downregulated in BRCA1 TNBC showing complete pathological response
Description:
Real-time PCR arrays were used to compare expression levels of 120 DNA repair related genes in 43 pretreatment biopsies of BRCA1-associated TNBCs exhibiting pathologic complete response or non-pathological responses after neoadjuvant chemotherapy with cisplatin. Genes were recorded using HGNC identifiers. Values represent fold-change of downregulation.
The phosphoprotein encoded by the BRCA1 gene (GENE, BRCA1). In normal cells the BRCA1 protein is localized in the nucleus, whereas in the majority of breast cancer cell lines and in malignant pleural effusions from breast cancer patients, it is localized mainly in the cytoplasm. (Science 1995;270(5237):713,789-91)
Generated by gene2mesh v. 1.1.1
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Ovarian cancer in BRCA1 mutation carriers. The EFO term ovarian carcinoma was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
FJ Couch, X Wang, L McGuffog, A Lee, C Olswold, KB Kuchenbaecker, P Soucy, Z Fredericksen, D Barrowdale, J Dennis, MM Gaudet, E Dicks, M Kosel, S Healey, OM Sinilnikova, A Lee, F Bacot, D Vincent, FB Hogervorst, S Peock, D Stoppa-Lyonnet, A Jakubowska, P Radice, RK Schmutzler, SM Domchek, M Piedmonte, CF Singer, E Friedman, M Thomassen, TV Hansen, SL Neuhausen, CI Szabo, I Blanco, MH Greene, BY Karlan, J Garber, CM Phelan, JN Weitzel, M Montagna, E Olah, IL Andrulis, AK Godwin, D Yannoukakos, DE Goldgar, T Caldes, H Nevanlinna, A Osorio, MB Terry, MB Daly, EJ van Rensburg, U Hamann, SJ Ramus, AE Toland, MA Caligo, OI Olopade, N Tung, K Claes, MS Beattie, MC Southey, EN Imyanitov, M Tischkowitz, R Janavicius, EM John, A Kwong, O Diez, J Balmaña, RB Barkardottir, BK Arun, G Rennert, SH Teo, PA Ganz, I Campbell, AH van der Hout, CH van Deurzen, C Seynaeve, EB Gómez Garcia, FE van Leeuwen, HE Meijers-Heijboer, JJ Gille, MG Ausems, MJ Blok, MJ Ligtenberg, MA Rookus, P Devilee, S Verhoef, TA van Os, JT Wijnen, D Frost, S Ellis, E Fineberg, R Platte, DG Evans, L Izatt, RA Eeles, J Adlard, DM Eccles, J Cook, C Brewer, F Douglas, S Hodgson, PJ Morrison, LE Side, A Donaldson, C Houghton, MT Rogers, H Dorkins, J Eason, H Gregory, E McCann, A Murray, A Calender, A Hardouin, P Berthet, C Delnatte, C Nogues, C Lasset, C Houdayer, D Leroux, E Rouleau, F Prieur, F Damiola, H Sobol, I Coupier, L Venat-Bouvet, L Castera, M Gauthier-Villars, M Léoné, P Pujol, S Mazoyer, YJ Bignon, E Złowocka-Perłowska, J Gronwald, J Lubinski, K Durda, K Jaworska, T Huzarski, AB Spurdle, A Viel, B Peissel, B Bonanni, G Melloni, L Ottini, L Papi, L Varesco, MG Tibiletti, P Peterlongo, S Volorio, S Manoukian, V Pensotti, N Arnold, C Engel, H Deissler, D Gadzicki, A Gehrig, K Kast, K Rhiem, A Meindl, D Niederacher, N Ditsch, H Plendl, S Preisler-Adams, S Engert, C Sutter, R Varon-Mateeva, B Wappenschmidt, BH Weber, B Arver, M Stenmark-Askmalm, N Loman, R Rosenquist, Z Einbeigi, KL Nathanson, TR Rebbeck, SV Blank, DE Cohn, GC Rodriguez, L Small, M Friedlander, VL Bae-Jump, A Fink-Retter, C Rappaport, D Gschwantler-Kaulich, G Pfeiler, MK Tea, NM