STANDARD_NAME PUJANA_BRCA2_PCC_NETWORK SYSTEMATIC_NAME M9516 COLLECTION C2:CGP MSIGDB_URL https://www.gsea-msigdb.org/gsea/msigdb/human/geneset/PUJANA_BRCA2_PCC_NETWORK NAMESPACE AFFY_HG_U95 DESCRIPTION_BRIEF Genes constituting the BRCA2-PCC network of transcripts whose expression positively correlated (Pearson correlation coefficient, PCC >= 0.4) with that of BRCA2 [GeneID=675] across a compendium of normal tissues. DESCRIPTION_FULL Many cancer-associated genes remain to be identified to clarify the underlying molecular mechanisms of cancer susceptibility and progression. Better understanding is also required of how mutations in cancer genes affect their products in the context of complex cellular networks. Here we have used a network modeling strategy to identify genes potentially associated with higher risk of breast cancer. Starting with four known genes encoding tumor suppressors of breast cancer, we combined gene expression profiling with functional genomic and proteomic (or 'omic') data from various species to generate a network containing 118 genes linked by 866 potential functional associations. This network shows higher connectivity than expected by chance, suggesting that its components function in biologically related pathways. One of the components of the network is HMMR, encoding a centrosome subunit, for which we demonstrate previously unknown functional associations with the breast cancer-associated gene BRCA1. Two case-control studies of incident breast cancer indicate that the HMMR locus is associated with higher risk of breast cancer in humans. Our network modeling strategy should be useful for the discovery of additional cancer-associated genes. PMID 17922014 GEOID GSE6534 AUTHORS Pujana MA,Han JD,Starita LM,Stevens KN,Tewari M,Ahn JS,Rennert G,Moreno V,Kirchhoff T,Gold B,Assmann V,Elshamy WM,Rual JF,Levine D,Rozek LS,Gelman RS,Gunsalus KC,Greenberg RA,Sobhian B,Bertin N,Venkatesan K,Ayivi-Guedehoussou N,Solé X,Hernández P,Lázaro C,Nathanson KL,Weber BL,Cusick ME,Hill DE,Offit K,Livingston DM,Gruber SB,Parvin JD,Vidal M CONTRIBUTOR Leona Saunders CONTRIBUTOR_ORG MSigDB Team EXACT_SOURCE Table 2S: BRCA2-PCCs FILTERED_BY_SIMILARITY EXTERNAL_NAMES_FOR_SIMILAR_TERMS EXTERNAL_DETAILS_URL SOURCE_MEMBERS 