary epithelial) by expression of a dominant-negative form of E-cadhedrin (CDH1) [Gene ID=999]. www.broad.mit.e...
Broad WINNEPENNINCKX_MELANOMA_METASTASIS_UP View Gene Set 0.0002066 152 0.01123 44 Genes from the 254-gene classifier which were up-regulated in melanoma patients with a reported distant metastasis within 4 years. www.broad.mit.e...
Broad BIERIE_INFLAMMATORY_RESPONSE_TGFB1 View Gene Set 0.0002233 5 0.01187 45 Inflammatory genes down-regulated in mammary carcinoma cells after stimulation with TGFB1 [Gene ID=7040] for 1 hr. www.broad.mit.e...
Broad LIU_PROSTATE_CANCER_UP View Gene Set 0.0002583 88 0.01337 46 Genes up-regulated in prostate cancer samples. www.broad.mit.e...
Broad CHIANG_LIVER_CANCER_SUBCLASS_PROLIFERATION_UP View Gene Set 0.0002627 135 0.01337 46 Top 200 marker genes up-regulated in the 'proliferation' subclass of hepatocellular carcinoma (HCC); characterized by increased proliferation high levels of serum AFP [Gene ID=174] and chromosomal instability. www.broad.mit.e...
Broad CROONQUIST_IL6_DEPRIVATION_DN View Gene Set 0.0002716 80 0.01353 48 Genes down-regulated in the ANBL-6 cell line (multiple myeloma MM) after withdrawal of IL6 [Gene ID=3569]. www.broad.mit.e...
Broad WALLACE_PROSTATE_CANCER_UP View Gene Set 0.0002997 18 0.01463 49 Genes up-regulated in prostate tumor vs normal tissue samples. www.broad.mit.e...
Broad HAHTOLA_MYCOSIS_FUNGOIDES_CD4_UP View Gene Set 0.0003133 64 0.01499 50 Genes up-regulated in T helper cells (defines as CD4+) isolated from patients with mucosis fungoides compared to those from normal control donors. www.broad.mit.e...
Broad ELVIDGE_HIF1A_TARGETS_UP View Gene Set 0.0003368 64 0.01526 51 Genes up-regulated in MCF7 cells (breast cancer) after knockdown of HIF1A [Gene ID=3091] by RNAi. www.broad.mit.e...
Broad LOPEZ_MBD_TARGETS_IMPRINTED_AND_X_LINKED View Gene Set 0.0003326 16 0.01526 51 X chromosome and imprinted genes up-regulated in HeLa cells (cervical cancer) after knockdown of the MBD (methyl-CpG binding domain) proteins by RNAi. www.broad.mit.e...
Broad AMIT_SERUM_RESPONSE_240_MCF10A View Gene Set 0.0003381 57 0.01526 51 Genes whose expression peaked at 240 min after stimulation of MCF10A cells with serum. www.broad.mit.e...
Broad SENESE_HDAC1_AND_HDAC2_TARGETS_UP View Gene Set 0.0004524 224 0.02004 54 Genes up-regulated in U2OS cells (osteosarcoma) upon knockdown of both HDAC1 and HDAC2 [Gene ID=3065 3066] by RNAi. www.broad.mit.e...
Broad AIGNER_ZEB1_TARGETS View Gene Set 0.0004623 29 0.02011 55 Genes up-regulated in MDA-MB-231 cells (breast cancer) after knockdown of ZEB1 [Gene ID=6935] by RNAi. www.broad.mit.e...
Broad BHATI_G2M_ARREST_BY_2METHOXYESTRADIOL_UP View Gene Set 0.0006103 116 0.02607 56 Up-regulated genes in MDA-MB-435 cells (breast cancer) undergoing G2/M arrest after treatment with 2-methoxyestradiol (2ME2)[PubChem=1573]. www.broad.mit.e...
Broad CHANG_CYCLING_GENES View Gene Set 0.0006748 49 0.02832 57 Fibroblast serum response genes showing periodic expression during the cell cycle; excluded from the core serum response signature. www.broad.mit.e...
Broad MOOTHA_HUMAN_MITODB_6_2002 View Gene Set 0.0007589 420 0.0313 58 Mitochondrial genes; based on literature and sequence annotation resources and converted to Affymetrix HG-U133A probe sets. www.broad.mit.e...