Lindor, B Kaufman, S Shimon Paluch, Y Laitman, AB Skytte, AM Gerdes, IS Pedersen, ST Moeller, TA Kruse, UB Jensen, J Vijai, K Sarrel, M Robson, N Kauff, AM Mulligan, G Glendon, H Ozcelik, B Ejlertsen, FC Nielsen, L Jønson, MK Andersen, YC Ding, L Steele, L Foretova, A Teulé, C Lazaro, J Brunet, MA Pujana, PL Mai, JT Loud, C Walsh, J Lester, S Orsulic, SA Narod, J Herzog, SR Sand, S Tognazzo, S Agata, T Vaszko, J Weaver, AV Stavropoulou, SS Buys, A Romero, M de la Hoya, K Aittomäki, TA Muranen, M Duran, WK Chung, A Lasa, CM Dorfling, A Miron, J Benitez, L Senter, D Huo, SB Chan, AP Sokolenko, J Chiquette, L Tihomirova, TM Friebel, BA Agnarsson, KH Lu, F Lejbkowicz, PA James, P Hall, AM Dunning, D Tessier, J Cunningham, SL Slager, C Wang, S Hart, K Stevens, J Simard, T Pastinen, VS Pankratz, K Offit, DF Easton, G Chenevix-Trench, AC Antoniou
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Breast Cancer in BRCA1 mutation carriers. The EFO term breast carcinoma was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
FJ Couch, X Wang, L McGuffog, A Lee, C Olswold, KB Kuchenbaecker, P Soucy, Z Fredericksen, D Barrowdale, J Dennis, MM Gaudet, E Dicks, M Kosel, S Healey, OM Sinilnikova, A Lee, F Bacot, D Vincent, FB Hogervorst, S Peock, D Stoppa-Lyonnet, A Jakubowska, P Radice, RK Schmutzler, SM Domchek, M Piedmonte, CF Singer, E Friedman, M Thomassen, TV Hansen, SL Neuhausen, CI Szabo, I Blanco, MH Greene, BY Karlan, J Garber, CM Phelan, JN Weitzel, M Montagna, E Olah, IL Andrulis, AK Godwin, D Yannoukakos, DE Goldgar, T Caldes, H Nevanlinna, A Osorio, MB Terry, MB Daly, EJ van Rensburg, U Hamann, SJ Ramus, AE Toland, MA Caligo, OI Olopade, N Tung, K Claes, MS Beattie, MC Southey, EN Imyanitov, M Tischkowitz, R Janavicius, EM John, A Kwong, O Diez, J Balmaña, RB Barkardottir, BK Arun, G Rennert, SH Teo, PA Ganz, I Campbell, AH van der Hout, CH van Deurzen, C Seynaeve, EB Gómez Garcia, FE van Leeuwen, HE Meijers-Heijboer, JJ Gille, MG Ausems, MJ Blok, MJ Ligtenberg, MA Rookus, P Devilee, S Verhoef, TA van Os, JT Wijnen, D Frost, S Ellis, E Fineberg, R Platte, DG Evans, L Izatt, RA Eeles, J Adlard, DM Eccles, J Cook, C Brewer, F Douglas, S Hodgson, PJ Morrison, LE Side, A Donaldson, C Houghton, MT Rogers, H Dorkins, J Eason, H Gregory, E McCann, A Murray, A Calender, A Hardouin, P Berthet, C Delnatte, C Nogues, C Lasset, C Houdayer, D Leroux, E Rouleau, F Prieur, F Damiola, H Sobol, I Coupier, L Venat-Bouvet, L Castera, M Gauthier-Villars, M Léoné, P Pujol, S Mazoyer, YJ Bignon, E Złowocka-Perłowska, J Gronwald, J Lubinski, K Durda, K Jaworska, T Huzarski, AB Spurdle, A Viel, B Peissel, B Bonanni, G Melloni, L Ottini, L Papi, L Varesco, MG Tibiletti, P Peterlongo, S Volorio, S Manoukian, V Pensotti, N Arnold, C Engel, H Deissler, D Gadzicki, A Gehrig, K Kast, K Rhiem, A Meindl, D Niederacher, N Ditsch, H Plendl, S Preisler-Adams, S Engert, C Sutter, R Varon-Mateeva, B Wappenschmidt, BH Weber, B Arver, M Stenmark-Askmalm, N Loman, R Rosenquist, Z Einbeigi, KL Nathanson, TR Rebbeck, SV Blank, DE Cohn, GC Rodriguez, L Small, M Friedlander, VL Bae-Jump, A