Genes containing SNVs that were identified in the discovery sequencing (phase I) and passed filtering for the Inflammatory Bowel Disease Associated Rare Variant analysis.
Authors:
Prescott NJ, Lehne B, Stone K, Lee JC, Taylor K, Knight J, Papouli E, Mirza MM, Simpson MA, Spain SL, Lu G, Fraternali F, Bumpstead SJ, Gray E, Amar A, Bye H, Green P, Chung-Faye G, Hayee B, Pollok R, Satsangi J, Parkes M, Barrett JC, Mansfield JC, Sanderson J, Lewis CM, Weale ME, Schlitt T, Mathew CG
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 Vitiligo. The EFO term Vitiligo 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:
Y Jin, SA Birlea, PR Fain, K Gowan, SL Riccardi, PJ Holland, DC Bennett, DM Herbstman, MR Wallace, WT McCormack, EH Kemp, DJ Gawkrodger, AP Weetman, M Picardo, G Leone, A Taïeb, T Jouary, K Ezzedine, N van Geel, J Lambert, A Overbeck, RA Spritz
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 Ulcerative colitis. The EFO term ulcerative colitis 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.
GWAS: serum IgG measurement, response to dietary antigen
Description:
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 Food antigen IgG levels. The EFO term serum IgG measurement, response to dietary antigen 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:
R Rubicz, R Yolken, A Alaedini, E Drigalenko, JC Charlesworth, MA Carless, EG Severance, B Krivogorsky, TD Dyer, JW Kent, JE Curran, MP Johnson, SA Cole, L Almasy, EK Moses, J Blangero, HH Göring
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 Coronary heart disease. The EFO term coronary heart disease 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:
X Lu, L Wang, S Chen, L He, X Yang, Y Shi, J Cheng, L Zhang, CC Gu, J Huang, T Wu, Y Ma, J Li, J Cao, J Chen, D Ge, Z Fan, Y Li, L Zhao, H Li, X Zhou, L Chen, D Liu, J Chen, X Duan, Y Hao, L Wang, F Lu, Z Liu, C Yao, C Shen, X Pu, L Yu, X Fang, L Xu, J Mu, X Wu, R Zheng, N Wu, Q Zhao, Y Li, X Liu, M Wang, D Yu, D Hu, X Ji, D Guo, D Sun, Q Wang, Y Yang, F Liu, Q Mao, X Liang, J Ji, P Chen, X Mo, D Li, G Chai, Y Tang, X Li, Z Du, X Liu, C Dou, Z Yang, Q Meng, D Wang, R Wang, J Yang, H Schunkert, NJ Samani, S Kathiresan, MP Reilly, J Erdmann, X Peng, X Wu, D Liu, Y Yang, R Chen, B Qiang, D Gu
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 EGFR mutation-positive lung adenocarcinoma. The EFO term lung adenocarcinoma 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:
K Shiraishi, Y Okada, A Takahashi, Y Kamatani, Y Momozawa, K Ashikawa, H Kunitoh, S Matsumoto, A Takano, K Shimizu, A Goto, K Tsuta, S Watanabe, Y Ohe, Y Watanabe, Y Goto, H Nokihara, K Furuta, A Yoshida, K Goto, T Hishida, M Tsuboi, K Tsuchihara, Y Miyagi, H Nakayama, T Yokose, K Tanaka, T Nagashima, Y Ohtaki, D Maeda, K Imai, Y Minamiya, H Sakamoto, A Saito, Y Shimada, K Sunami, M Saito, J Inazawa, Y Nakamura, T Yoshida, J Yokota, F Matsuda, K Matsuo, Y Daigo, M Kubo, T Kohno
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 Anti-cyclic Citrullinated Peptide Antibody. The EFO term anti-cyclic citrullinated peptide antibody measurement 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:
J Cui, KE Taylor, AL Destefano, LA Criswell, ES Izmailova, A Parker, R Roubenoff, RM Plenge, ME Weinblatt, NA Shadick, EW Karlson
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 Marginal zone lymphoma. The EFO term marginal zone B-cell lymphoma 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:
J Vijai, Z Wang, SI Berndt, CF Skibola, SL Slager, S de Sanjose, M Melbye, B Glimelius, PM Bracci, L Conde, BM Birmann, SS Wang, AR Brooks-Wilson, Q Lan, PI de Bakker, RC Vermeulen, C Portlock, SM Ansell, BK Link, J Riby, KE North, J Gu, H Hjalgrim, W Cozen, N Becker, LR Teras, JJ Spinelli, J Turner, Y Zhang, MP Purdue, GG Giles, RS Kelly, A Zeleniuch-Jacquotte, MG Ennas, A Monnereau, KA Bertrand, D Albanes, T Lightfoot, M Yeager, CC Chung, L Burdett, A Hutchinson, C Lawrence, R Montalvan, L Liang, J Huang, B Ma, DJ Villano, A Maria, M Corines, T Thomas, AJ Novak, A Dogan, M Liebow, CA Thompson, TE Witzig, TM Habermann, GJ Weiner, MT Smith, EA Holly, RD Jackson, LF Tinker, Y Ye, HO Adami, KE Smedby, AJ De Roos, P Hartge, LM Morton, RK Severson, Y Benavente, P Boffetta, P Brennan, L Foretova, M Maynadie, J McKay, A Staines, WR Diver, CM Vajdic, BK Armstrong, A Kricker, T Zheng, TR Holford, G Severi, P Vineis, GM Ferri, R Ricco, L Miligi, J Clavel, E Giovannucci, P Kraft, J Virtamo, A Smith, E Kane, E Roman, BC Chiu, JF Fraumeni, X Wu, JR Cerhan, K Offit, SJ Chanock, N Rothman, A Nieters
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 Ulcerative colitis. The EFO term ulcerative colitis 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:
A Franke, T Balschun, TH Karlsen, J Sventoraityte, S Nikolaus, G Mayr, FS Domingues, M Albrecht, M Nothnagel, D Ellinghaus, C Sina, CM Onnie, RK Weersma, PC Stokkers, C Wijmenga, M Gazouli, D Strachan, WL McArdle, S Vermeire, P Rutgeerts, P Rosenstiel, M Krawczak, MH Vatn, CG Mathew, S Schreiber
Analyzed 45 single nucleotide polymorphisms, tagging 29 of the loci recently associated with CD in 2527 UC cases and 4070 population controls. We also genotyped the UC-associated ECM1 variant rs11205387 in 1560 CD patients and 3028 controls.
Authors:
Waller S, Tremelling M, Bredin F, Godfrey L, Howson J, Parkes M
QTL for METH responses for body temperature on Chr17 at Zfp40 (17.81 Mbp , Build 37)
Description:
METH responses for body temperature spans 0.00 - 42.81 Mbp (NCBI Build 37) on Chr17. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for ethanol conditioned taste aversion on Chr17 at D17Ncvs39 (23.83 Mbp , Build 37)
Description:
ethanol conditioned taste aversion spans 0.00 - 48.83 Mbp (NCBI Build 37) on Chr17. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for differences in cocaine responsiveness on Chr17 at Ck-2 (45.25 Mbp , Build 37)
Description:
differences in cocaine responsiveness spans 20.25 - 70.25 Mbp (NCBI Build 37) on Chr17. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for differences in cocaine responsiveness on Chr17 at D17MIt7 (51.99 Mbp , Build 37)
Description:
differences in cocaine responsiveness spans 26.99 - 76.99 Mbp (NCBI Build 37) on Chr17. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for t-psl on Chr17 at Hp (53.97 Mbp , Build 37)
Description:
t-psl spans 28.97 - 78.97 Mbp (NCBI Build 37) on Chr17. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Genes associated with Homo sapiens that interact with the MeSH term 'Arsenic' (D001151). Incorporates data from 87 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Genes associated with Homo sapiens that interact with the MeSH term 'Tretinoin' (D014212). Incorporates data from 1 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Genes associated with Platichthys flesus that interact with the MeSH term 'Cadmium Chloride' (D019256). Incorporates data from 4 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Genes associated with Oryzias latipes that interact with the MeSH term 'Tetrachlorodibenzodioxin' (D013749). Incorporates data from 41 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Ethanol Induced Ataxia Chr#17 rs3672987(33247165) with right flanking marker rs4136382(3388912) and left marker rs3715723(58810428). This was mapped in 300 + (b6x129)F2 mice.
GeneWeaver