Broad MOOTHA_TCA View Gene Set 0.0008263 15 0.0335 59 Tricarboxylic acid related genes; based on literature and sequence annotation resources and converted to Affymetrix HG-U133A probe sets. www.broad.mit.e...
Broad LE_EGR2_TARGETS_UP View Gene Set 0.0008574 100 0.03418 60 Genes up-regulated in P14 nerves of transgenic mice having hypomorhic (reduced function) allele of EGR2 [Gene ID=1959]. www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_10Q22_AMPLICON View Gene Set 0.0008765 8 0.03437 61 Genes within amplicon 10q22 identified in a copy number alterations study of 191 breast tumor samples. www.broad.mit.e...
Broad AMIT_EGF_RESPONSE_60_MCF10A View Gene Set 0.0009239 38 0.03565 62 Genes whose expression peaked at 60 min after stimulation of MCF10A cells with EGF [Gene ID=1950]. www.broad.mit.e...
Broad HAN_SATB1_TARGETS_UP View Gene Set 0.0009617 303 0.03651 63 Genes up-regulated in MDA-MB-231 cells (breast cancer) after knockdown of SATB1 [Gene ID=6304] by RNAi. www.broad.mit.e...
Broad ZERBINI_RESPONSE_TO_SULINDAC_UP View Gene Set 0.00105 9 0.03924 64 Selected genes up-regulated in DU145 and PC-3 cells (prostate cancer) after treatment with the NSAID (non-steroid anti-inflammatory drug) sulindac [PubChem=5352]. www.broad.mit.e...
Broad NIKOLSKY_BREAST_CANCER_16P13_AMPLICON View Gene Set 0.001272 115 0.04681 65 Genes within amplicon 16p13 identified in a study of 191 breast tumor samples. www.broad.mit.e...
Broad MCBRYAN_PUBERTAL_BREAST_4_5WK_UP View Gene Set 0.001377 243 0.0497 66 Genes up-regulated during pubertal mammary gland development between week 4 and 5. www.broad.mit.e...
Broad ROSTY_CERVICAL_CANCER_PROLIFERATION_CLUSTER View Gene Set 0.001392 138 0.0497 66 The 'Cervical Cancer Proliferation Cluster' (CCPC): genes whose expression in cervical carcinoma positively correlates with that of the HPV E6 and E7 oncogenes; they are also differentially expressed according to disease outcome. www.broad.mit.e...

Gene Set Collection: Broad.c2.CP.REACTOME

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 REACTOME_RNA_POLYMERASE_I_CHAIN_ELONGATION View Gene Set 5.066e-06 34 0.002178 1 Genes involved in RNA PolymeraseChain Elongation www.broad.mit.e...
Broad REACTOME_MITOTIC_PROMETAPHASE View Gene Set 0.0001907 92 0.02851 2 Genes involved in Mitotic Prometaphase www.broad.mit.e...
Broad REACTOME_PYRUVATE_METABOLISM_AND_TCA_CYCLE View Gene Set 0.0002653 36 0.02851 2 Genes involved in Pyruvate metabolism and TCA cycle www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_I_TRANSCRIPTION_INITIATION View Gene Set 0.0002383 24 0.02851 2 Genes involved in RNA PolymeraseTranscription Initiation www.broad.mit.e...
Broad REACTOME_RNA_POLYMERASE_I_PROMOTER_ESCAPE View Gene Set 0.0004014 20 0.03452 5 Genes involved in RNA Polymerase I Promoter Escape 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_126 View Gene Set 6.825e-07 173 0.0003098 1 Genes in module_126 www.broad.mit.e...
Broad module_325 View Gene Set 9.533e-05 46 0.02164 2 Genes in module_325 www.broad.mit.e...
Broad module_16 View Gene Set 0.0002339 495 0.03539 3 Genes in module_16 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 11780052 View Gene Set 3.698e-20 517 9.27e-17 1 The DNA sequence and comparative analysis of human chromosome 20. www.ncbi.nlm.ni...
PMID 15772651 View Gene Set 4.268e-13 397 5.35e-10 2 The DNA sequence of the human X chromosome. www.ncbi.nlm.ni...
PMID 15815621 View Gene Set 7.744e-06 437 0.006471 3 Generation and annotation of the DNA sequences of human chromosomes 2 and 4. www.ncbi.nlm.ni...

Gene Set Collection: ChromosomalTiles5Mb

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 chr19_10-15Mb View Gene Set 7.451e-16 87 8.301e-13 1 Genomic tile: chr19 ; 10000001-15000001 Mb genome.ucsc.edu...