1031_at,1054_at,1055_g_at,1077_at,1105_s_at,1136_at,1239_s_at,1240_at,1243_at,1318_at,1347_at,1374_g_at,1376_at,1382_at,142_at,1462_s_at,1465_s_at,1470_at,1472_g_at,1473_s_at,1475_s_at,1476_s_at,1498_at,149_at,1536_at,1543_at,1544_at,1560_g_at,1570_f_at,1571_f_at,1584_at,1592_at,1599_at,1651_at,168_at,1710_s_at,1721_g_at,1764_s_at,1782_s_at,1794_at,1795_g_at,1801_at,1803_at,1809_at,1824_s_at,1850_at,1854_at,1859_s_at,1884_s_at,1896_s_at,1919_at,1941_at,1943_at,1945_at,1984_s_at,1989_at,1990_g_at,1997_s_at,2012_s_at,2028_s_at,202_at,2042_s_at,2044_s_at,2059_s_at,2061_at,2081_s_at,250_at,282_at,288_s_at,306_s_at,31600_s_at,31800_at,31801_at,31832_at,31864_at,31865_at,31876_r_at,31877_at,31891_at,31894_at,31935_s_at,31945_s_at,32009_at,32085_at,32086_at,32087_at,32117_at,32120_at,32183_at,32203_at,32222_at,32263_at,32304_at,32310_f_at,32311_r_at,32441_at,32559_s_at,32571_at,32579_at,32589_at,32617_at,32649_at,32668_at,32682_at,32683_at,32702_at,32708_g_at,32723_at,32757_at,32767_at,32784_at,32794_g_at,32849_at,32917_at,32954_at,32974_at,33039_at,33132_at,33145_at,33221_at,33237_at,33238_at,33252_at,33255_at,33266_at,33316_at,33324_s_at,33334_at,33373_at,33425_at,33456_at,33543_s_at,33715_r_at,33761_s_at,33810_at,33821_at,33918_s_at,33982_f_at,34017_s_at,34168_at,34191_at,34225_at,34276_at,34286_at,34314_at,34328_s_at,34337_s_at,34339_at,34383_at,34396_at,34417_at,34448_s_at,34449_at,34510_at,34517_at,34554_at,34563_at,34684_at,34699_at,34709_r_at,34715_at,34716_at,34717_s_at,34723_at,34736_at,34741_at,34763_at,34773_at,34790_at,34791_at,34848_at,34851_at,34852_g_at,34878_at,348_at,34926_at,34927_at,349_g_at,35002_g_at,35026_f_at,35050_at,35141_at,35193_at,35195_at,351_f_at,35215_at,35227_at,35249_at,35292_at,35303_at,35306_at,35312_at,35314_at,35319_at,35321_at,35327_at,35349_at,35364_at,35397_at,354_s_at,35572_f_at,35612_at,35662_at,35699_at,356_at,35710_s_at,35728_at,35731_at,35737_at,35743_at,35757_at,35777_at,35802_at,35821_at,35907_at,35922_at,35969_at,35970_g_at,35972_at,35995_at,36021_at,36053_at,36125_s_at,36213_at,36274_at,36277_at,36303_f_at,36397_at,36403_s_at,36457_at,36478_at,36489_at,36491_at,36531_r_at,36561_at,36576_at,36635_at,36769_at,36808_at,36837_at,36857_at,36863_at,36922_at,36968_s_at,36981_at,37094_at,37106_at,37142_at,37171_at,37173_at,37178_at,37229_at,37231_at,37264_at,37282_at,37293_at,37302_at,37304_at,37305_at,37320_at,37333_at,37416_at,37458_at,37469_at,37495_at,37502_at,37520_at,37538_at,37561_at,37577_at,37584_at,37585_at,37619_at,37622_r_at,37640_at,37646_at,37686_s_at,37700_at,37725_at,37729_at,37739_at,37757_at,37778_at,37835_at,37861_at