Fink-Retter, C Rappaport, D Gschwantler-Kaulich, G Pfeiler, MK Tea, NM Lindor, B Kaufman, S Shimon Paluch, Y Laitman, AB Skytte, AM Gerdes, IS Pedersen, ST Moeller, TA Kruse, UB Jensen, J Vijai, K Sarrel, M Robson, N Kauff, AM Mulligan, G Glendon, H Ozcelik, B Ejlertsen, FC Nielsen, L Jønson, MK Andersen, YC Ding, L Steele, L Foretova, A Teulé, C Lazaro, J Brunet, MA Pujana, PL Mai, JT Loud, C Walsh, J Lester, S Orsulic, SA Narod, J Herzog, SR Sand, S Tognazzo, S Agata, T Vaszko, J Weaver, AV Stavropoulou, SS Buys, A Romero, M de la Hoya, K Aittomäki, TA Muranen, M Duran, WK Chung, A Lasa, CM Dorfling, A Miron, J Benitez, L Senter, D Huo, SB Chan, AP Sokolenko, J Chiquette, L Tihomirova, TM Friebel, BA Agnarsson, KH Lu, F Lejbkowicz, PA James, P Hall, AM Dunning, D Tessier, J Cunningham, SL Slager, C Wang, S Hart, K Stevens, J Simard, T Pastinen, VS Pankratz, K Offit, DF Easton, G Chenevix-Trench, AC Antoniou
Gene Ontology (GO) gene set. This set contains genes that have been annotated to the GO term "BRCA1-BARD1 complex", which is defined as "A heterodimeric complex comprising BRCA1 and BARD1, which possesses ubiquitin ligase activity and is involved in genome maintenance, possibly by functioning in surveillance for DNA damage." This gene set was automatically constructed using annotation and ontology data provided by GO and only includes annotations with experimental and curatorial evidence codes (EXP, IDA, IPI, IMP, IGI, IEP, TAS, IC). The transitive closure of this term is taken into account using is_a and part_of relationships. For more information: The Gene Ontology Consortium (GOC), http://geneontology.org This gene set was generated using the GeneWeaver GO loader v. 0.2.8.
Authors:
M Ashburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel-Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock
"A heterodimeric complex comprising BRCA1 and BARD1, which possesses ubiquitin ligase activity and is involved in genome maintenance, possibly by functioning in surveillance for DNA damage." [PMID:12787778]
"A protein complex that contains the BRCA1-BARD1 heterodimer, RAP80/UIMC1, BRCC3/BRCC36, BRE/BRCC45, FAM175A/CCDC98/Abraxas and MERIT40/NBA1, and specifically recognizes and binds K63-linked polyubiquitin chains present on histone H2A and H2AX at DNA damage sites." [GOC:mah, PMID:19261749]
"A heterodimeric complex comprising BRCA1 and BARD1, which possesses ubiquitin ligase activity and is involved in genome maintenance, possibly by functioning in surveillance for DNA damage." [PMID:12787778]
"A protein complex that contains the BRCA1-BARD1 heterodimer, RAP80/UIMC1, BRCC3/BRCC36, BRE/BRCC45, FAM175A/CCDC98/Abraxas and MERIT40/NBA1, and specifically recognizes and binds K63-linked polyubiquitin chains present on histone H2A and H2AX at DNA damage sites." [GOC:mah, PMID:19261749]
A tumor suppressor gene (GENES, TUMOR SUPPRESSOR) located on human chromosome 17 at locus 17q21. Mutations of this gene are associated with the formation of familial breast and ovarian cancer. It encodes a large, nuclear protein that is a component of DNA repair pathways.