Null chr8_142.5-147.5Mb View Gene Set 5.65e-13 64 2.098e-10 2 Genomic tile: chr8 ; 142500001-147500001 Mb genome.ucsc.edu...
Null chr8_145-150Mb View Gene Set 5.195e-13 33 2.098e-10 2 Genomic tile: chr8 ; 145000001-150000001 Mb genome.ucsc.edu...
Null chr19_7.5-12.5Mb View Gene Set 2.267e-10 79 6.313e-08 4 Genomic tile: chr19 ; 7500001-12500001 Mb genome.ucsc.edu...
Null chr19_12.5-17.5Mb View Gene Set 3.939e-09 85 8.777e-07 5 Genomic tile: chr19 ; 12500001-17500001 Mb genome.ucsc.edu...
Null chr19_60-65Mb View Gene Set 1.28e-08 70 2.376e-06 6 Genomic tile: chr19 ; 60000001-65000001 Mb genome.ucsc.edu...
Null chr20_32.5-37.5Mb View Gene Set 2.142e-08 53 3.141e-06 7 Genomic tile: chr20 ; 32500001-37500001 Mb genome.ucsc.edu...
Null chr3_97.5-102.5Mb View Gene Set 2.256e-08 16 3.141e-06 7 Genomic tile: chr3 ; 97500001-102500001 Mb genome.ucsc.edu...
Null chr19_55-60Mb View Gene Set 3.117e-08 85 3.858e-06 9 Genomic tile: chr19 ; 55000001-60000001 Mb genome.ucsc.edu...
Null chr19_57.5-62.5Mb View Gene Set 6.68e-08 70 7.442e-06 10 Genomic tile: chr19 ; 57500001-62500001 Mb genome.ucsc.edu...
Null chr19_62.5-67.5Mb View Gene Set 1.828e-07 35 1.851e-05 11 Genomic tile: chr19 ; 62500001-67500001 Mb genome.ucsc.edu...
Null chr8_95-100Mb View Gene Set 2.237e-07 26 2.077e-05 12 Genomic tile: chr8 ; 95000001-100000001 Mb genome.ucsc.edu...
Null chr3_12.5-17.5Mb View Gene Set 3.096e-07 35 2.653e-05 13 Genomic tile: chr3 ; 12500001-17500001 Mb genome.ucsc.edu...
Null chr17_72.5-77.5Mb View Gene Set 4.152e-07 77 3.304e-05 14 Genomic tile: chr17 ; 72500001-77500001 Mb genome.ucsc.edu...
Null chr3_10-15Mb View Gene Set 5.571e-07 39 3.879e-05 15 Genomic tile: chr3 ; 10000001-15000001 Mb genome.ucsc.edu...
Null chr3_100-105Mb View Gene Set 5.344e-07 15 3.879e-05 15 Genomic tile: chr3 ; 100000001-105000001 Mb genome.ucsc.edu...
Null chr20_30-35Mb View Gene Set 6.948e-07 51 4.553e-05 17 Genomic tile: chr20 ; 30000001-35000001 Mb genome.ucsc.edu...
Null chr19_15-20Mb View Gene Set 1.059e-06 98 6.193e-05 18 Genomic tile: chr19 ; 15000001-20000001 Mb genome.ucsc.edu...
Null chr8_97.5-102.5Mb View Gene Set 1.089e-06 24 6.193e-05 18 Genomic tile: chr8 ; 97500001-102500001 Mb genome.ucsc.edu...
Null chrX_115-120Mb View Gene Set 1.112e-06 23 6.193e-05 18 Genomic tile: chrX ; 115000001-120000001 Mb genome.ucsc.edu...
Null chr3_45-50Mb View Gene Set 2.114e-06 72 0.0001122 21 Genomic tile: chr3 ; 45000001-50000001 Mb genome.ucsc.edu...
Null chr2_110-115Mb View Gene Set 2.224e-06 31 0.0001126 22 Genomic tile: chr2 ; 110000001-115000001 Mb genome.ucsc.edu...
Null chr4_52.5-57.5Mb View Gene Set 2.381e-06 26 0.0001153 23 Genomic tile: chr4 ; 52500001-57500001 Mb genome.ucsc.edu...
Null chr11_62.5-67.5Mb View Gene Set 2.937e-06 119 0.0001259 24 Genomic tile: chr11 ; 62500001-67500001 Mb genome.ucsc.edu...