,37870_at,37887_at,37890_at,37899_at,37910_at,37913_at,37928_at,37935_at,37985_at,38036_at,38065_at,38085_at,38114_at,38116_at,38135_at,38136_at,38147_at,38158_at,38204_at,38271_at,38296_at,38310_at,38315_at,38319_at,38341_at,38345_at,38353_at,38365_at,38366_g_at,38368_at,38414_at,38426_at,38455_at,38456_s_at,38488_s_at,38501_s_at,38532_at,38614_s_at,38655_at,38656_s_at,38728_at,38826_at,38834_at,38838_at,38843_at,38847_at,38863_at,38865_at,38885_at,38920_at,38923_at,38933_at,38940_at,38987_at,38988_at,38992_at,39020_at,39035_at,39056_at,39092_at,39109_at,39129_at,39142_at,39225_at,39233_at,39243_s_at,39262_at,39269_at,39292_r_at,39299_at,39334_s_at,39372_at,39374_at,39379_at,39387_at,39392_at,39398_s_at,393_s_at,39421_at,39426_at,394_at,39600_at,39677_at,39702_at,39746_at,39747_at,39748_at,39785_at,39806_at,39860_at,39872_at,39929_at,39930_at,39943_at,39955_at,39983_at,39984_g_at,39985_r_at,40000_f_at,40001_r_at,40002_r_at,40041_at,40106_at,40112_at,40117_at,40128_at,40145_at,40173_at,40195_at,40221_at,40227_at,40258_at,40271_at,40308_at,40341_at,40347_at,40348_s_at,40355_at,40365_at,40412_at,40451_at,40454_at,40458_at,40465_at,40476_s_at,40511_at,40563_at,40591_at,40619_at,40641_at,40676_at,40688_at,40690_at,40697_at,40707_at,40710_at,40726_at,40775_at,40784_at,40828_at,40842_at,40845_at,40846_g_at,40915_r_at,40957_at,40970_at,41003_at,41033_at,41044_at,41081_at,41085_at,41099_at,41122_at,41224_at,41251_at,41299_f_at,41308_at,41379_at,41398_at,41480_at,41514_s_at,41518_at,41547_at,41569_at,41583_at,41626_at,41639_at,41643_at,41654_at,41681_at,41717_at,41718_g_at,41719_i_at,41720_r_at,41763_g_at,41795_at,41804_at,41854_at,418_at,419_at,489_at,506_s_at,527_at,572_at,578_at,579_at,584_s_at,603_at,604_at,628_at,633_s_at,649_s_at,653_at,722_at,749_at,786_at,798_at,838_s_at,860_at,861_g_at,893_at,894_g_at,904_s_at,943_at,947_at,963_at,967_g_at,975_at,981_at,982_at,AFFX-MurIL10_at GENE_SYMBOLS SRPK1,RFC4,RFC4,RAG1,TRBC2,DTYMK,CASP2,CASP2,DDB2,RBBP4,CDC25B,TCF3,LIG1,RPA1,TAF4,POLD1,MYBL1,POLD2,MYB,MYB,MYB,MYB,ZAP70,DDX39A,CDC6,MAP2K6,BLM,PAK2,,RB1,CDC25C,TOP2A,CDKN3,UBE2C,ADK,TOP1,MAD2L1,MAZ,STMN1,CCND3,CCND3,BARD1,CDK1,CDC7,PCNA,MLH1,MYBL2,MDM2,PCNA,ABCC1,VAV1,SKP2,CCNA2,CCNB1,ARHGDIB,BRCA2,BRCA2,BAX,PRKDC,E2F1,HSF2,MYB,RB1,LCK,ITGA4,PRKCQ,NFATC3,KIF20B,LBR,HMGN1,PMS2P2,POMK,POMK,NEMP1,MPHOSPH6,DBF4,THAP9-AS1,CDC23,CHI3L2,CENPC,DDX11,SH2D1A,CCR9,PIKFYVE,ZNF184,HSF2,AATF,SPAG5,SRSF11,RBCK1,NFATC2IP,CCNB2,PRKCA,,,CTPS1,LSM4,MAT2A,SMARCA4,CHAF1A,FANCI,TCF7,SSBP2,TMPO,TMPO,TROAP,KATNA1,CSTF1,RAE1,STIL,PRPF4B,TRBC2,SMC1A,LCT,RIF1,EXOSC2,TRAT1,CPSF1,FANCA,PAXIP1,DDX46,LCK,MCM3,NASP,AURKB,TOX,CDK1,ACYP1,FUBP1,TRIM28,MAPRE1,PNN,GTF2H2,LINC00869,TRRAP,ELOVL5,HIRIP3,ZNF43,ABCC1,DNTT,DCP2,NELFA,NINL,BCAS2,RRM1,HLTF,MTF2,CYB5B,USP1,ASXL1,DPY19L2,CASP2,CASP2,CDT1,HMGCS1,GLRA2,KIF14,RECQL,CD2AP,STAG2,FOXM1,SRSF10,SRSF10,COX11,CCNB1,TFDP2,SMC3,TBCA,ACAT2,TCP1,FDFT1,AURKA,AURKA,SMC4,KIFC1,CD1A,CD1B,KIFC1,KCTD20,ZNF273,PHF20,RNASEH2A,RCBTB2,RTCA,SRSF3,LARP7,RBBP8,CCNE2,DDX39B,INSIG1,DHX15,MCM2,NCAPD2,CTCF,TLK2,EIF3H,COPS3,NAE1,RAD51AP1,RECQL,ZNF253,LCOR,CASP6,BUB1B,KIF22,CENPX,DNAJC5,ITGA4,HMGN4,CPSF4,CPSF6,RNF4,FNBP4,HDAC3,CCNF,SYCP2,MPHOSPH9,MPHOSPH9,RNASEH2B,ZWINT,LEF1,CDKN2C,RALY,MFHAS1,SLC7A1,CD3E,ZNF85,CHRNA5,ZNF101,GMPS,TTF1,PRPS1,TMSB15A,TRAPPC6A,PCCB,MACROH2A1,ATP11B,RBBP5,PTPN22,KIF2C,RAD1,HMMR,RRM2,EXOSC8,SRP9,XRCC3,ZNF354A,GFRA1,KIF23,CENPE,SLC25A46,ATR,DLGAP5,ZNF131,MAD2L1,CKAP5,CENPF,CBX1,EZH2,PTDSS1,DNMT1,RHOH,CDC45,KNTC1,PRR3,SMC2,ZNF330,ENSG00000291006,NFYA,ARHGAP19,FANCG,SNRPA1,METAP1,PSIP1,HPRT1,POLD3,UNG,BLMH,PPP1CC,XPO1,SSRP1,TFDP1,KIN,CD1C,CD1E,TTF2,CHEK2,CD47,TYMS,HCFC1,DHFR,NFYB,PRPF4,LMNB1,RPIA,HMGB2,CBX3,RAD21,PCLAF,CEP290,WRN,SH2D1A,ESPL1,TTI1,HDAC4,MED20,CNOT3,ALDH1A2,CD3D,STAU2,CNTRL,TUBGCP3,PEX1,PEX1,DUT,CDC20,TAF11,SNRPB,SNRPB,IL15,ITGB3BP,ZBTB39,OGT,TMEM106C,TMEM106C,NUP205,SEPTIN6,TOPBP1,EXOSC9,HMGXB4,MELK,RFC5,GRAP2,DNA2,CHEK1,FRG1,KIFC1,SPC25,WDR77,NSD2,DEK,SIVA1,UBR5,PAICS,H2AZ2,TPX2,SMPD4,NUDT21,AGPS,MRE11,PSIP1,SAC3D1,RFC3,TRIM24,FASTKD2,ATN1,FADS1,GTSE1,DESI2,SEPHS1,GNPAT,TBCD,RUNX1,RUNX1,TCERG1,BLMH,PAQR3,GINS1,RPP30,POLR2B,POLR2G,SLC7A1,CEP57,ASF1A,FUBP1,GTSE1,TMEM131L,EPHB6,ORC2,DLEU2,GLMN,GLMN,GLMN,VPS13A,VPS13A,,NDC80,HNRNPUL1,IDH3B,MCM6,CLINT1,TOP2A,,H2AX,TAF1C,DCBLD2,CSNK2A1,NUP93,ATAD2B,TMEM186,ANP32E,ANP32E,WDHD1,GNA15,PTTG1,POLE,FAT1,STAT5A,DDX23,FOXK2,GATA3,KIAA0930,CDC27,UBE2S,BTAF1,ITGB3BP,LAT,CKS2,CCNA2,MPHOSPH9,CLGN,KIF11,ITM2A,PPP2R5C,ARHGEF7,SNRPA,ILF3,ILF3,CDK1,SUZ12,RFXAP,PFDN4,ZNF84,TBC1D31,BUB1,POLE2,LIG3,KDM1A,SNRNP200,ZNHIT3,,CTBP1,SMC5,YTHDC2,RAD51C,MRPL9,CAMK2B,BUB3,DNAJC9,FEN1,TIMELESS,NCAPH,,ADA,ABCB7,FADS1,FADS1,FADS1,FADS1,TIAL1,NCK1,RCE1,MYB,MKI67,MKI67,MUTYH,STAT5A,CENPA,TTK,RAG2,CENPC,XRCC5,NR2C1,BRCA1,FZD2,TFDP2,CXCR4,RFC5,CNOT9,CAD,POLA1,PRIM1,UBE2I,MSH2,MSH2,UBE2S,UBE2S,TOP2A,RUNX1,MCM7,LIG4,RAD54L,PLK4,MCM4,MCM5,IL10 FOUNDER_NAMES