Generated by gene2mesh v. 1.1.1
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Breast cancer. The EFO term breast carcinoma was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
AC Antoniou, X Wang, ZS Fredericksen, L McGuffog, R Tarrell, OM Sinilnikova, S Healey, J Morrison, C Kartsonaki, T Lesnick, M Ghoussaini, D Barrowdale, S Peock, M Cook, C Oliver, D Frost, D Eccles, DG Evans, R Eeles, L Izatt, C Chu, F Douglas, J Paterson, D Stoppa-Lyonnet, C Houdayer, S Mazoyer, S Giraud, C Lasset, A Remenieras, O Caron, A Hardouin, P Berthet, FB Hogervorst, MA Rookus, A Jager, A van den Ouweland, N Hoogerbrugge, RB van der Luijt, H Meijers-Heijboer, EB Gómez García, P Devilee, MP Vreeswijk, J Lubinski, A Jakubowska, J Gronwald, T Huzarski, T Byrski, B Górski, C Cybulski, AB Spurdle, H Holland, DE Goldgar, EM John, JL Hopper, M Southey, SS Buys, MB Daly, MB Terry, RK Schmutzler, B Wappenschmidt, C Engel, A Meindl, S Preisler-Adams, N Arnold, D Niederacher, C Sutter, SM Domchek, KL Nathanson, T Rebbeck, JL Blum, M Piedmonte, GC Rodriguez, K Wakeley, JF Boggess, J Basil, SV Blank, E Friedman, B Kaufman, Y Laitman, R Milgrom, IL Andrulis, G Glendon, H Ozcelik, T Kirchhoff, J Vijai, MM Gaudet, D Altshuler, C Guiducci, N Loman, K Harbst, J Rantala, H Ehrencrona, AM Gerdes, M Thomassen, L Sunde, P Peterlongo, S Manoukian, B Bonanni, A Viel, P Radice, T Caldes, M de la Hoya, CF Singer, A Fink-Retter, MH Greene, PL Mai, JT Loud, L Guidugli, NM Lindor, TV Hansen, FC Nielsen, I Blanco, C Lazaro, J Garber, SJ Ramus, SA Gayther, C Phelan, S Narod, CI Szabo, J Benitez, A Osorio, H Nevanlinna, T Heikkinen, MA Caligo, MS Beattie, U Hamann, AK Godwin, M Montagna, C Casella, SL Neuhausen, BY Karlan, N Tung, AE Toland, J Weitzel, O Olopade, J Simard, P Soucy, WS Rubinstein, A Arason, G Rennert, NG Martin, GW Montgomery, J Chang-Claude, D Flesch-Janys, H Brauch, G Severi, L Baglietto, A Cox, SS Cross, P Miron, SM Gerty, W Tapper, D Yannoukakos, G Fountzilas, PA Fasching, MW Beckmann, I Dos Santos Silva, J Peto, D Lambrechts, R Paridaens, T Rüdiger, A Försti, R Winqvist, K Pylkäs, RB Diasio, AM Lee, J Eckel-Passow, C Vachon, F Blows, K Driver, A Dunning, PP Pharoah, K Offit, VS Pankratz, H Hakonarson, G Chenevix-Trench, DF Easton, FJ Couch
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Breast cancer. The EFO term breast carcinoma was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
ES Rinella, Y Shao, L Yackowski, S Pramanik, R Oratz, F Schnabel, S Guha, C LeDuc, CL Campbell, SD Klugman, MB Terry, RT Senie, IL Andrulis, M Daly, EM John, D Roses, WK Chung, H Ostrer
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Breast cancer. The EFO term breast carcinoma was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
B Gold, T Kirchhoff, S Stefanov, J Lautenberger, A Viale, J Garber, E Friedman, S Narod, AB Olshen, P Gregersen, K Kosarin, A Olsh, J Bergeron, NA Ellis, RJ Klein, AG Clark, L Norton, M Dean, J Boyd, K Offit
BRCA1_DN.V1_DN
Genes down-regulated in MCF10A cells (breast cancer) upon knockdown of BRCA1 <a href='http://www.ncbi.nlm.nih.gov/gene/672'>[GeneID=672]</a> gene by RNAi.
c6 - Genesets containing oncogenic signatures defined directly from microarray gene expression data from cancer gene perturbations.