Null chr19_5-10Mb View Gene Set 2.925e-06 67 0.0001259 24 Genomic tile: chr19 ; 5000001-10000001 Mb genome.ucsc.edu...
Null chr19_52.5-57.5Mb View Gene Set 2.738e-06 114 0.0001259 24 Genomic tile: chr19 ; 52500001-57500001 Mb genome.ucsc.edu...
Null chr19_17.5-22.5Mb View Gene Set 3.802e-06 66 0.0001569 27 Genomic tile: chr19 ; 17500001-22500001 Mb genome.ucsc.edu...
Null chr1_0-5Mb View Gene Set 6.886e-06 50 0.0002739 28 Genomic tile: chr1 ; 1-5000001 Mb genome.ucsc.edu...
Null chr17_70-75Mb View Gene Set 7.608e-06 66 0.0002922 29 Genomic tile: chr17 ; 70000001-75000001 Mb genome.ucsc.edu...
Null chr7_87.5-92.5Mb View Gene Set 9.152e-06 15 0.0003398 30 Genomic tile: chr7 ; 87500001-92500001 Mb genome.ucsc.edu...
Null chr2_97.5-102.5Mb View Gene Set 9.822e-06 25 0.0003445 31 Genomic tile: chr2 ; 97500001-102500001 Mb genome.ucsc.edu...
Null chr3_47.5-52.5Mb View Gene Set 9.896e-06 94 0.0003445 31 Genomic tile: chr3 ; 47500001-52500001 Mb genome.ucsc.edu...
Null chrX_45-50Mb View Gene Set 1.041e-05 58 0.0003516 33 Genomic tile: chrX ; 45000001-50000001 Mb genome.ucsc.edu...
Null chr11_65-70Mb View Gene Set 1.12e-05 90 0.0003566 34 Genomic tile: chr11 ; 65000001-70000001 Mb genome.ucsc.edu...
Null chr1_202.5-207.5Mb View Gene Set 1.109e-05 40 0.0003566 34 Genomic tile: chr1 ; 202500001-207500001 Mb genome.ucsc.edu...
Null chr3_120-125Mb View Gene Set 1.21e-05 45 0.0003644 36 Genomic tile: chr3 ; 120000001-125000001 Mb genome.ucsc.edu...
Null chrX_147.5-152.5Mb View Gene Set 1.199e-05 55 0.0003644 36 Genomic tile: chrX ; 147500001-152500001 Mb genome.ucsc.edu...
Null chr14_62.5-67.5Mb View Gene Set 1.678e-05 31 0.0004919 38 Genomic tile: chr14 ; 62500001-67500001 Mb genome.ucsc.edu...
Null chr3_95-100Mb View Gene Set 1.822e-05 10 0.0005204 39 Genomic tile: chr3 ; 95000001-100000001 Mb genome.ucsc.edu...
Null chr14_65-70Mb View Gene Set 1.886e-05 27 0.0005253 40 Genomic tile: chr14 ; 65000001-70000001 Mb genome.ucsc.edu...
Null chr1_222.5-227.5Mb View Gene Set 2.145e-05 40 0.0005827 41 Genomic tile: chr1 ; 222500001-227500001 Mb genome.ucsc.edu...
Null chr20_17.5-22.5Mb View Gene Set 2.517e-05 23 0.0006676 42 Genomic tile: chr20 ; 17500001-22500001 Mb genome.ucsc.edu...
Null chr8_100-105Mb View Gene Set 3.52e-05 26 0.000912 43 Genomic tile: chr8 ; 100000001-105000001 Mb genome.ucsc.edu...
Null chrX_117.5-122.5Mb View Gene Set 3.854e-05 18 0.0009582 44 Genomic tile: chrX ; 117500001-122500001 Mb genome.ucsc.edu...
Null chrX_150-155Mb View Gene Set 3.871e-05 52 0.0009582 44 Genomic tile: chrX ; 150000001-155000001 Mb genome.ucsc.edu...
Null chr2_112.5-117.5Mb View Gene Set 4.621e-05 26 0.001119 46 Genomic tile: chr2 ; 112500001-117500001 Mb genome.ucsc.edu...
Null chr8_122.5-127.5Mb View Gene Set 4.987e-05 23 0.001182 47 Genomic tile: chr8 ; 122500001-127500001 Mb genome.ucsc.edu...