Molecular Signatures Database (MSigDB) Geneset. This geneset was imported from one of the MSigDB collections.
gene2msig v. 0.1.0
Last updated 2015.08.31
MORF_BRCA1
Neighborhood of BRCA1
c4 - Computational genesets defined by mining large collections of cancer-oriented microarray data.
Molecular Signatures Database (MSigDB) Geneset. This geneset was imported from one of the MSigDB collections.
gene2msig v. 0.1.0
Last updated 2015.08.31
Autosomal dominant HEREDITARY CANCER SYNDROME in which a mutation most often in either BRCA1 or BRCA2 is associated with a significantly increased risk for breast and ovarian cancers.
Generated by gene2mesh v. 1.1.1
Genes up-regulated in cisplatin senstive (Brca1-/p53-) tumors following a brief cisplatin treatment vs untreated. The tumors were engineered. Changes in proteins levels in lystates were analyzed by in-gel digestion and Nano-liquid Chromatography-Fourier
Transformation-Mass Spectrometry (nanoLC-FT-MS). Only genes with p values of 0.05 or less are used. This set should be compared to three other sets from this publication:down-regulated with cisplatin in Brac1-tumors and up/down regulated with cisplatin in Cdh1-/;p53-
Genes were mapped to MGI identifiers. The following genes were not mapped: Nup21, C6orf1, Fam76, Thrap, U2sur, and Slc16
down-regulated with cisplatin of Brac1-/p53- tumors
Description:
Genes down-regulated in cisplatin senstive (Brca1-/p53-) tumors following a brief cisplatin treatment vs untreated. The tumors were engineered. Changes in proteins levels in lystates were analyzed by in-gel digestion and Nano-liquid Chromatography-Fourier Transformation-Mass Spectrometry (nanoLC-FT-MS). Only genes with p values of 0.05 or less are used.
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Epithelial ovarian cancer. The EFO term Malignant epithelial tumor of ovary was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
KB Kuchenbaecker, SJ Ramus, J Tyrer, A Lee, HC Shen, J Beesley, K Lawrenson, L McGuffog, S Healey, JM Lee, TJ Spindler, YG Lin, T Pejovic, Y Bean, Q Li, S Coetzee, D Hazelett, A Miron, M Southey, MB Terry, DE Goldgar, SS Buys, R Janavicius, CM Dorfling, EJ van Rensburg, SL Neuhausen, YC Ding, TV Hansen, L Jønson, AM Gerdes, B Ejlertsen, D Barrowdale, J Dennis, J Benitez, A Osorio, MJ Garcia, I Komenaka, JN Weitzel, P Ganschow, P Peterlongo, L Bernard, A Viel, B Bonanni, B Peissel, S Manoukian, P Radice, L Papi, L Ottini, F Fostira, I Konstantopoulou, J Garber, D Frost, J Perkins, R Platte, S Ellis, AK Godwin, RK Schmutzler, A Meindl, C Engel, C Sutter, OM Sinilnikova, F Damiola, S Mazoyer, D Stoppa-Lyonnet, K Claes, K De Leeneer, J Kirk, GC Rodriguez, M Piedmonte, DM O'Malley, M de la Hoya, T Caldes, K Aittomäki, H Nevanlinna, JM Collée, MA Rookus, JC Oosterwijk, L Tihomirova, N Tung, U Hamann, C Isaccs, M Tischkowitz, EN Imyanitov, MA Caligo, IG Campbell, FB Hogervorst, E Olah, O Diez, I Blanco, J Brunet, C Lazaro, MA Pujana, A Jakubowska, J Gronwald, J Lubinski, G Sukiennicki, RB Barkardottir, M Plante, J Simard, P Soucy, M Montagna, S Tognazzo, MR Teixeira, VS Pankratz, X Wang, N Lindor, CI Szabo, N Kauff, J Vijai, CA Aghajanian, G Pfeiler, A Berger, CF Singer, MK Tea, CM Phelan, MH Greene, PL Mai, G Rennert, AM Mulligan, S Tchatchou, IL Andrulis, G Glendon, AE Toland, UB Jensen, TA Kruse, M Thomassen, A Bojesen, J Zidan, E Friedman, Y Laitman, M Soller, A Liljegren, B Arver, Z Einbeigi, M Stenmark-Askmalm, OI Olopade, RL Nussbaum, TR Rebbeck, KL Nathanson, SM Domchek, KH Lu, BY Karlan, C Walsh, J Lester, A Hein, AB Ekici, MW Beckmann, PA Fasching, D Lambrechts, E Van Nieuwenhuysen, I Vergote, S Lambrechts, E Dicks, JA Doherty, KG Wicklund, MA Rossing, A Rudolph, J Chang-Claude, S Wang-Gohrke, U Eilber, KB Moysich, K Odunsi, L Sucheston, S Lele, LR Wilkens, MT Goodman, PJ Thompson, YB Shvetsov, IB Runnebaum, M Dürst, P Hillemanns, T Dörk, N Antonenkova, N Bogdanova, A Leminen, LM Pelttari, R Butzow, F Modugno, JL Kelley, RP Edwards, RB Ness, A du Bois, F Heitz, I Schwaab, P Harter, K Matsuo, S Hosono, S Orsulic, A Jensen, SK Kjaer, E Hogdall, HN Hasmad, MA Azmi, SH Teo, YL Woo, BL Fridley, EL Goode, JM Cunningham, RA Vierkant, F Bruinsma, GG Giles, D Liang, MA Hildebrandt, X Wu, DA Levine, M Bisogna, A Berchuck, ES Iversen, JM Schildkraut, P Concannon, RP Weber, DW Cramer, KL Terry, EM Poole, SS Tworoger, EV Bandera, I Orlow, SH Olson, C Krakstad, HB Salvesen, IL Tangen, L Bjorge, AM van Altena, KK Aben, LA Kiemeney, LF Massuger, M Kellar, A Brooks-Wilson, LE Kelemen, LS Cook, ND Le, C Cybulski, H Yang, J Lissowska, LA Brinton, N Wentzensen, C Hogdall, L Lundvall, L Nedergaard, H Baker, H Song, D Eccles, I McNeish, J Paul, K Carty, N Siddiqui, R Glasspool, AS Whittemore, JH Rothstein, V McGuire, W Sieh, BT Ji, W Zheng, XO Shu, YT Gao, B Rosen, HA Risch, JR McLaughlin, SA Narod, AN Monteiro, A Chen, HY Lin, J Permuth-Wey, TA Sellers, YY Tsai, Z Chen, A Ziogas, H Anton-Culver, A Gentry-Maharaj, U Menon, P Harrington, AW Lee, AH Wu, CL Pearce, G Coetzee, MC Pike, A Dansonka-Mieszkowska, A Timorek, IK Rzepecka, J Kupryjanczyk, M Freedman, H Noushmehr, DF Easton, K Offit, FJ Couch, S Gayther, PP Pharoah, AC Antoniou, G Chenevix-Trench
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Breast cancer. The EFO term breast carcinoma was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