Null chr2_95-100Mb View Gene Set 6.213e-05 35 0.001442 48 Genomic tile: chr2 ; 95000001-100000001 Mb genome.ucsc.edu...
Null chr20_2.5-7.5Mb View Gene Set 7.902e-05 33 0.00176 49 Genomic tile: chr20 ; 2500001-7500001 Mb genome.ucsc.edu...
Null chr20_22.5-27.5Mb View Gene Set 7.9e-05 20 0.00176 49 Genomic tile: chr20 ; 22500001-27500001 Mb genome.ucsc.edu...
Null chr10_35-40Mb View Gene Set 8.889e-05 10 0.001942 51 Genomic tile: chr10 ; 35000001-40000001 Mb genome.ucsc.edu...
Null chr19_20-25Mb View Gene Set 9.082e-05 14 0.001946 52 Genomic tile: chr19 ; 20000001-25000001 Mb genome.ucsc.edu...
Null chr1_205-210Mb View Gene Set 0.0001015 28 0.002134 53 Genomic tile: chr1 ; 205000001-210000001 Mb genome.ucsc.edu...
Null chr4_152.5-157.5Mb View Gene Set 0.0001178 26 0.002431 54 Genomic tile: chr4 ; 152500001-157500001 Mb genome.ucsc.edu...
Null chr2_100-105Mb View Gene Set 0.0001567 18 0.003175 55 Genomic tile: chr2 ; 100000001-105000001 Mb genome.ucsc.edu...
Null chr20_15-20Mb View Gene Set 0.00016 22 0.003183 56 Genomic tile: chr20 ; 15000001-20000001 Mb genome.ucsc.edu...
Null chrX_42.5-47.5Mb View Gene Set 0.0002385 33 0.004661 57 Genomic tile: chrX ; 42500001-47500001 Mb genome.ucsc.edu...
Null chrX_130-135Mb View Gene Set 0.0002733 23 0.005249 58 Genomic tile: chrX ; 130000001-135000001 Mb genome.ucsc.edu...
Null chr20_60-65Mb View Gene Set 0.0003316 44 0.00626 59 Genomic tile: chr20 ; 60000001-65000001 Mb genome.ucsc.edu...
Null chr3_117.5-122.5Mb View Gene Set 0.0003712 21 0.006892 60 Genomic tile: chr3 ; 117500001-122500001 Mb genome.ucsc.edu...
Null chr1_2.5-7.5Mb View Gene Set 0.0004026 33 0.007352 61 Genomic tile: chr1 ; 2500001-7500001 Mb genome.ucsc.edu...
Null chr8_92.5-97.5Mb View Gene Set 0.0004151 21 0.007459 62 Genomic tile: chr8 ; 92500001-97500001 Mb genome.ucsc.edu...
Null chr3_102.5-107.5Mb View Gene Set 0.0004405 7 0.00779 63 Genomic tile: chr3 ; 102500001-107500001 Mb genome.ucsc.edu...
Null chr8_120-125Mb View Gene Set 0.0004564 21 0.007943 64 Genomic tile: chr8 ; 120000001-125000001 Mb genome.ucsc.edu...
Null chr11_125-130Mb View Gene Set 0.0005 27 0.008569 65 Genomic tile: chr11 ; 125000001-130000001 Mb genome.ucsc.edu...
Null chr4_177.5-182.5Mb View Gene Set 0.0005246 7 0.008854 66 Genomic tile: chr4 ; 177500001-182500001 Mb genome.ucsc.edu...
Null chrX_105-110Mb View Gene Set 0.0005482 19 0.009114 67 Genomic tile: chrX ; 105000001-110000001 Mb genome.ucsc.edu...
Null chr20_25-30Mb View Gene Set 0.0006447 9 0.01056 68 Genomic tile: chr20 ; 25000001-30000001 Mb genome.ucsc.edu...
Null chr11_122.5-127.5Mb View Gene Set 0.0007852 34 0.01204 69 Genomic tile: chr11 ; 122500001-127500001 Mb genome.ucsc.edu...
Null chr20_35-40Mb View Gene Set 0.0008157 30 0.01204 69 Genomic tile: chr20 ; 35000001-40000001 Mb genome.ucsc.edu...
Null chr2_117.5-122.5Mb View Gene Set 0.0008217 17 0.01204 69 Genomic tile: chr2 ; 117500001-122500001 Mb genome.ucsc.edu...
Null chr3_20-25Mb View Gene Set 0.0007557 9 0.01204 69 Genomic tile: chr3 ; 20000001-25000001 Mb genome.ucsc.edu...