FJ Couch, KB Kuchenbaecker, K Michailidou, GA Mendoza-Fandino, S Nord, J Lilyquist, C Olswold, E Hallberg, S Agata, H Ahsan, K Aittomäki, C Ambrosone, IL Andrulis, H Anton-Culver, V Arndt, BK Arun, B Arver, M Barile, RB Barkardottir, D Barrowdale, L Beckmann, MW Beckmann, J Benitez, SV Blank, C Blomqvist, NV Bogdanova, SE Bojesen, MK Bolla, B Bonanni, H Brauch, H Brenner, B Burwinkel, SS Buys, T Caldes, MA Caligo, F Canzian, J Carpenter, J Chang-Claude, SJ Chanock, WK Chung, KB Claes, A Cox, SS Cross, JM Cunningham, K Czene, MB Daly, F Damiola, H Darabi, M de la Hoya, P Devilee, O Diez, YC Ding, R Dolcetti, SM Domchek, CM Dorfling, I Dos-Santos-Silva, M Dumont, AM Dunning, DM Eccles, H Ehrencrona, AB Ekici, H Eliassen, S Ellis, PA Fasching, J Figueroa, D Flesch-Janys, A Försti, F Fostira, WD Foulkes, T Friebel, E Friedman, D Frost, M Gabrielson, MD Gammon, PA Ganz, SM Gapstur, J Garber, MM Gaudet, SA Gayther, AM Gerdes, M Ghoussaini, GG Giles, G Glendon, AK Godwin, MS Goldberg, DE Goldgar, A González-Neira, MH Greene, J Gronwald, P Guénel, M Gunter, L Haeberle, CA Haiman, U Hamann, TV Hansen, S Hart, S Healey, T Heikkinen, BE Henderson, J Herzog, FB Hogervorst, A Hollestelle, MJ Hooning, RN Hoover, JL Hopper, K Humphreys, DJ Hunter, T Huzarski, EN Imyanitov, C Isaacs, A Jakubowska, P James, R Janavicius, UB Jensen, EM John, M Jones, M Kabisch, S Kar, BY Karlan, S Khan, KT Khaw, MG Kibriya, JA Knight, YD Ko, I Konstantopoulou, VM Kosma, V Kristensen, A Kwong, Y Laitman, D Lambrechts, C Lazaro, E Lee, L Le Marchand, J Lester, A Lindblom, N Lindor, S Lindstrom, J Liu, J Long, J Lubinski, PL Mai, E Makalic, KE Malone, A Mannermaa, S Manoukian, S Margolin, F Marme, JW Martens, L McGuffog, A Meindl, A Miller, RL Milne, P Miron, M Montagna, S Mazoyer, AM Mulligan, TA Muranen, KL Nathanson, SL Neuhausen, H Nevanlinna, BG Nordestgaard, RL Nussbaum, K Offit, E Olah, OI Olopade, JE Olson, A Osorio, SK Park, PH Peeters, B Peissel, P Peterlongo, J Peto, CM Phelan, R Pilarski, B Poppe, K Pylkäs, P Radice, N Rahman, J Rantala, C Rappaport, G Rennert, A Richardson, M Robson, I Romieu, A Rudolph, EJ Rutgers, MJ Sanchez, RM Santella, EJ Sawyer, DF Schmidt, MK Schmidt, RK Schmutzler, F Schumacher, R Scott, L Senter, P Sharma, J Simard, CF Singer, OM Sinilnikova, P Soucy, M Southey, D Steinemann, M Stenmark-Askmalm, D Stoppa-Lyonnet, A Swerdlow, CI Szabo, R Tamimi, W Tapper, MR Teixeira, SH Teo, MB Terry, M Thomassen, D Thompson, L Tihomirova, AE Toland, RA Tollenaar, I Tomlinson, T Truong, H Tsimiklis, A Teulé, R Tumino, N Tung, C Turnbull, G Ursin, CH van Deurzen, EJ van Rensburg, R Varon-Mateeva, Z Wang, S Wang-Gohrke, E Weiderpass, JN Weitzel, A Whittemore, H Wildiers, R Winqvist, XR Yang, D Yannoukakos, S Yao, MP Zamora, W Zheng, P Hall, P Kraft, C Vachon, S Slager, G Chenevix-Trench, PD Pharoah, AA Monteiro, M García-Closas, DF Easton, AC Antoniou
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Breast cancer (estrogen-receptor negative). The EFO term estrogen-receptor negative breast cancer was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