Null chr4_150-155Mb View Gene Set 0.000785 12 0.01204 69 Genomic tile: chr4 ; 150000001-155000001 Mb genome.ucsc.edu...
Null chr4_50-55Mb View Gene Set 0.0007852 11 0.01204 69 Genomic tile: chr4 ; 50000001-55000001 Mb genome.ucsc.edu...
Null chrX_12.5-17.5Mb View Gene Set 0.0007933 23 0.01204 69 Genomic tile: chrX ; 12500001-17500001 Mb genome.ucsc.edu...
Null chrX_7.5-12.5Mb View Gene Set 0.0008198 14 0.01204 69 Genomic tile: chrX ; 7500001-12500001 Mb genome.ucsc.edu...
Null chr1_200-205Mb View Gene Set 0.000968 57 0.014 77 Genomic tile: chr1 ; 200000001-205000001 Mb genome.ucsc.edu...
Null chr8_140-145Mb View Gene Set 0.0009898 40 0.01414 78 Genomic tile: chr8 ; 140000001-145000001 Mb genome.ucsc.edu...
Null chr17_75-80Mb View Gene Set 0.001034 37 0.01439 79 Genomic tile: chr17 ; 75000001-80000001 Mb genome.ucsc.edu...
Null chr2_127.5-132.5Mb View Gene Set 0.001033 27 0.01439 79 Genomic tile: chr2 ; 127500001-132500001 Mb genome.ucsc.edu...
Null chr14_20-25Mb View Gene Set 0.00107 56 0.01454 81 Genomic tile: chr14 ; 20000001-25000001 Mb genome.ucsc.edu...
Null chr2_235-240Mb View Gene Set 0.001062 18 0.01454 81 Genomic tile: chr2 ; 235000001-240000001 Mb genome.ucsc.edu...
Null chr8_77.5-82.5Mb View Gene Set 0.001165 14 0.01564 83 Genomic tile: chr8 ; 77500001-82500001 Mb genome.ucsc.edu...
Null chrX_112.5-117.5Mb View Gene Set 0.001179 13 0.01564 84 Genomic tile: chrX ; 112500001-117500001 Mb genome.ucsc.edu...
Null chr2_102.5-107.5Mb View Gene Set 0.001341 13 0.01758 85 Genomic tile: chr2 ; 102500001-107500001 Mb genome.ucsc.edu...
Null chr3_42.5-47.5Mb View Gene Set 0.001405 44 0.0182 86 Genomic tile: chr3 ; 42500001-47500001 Mb genome.ucsc.edu...
Null chr20_20-25Mb View Gene Set 0.001515 18 0.0194 87 Genomic tile: chr20 ; 20000001-25000001 Mb genome.ucsc.edu...
Null chr4_55-60Mb View Gene Set 0.001542 20 0.01952 88 Genomic tile: chr4 ; 55000001-60000001 Mb genome.ucsc.edu...
Null chr12_25-30Mb View Gene Set 0.001627 20 0.02008 89 Genomic tile: chr12 ; 25000001-30000001 Mb genome.ucsc.edu...
Null chr20_10-15Mb View Gene Set 0.00164 9 0.02008 89 Genomic tile: chr20 ; 10000001-15000001 Mb genome.ucsc.edu...
Null chr8_125-130Mb View Gene Set 0.001621 15 0.02008 89 Genomic tile: chr8 ; 125000001-130000001 Mb genome.ucsc.edu...
Null chr8_117.5-122.5Mb View Gene Set 0.001828 15 0.02214 92 Genomic tile: chr8 ; 117500001-122500001 Mb genome.ucsc.edu...
Null chr14_57.5-62.5Mb View Gene Set 0.001849 23 0.02215 93 Genomic tile: chr14 ; 57500001-62500001 Mb genome.ucsc.edu...
Null chr1_220-225Mb View Gene Set 0.001873 28 0.02219 94 Genomic tile: chr1 ; 220000001-225000001 Mb genome.ucsc.edu...
Null chr2_92.5-97.5Mb View Gene Set 0.001955 21 0.02292 95 Genomic tile: chr2 ; 92500001-97500001 Mb genome.ucsc.edu...
Null chr8_115-120Mb View Gene Set 0.002029 6 0.02355 96 Genomic tile: chr8 ; 115000001-120000001 Mb genome.ucsc.edu...
Null chr8_107.5-112.5Mb View Gene Set 0.002109 9 0.02422 97 Genomic tile: chr8 ; 107500001-112500001 Mb genome.ucsc.edu...
Null chrX_5-10Mb View Gene Set 0.002171 11 0.02468 98 Genomic tile: chrX ; 5000001-10000001 Mb genome.ucsc.edu...
Null chr2_120-125Mb View Gene Set 0.002436 17 0.02741 99 Genomic tile: chr2 ; 120000001-125000001 Mb genome.ucsc.edu...
Null chr2_167.5-172.5Mb View Gene Set 0.002462 22 0.02742 100 Genomic tile: chr2 ; 167500001-172500001 Mb genome.ucsc.edu...
Null chr3_7.5-12.5Mb View Gene Set 0.002519 42 0.02778 101 Genomic tile: chr3 ; 7500001-12500001 Mb genome.ucsc.edu...
Null chr2_82.5-87.5Mb View Gene Set 0.002673 28 0.02919 102 Genomic tile: chr2 ; 82500001-87500001 Mb genome.ucsc.edu...
Null chr19_50-55Mb View Gene Set 0.002759 112 0.02984 103 Genomic tile: chr19 ; 50000001-55000001 Mb genome.ucsc.edu...
Null chrX_132.5-137.5Mb View Gene Set 0.002795 17 0.02994 104 Genomic tile: chrX ; 132500001-137500001 Mb genome.ucsc.edu...
Null chr1_212.5-217.5Mb View Gene Set 0.003109 12 0.03298 105 Genomic tile: chr1 ; 212500001-217500001 Mb genome.ucsc.edu...
Null chrX_15-20Mb View Gene Set 0.003166 19 0.03327 106 Genomic tile: chrX ; 15000001-20000001 Mb genome.ucsc.edu...
Null chrX_65-70Mb View Gene Set 0.00332 23 0.03456 107 Genomic tile: chrX ; 65000001-70000001 Mb genome.ucsc.edu...
Null chrX_127.5-132.5Mb View Gene Set 0.003431 19 0.03539 108 Genomic tile: chrX ; 127500001-132500001 Mb genome.ucsc.edu...
Null chr16_0-5Mb View Gene Set 0.003612 113 0.03691 109 Genomic tile: chr16 ; 1-5000001 Mb genome.ucsc.edu...
Null chr2_242.5-247.5Mb View Gene Set 0.003796 8 0.03845 110 Genomic tile: chr2 ; 242500001-247500001 Mb genome.ucsc.edu...
Null chr20_27.5-32.5Mb View Gene Set 0.004108 21 0.04123 111 Genomic tile: chr20 ; 27500001-32500001 Mb genome.ucsc.edu...
Null chr10_75-80Mb View Gene Set 0.00423 17 0.04207 112 Genomic tile: chr10 ; 75000001-80000001 Mb genome.ucsc.edu...
Null chr2_85-90Mb View Gene Set 0.004492 33 0.04428 113 Genomic tile: chr2 ; 85000001-90000001 Mb genome.ucsc.edu...
Null chr18_57.5-62.5Mb View Gene Set 0.004606 16 0.04484 114 Genomic tile: chr18 ; 57500001-62500001 Mb genome.ucsc.edu...
Null chr8_80-85Mb View Gene Set 0.004629 13 0.04484 114 Genomic tile: chr8 ; 80000001-85000001 Mb genome.ucsc.edu...
Null chr11_60-65Mb View Gene Set 0.004721 104 0.04534 116 Genomic tile: chr11 ; 60000001-65000001 Mb genome.ucsc.edu...
Null chr3_15-20Mb View Gene Set 0.004854 20 0.04621 117 Genomic tile: chr3 ; 15000001-20000001 Mb genome.ucsc.edu...
Null chr1_207.5-212.5Mb View Gene Set 0.004946 24 0.04669 118 Genomic tile: chr1 ; 207500001-212500001 Mb genome.ucsc.edu...
Null chr8_87.5-92.5Mb View Gene Set 0.005015 13 0.04694 119 Genomic tile: chr8 ; 87500001-92500001 Mb genome.ucsc.edu...
Null chr10_37.5-42.5Mb View Gene Set 0.005124 7 0.04717 120 Genomic tile: chr10 ; 37500001-42500001 Mb genome.ucsc.edu...
Null chr3_50-55Mb View Gene Set 0.005106 66 0.04717 120 Genomic tile: chr3 ; 50000001-55000001 Mb genome.ucsc.edu...