FJ Couch, KB Kuchenbaecker, K Michailidou, GA Mendoza-Fandino, S Nord, J Lilyquist, C Olswold, E Hallberg, S Agata, H Ahsan, K Aittomäki, C Ambrosone, IL Andrulis, H Anton-Culver, V Arndt, BK Arun, B Arver, M Barile, RB Barkardottir, D Barrowdale, L Beckmann, MW Beckmann, J Benitez, SV Blank, C Blomqvist, NV Bogdanova, SE Bojesen, MK Bolla, B Bonanni, H Brauch, H Brenner, B Burwinkel, SS Buys, T Caldes, MA Caligo, F Canzian, J Carpenter, J Chang-Claude, SJ Chanock, WK Chung, KB Claes, A Cox, SS Cross, JM Cunningham, K Czene, MB Daly, F Damiola, H Darabi, M de la Hoya, P Devilee, O Diez, YC Ding, R Dolcetti, SM Domchek, CM Dorfling, I Dos-Santos-Silva, M Dumont, AM Dunning, DM Eccles, H Ehrencrona, AB Ekici, H Eliassen, S Ellis, PA Fasching, J Figueroa, D Flesch-Janys, A Försti, F Fostira, WD Foulkes, T Friebel, E Friedman, D Frost, M Gabrielson, MD Gammon, PA Ganz, SM Gapstur, J Garber, MM Gaudet, SA Gayther, AM Gerdes, M Ghoussaini, GG Giles, G Glendon, AK Godwin, MS Goldberg, DE Goldgar, A González-Neira, MH Greene, J Gronwald, P Guénel, M Gunter, L Haeberle, CA Haiman, U Hamann, TV Hansen, S Hart, S Healey, T Heikkinen, BE Henderson, J Herzog, FB Hogervorst, A Hollestelle, MJ Hooning, RN Hoover, JL Hopper, K Humphreys, DJ Hunter, T Huzarski, EN Imyanitov, C Isaacs, A Jakubowska, P James, R Janavicius, UB Jensen, EM John, M Jones, M Kabisch, S Kar, BY Karlan, S Khan, KT Khaw, MG Kibriya, JA Knight, YD Ko, I Konstantopoulou, VM Kosma, V Kristensen, A Kwong, Y Laitman, D Lambrechts, C Lazaro, E Lee, L Le Marchand, J Lester, A Lindblom, N Lindor, S Lindstrom, J Liu, J Long, J Lubinski, PL Mai, E Makalic, KE Malone, A Mannermaa, S Manoukian, S Margolin, F Marme, JW Martens, L McGuffog, A Meindl, A Miller, RL Milne, P Miron, M Montagna, S Mazoyer, AM Mulligan, TA Muranen, KL Nathanson, SL Neuhausen, H Nevanlinna, BG Nordestgaard, RL Nussbaum, K Offit, E Olah, OI Olopade, JE Olson, A Osorio, SK Park, PH Peeters, B Peissel, P Peterlongo, J Peto, CM Phelan, R Pilarski, B Poppe, K Pylkäs, P Radice, N Rahman, J Rantala, C Rappaport, G Rennert, A Richardson, M Robson, I Romieu, A Rudolph, EJ Rutgers, MJ Sanchez, RM Santella, EJ Sawyer, DF Schmidt, MK Schmidt, RK Schmutzler, F Schumacher, R Scott, L Senter, P Sharma, J Simard, CF Singer, OM Sinilnikova, P Soucy, M Southey, D Steinemann, M Stenmark-Askmalm, D Stoppa-Lyonnet, A Swerdlow, CI Szabo, R Tamimi, W Tapper, MR Teixeira, SH Teo, MB Terry, M Thomassen, D Thompson, L Tihomirova, AE Toland, RA Tollenaar, I Tomlinson, T Truong, H Tsimiklis, A Teulé, R Tumino, N Tung, C Turnbull, G Ursin, CH van Deurzen, EJ van Rensburg, R Varon-Mateeva, Z Wang, S Wang-Gohrke, E Weiderpass, JN Weitzel, A Whittemore, H Wildiers, R Winqvist, XR Yang, D Yannoukakos, S Yao, MP Zamora, W Zheng, P Hall, P Kraft, C Vachon, S Slager, G Chenevix-Trench, PD Pharoah, AA Monteiro, M García-Closas, DF Easton, AC Antoniou
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