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 PS50805 View Gene Set 4.903e-06 415 0.003603 1 KRAB expasy.org/pros...

Gene Set Collection: pathwayCommons.reactome

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 RNA Polymerase I Promoter Clearance View Gene Set 4.9e-07 55 0.0003833 1 REACTOME - RNA Polymerase I Promoter Clearance gene set www.pathwaycomm...
Null RNA Polymerase I Chain Elongation View Gene Set 6.862e-07 49 0.0003833 1 REACTOME - RNA Polymerase I Chain Elongation gene set www.pathwaycomm...
Null RNA Polymerase I Transcription View Gene Set 1.139e-06 57 0.0004239 3 REACTOME - RNA Polymerase I Transcription gene set www.pathwaycomm...
Null RNA Polymerase I RNA Polymerase III and Mitochondrial Transcription View Gene Set 1.586e-06 93 0.0004428 4 REACTOME - RNA Polymerase I RNA Polymerase III and Mitochondrial Transcription gene set www.pathwaycomm... RNA Polymerase ... and Mitochondri...
Null Mitotic Prometaphase View Gene Set 0.0001316 86 0.0294 5 REACTOME - Mitotic Prometaphase gene set www.pathwaycomm...
Null RNA Polymerase I Promoter Opening View Gene Set 0.0002166 31 0.03498 6 REACTOME - RNA Polymerase I Promoter Opening gene set www.pathwaycomm...
Null RNA Polymerase I Transcription Initiation View Gene Set 0.0002383 25 0.03498 6 REACTOME - RNA Polymerase I Transcription Initiation gene set www.pathwaycomm...
Null M Phase View Gene Set 0.0002505 90 0.03498 6 REACTOME - M Phase gene set www.pathwaycomm...
Null Pyruvate metabolism and Citric Acid (TCA) cycle View Gene Set 0.0003257 31 0.04042 9 REACTOME - Pyruvate metabolism and Citric Acid (TCA) cycle gene set www.pathwaycomm...
Null RNA Polymerase I Promoter Escape View Gene Set 0.0004014 21 0.04483 10 REACTOME - RNA Polymerase I Promoter Escape 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-596 View Gene Set 3.127e-06 644 0.001976 1 microRNA targets for hsa-miR-596 from mirbase.targets www.mirbase.org...
Null hsa-miR-663 View Gene Set 6.012e-06 743 0.001976 1 microRNA targets for hsa-miR-663 from mirbase.targets www.mirbase.org...
Null hsa-miR-941 View Gene Set 8.339e-06 590 0.001976 1 microRNA targets for hsa-miR-941 from mirbase.targets www.mirbase.org...
Null hsa-miR-296-5p View Gene Set 1.453e-05 755 0.002583 4 microRNA targets for hsa-miR-296-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-486-3p View Gene Set 3.412e-05 773 0.004852 5 microRNA targets for hsa-miR-486-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-127-3p View Gene Set 0.0001038 653 0.0123 6 microRNA targets for hsa-miR-127-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-324-3p View Gene Set 0.0001283 788 0.01303 7 microRNA targets for hsa-miR-324-3p from mirbase.targets www.mirbase.org...
Null hsa-miR-423-5p View Gene Set 0.0002169 767 0.01927 8 microRNA targets for hsa-miR-423-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-185* View Gene Set 0.0003702 506 0.02863 9 microRNA targets for hsa-miR-185* from mirbase.targets www.mirbase.org...
Null hsa-miR-342-5p View Gene Set 0.0004401 698 0.02863 9 microRNA targets for hsa-miR-342-5p from mirbase.targets www.mirbase.org...
Null hsa-miR-593 View Gene Set 0.000443 556 0.02863 9 microRNA targets for hsa-miR-593 from mirbase.targets www.mirbase.org...
Null hsa-miR-484 View Gene Set 0.0008629 733 0.04719 12 microRNA targets for hsa-miR-484 from mirbase.targets www.mirbase.org...
Null hsa-miR-631 View Gene Set 0.0008445 714 0.04719 12 microRNA targets for hsa-miR-631 from mirbase.targets www.mirbase.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 IL-1 Signaling Pathway View Gene Set 0.0007257 233 0.01451 1 From NetPath for IL-1 Signaling Pathway 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 Wnt View Gene Set 0.002037 45 0.0489 1 From NetPath for Wnt www.netpath.org...