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 Menarche (age at onset). The EFO term age at menarche 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:
CE Elks, JR Perry, P Sulem, DI Chasman, N Franceschini, C He, KL Lunetta, JA Visser, EM Byrne, DL Cousminer, DF Gudbjartsson, T Esko, B Feenstra, JJ Hottenga, DL Koller, Z Kutalik, P Lin, M Mangino, M Marongiu, PF McArdle, AV Smith, L Stolk, SH van Wingerden, JH Zhao, E Albrecht, T Corre, E Ingelsson, C Hayward, PK Magnusson, EN Smith, S Ulivi, NM Warrington, L Zgaga, H Alavere, N Amin, T Aspelund, S Bandinelli, I Barroso, GS Berenson, S Bergmann, H Blackburn, E Boerwinkle, JE Buring, F Busonero, H Campbell, SJ Chanock, W Chen, MC Cornelis, D Couper, AD Coviello, P d'Adamo, U de Faire, EJ de Geus, P Deloukas, A Döring, GD Smith, DF Easton, G Eiriksdottir, V Emilsson, J Eriksson, L Ferrucci, AR Folsom, T Foroud, M Garcia, P Gasparini, F Geller, C Gieger, V Gudnason, P Hall, SE Hankinson, L Ferreli, AC Heath, DG Hernandez, A Hofman, FB Hu, T Illig, MR Järvelin, AD Johnson, D Karasik, KT Khaw, DP Kiel, TO Kilpeläinen, I Kolcic, P Kraft, LJ Launer, JS Laven, S Li, J Liu, D Levy, NG Martin, WL McArdle, M Melbye, V Mooser, JC Murray, SS Murray, MA Nalls, P Navarro, M Nelis, AR Ness, K Northstone, BA Oostra, M Peacock, LJ Palmer, A Palotie, G Paré, AN Parker, NL Pedersen, L Peltonen, CE Pennell, P Pharoah, O Polasek, AS Plump, A Pouta, E Porcu, T Rafnar, JP Rice, SM Ring, F Rivadeneira, I Rudan, C Sala, V Salomaa, S Sanna, D Schlessinger, NJ Schork, A Scuteri, AV Segrè, AR Shuldiner, N Soranzo, U Sovio, SR Srinivasan, DP Strachan, ML Tammesoo, E Tikkanen, D Toniolo, K Tsui, L Tryggvadottir, J Tyrer, M Uda, RM van Dam, JB van Meurs, P Vollenweider, G Waeber, NJ Wareham, DM Waterworth, MN Weedon, HE Wichmann, G Willemsen, JF Wilson, AF Wright, L Young, G Zhai, WV Zhuang, LJ Bierut, DI Boomsma, HA Boyd, L Crisponi, EW Demerath, CM van Duijn, MJ Econs, TB Harris, DJ Hunter, RJ Loos, A Metspalu, GW Montgomery, PM Ridker, TD Spector, EA Streeten, K Stefansson, U Thorsteinsdottir, AG Uitterlinden, E Widen, JM Murabito, KK Ong, A Murray
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 Barrett's esophagus. The EFO term Barrett's esophagus 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:
DM Levine, WE Ek, R Zhang, X Liu, L Onstad, C Sather, P Lao-Sirieix, MD Gammon, DA Corley, NJ Shaheen, NC Bird, LJ Hardie, LJ Murray, BJ Reid, WH Chow, HA Risch, O Nyrén, W Ye, G Liu, Y Romero, L Bernstein, AH Wu, AG Casson, SJ Chanock, P Harrington, I Caldas, I Debiram-Beecham, C Caldas, NK Hayward, PD Pharoah, RC Fitzgerald, S Macgregor, DC Whiteman, TL Vaughan
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 Esophageal adenocarcinoma. The EFO term esophageal 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:
DM Levine, WE Ek, R Zhang, X Liu, L Onstad, C Sather, P Lao-Sirieix, MD Gammon, DA Corley, NJ Shaheen, NC Bird, LJ Hardie, LJ Murray, BJ Reid, WH Chow, HA Risch, O Nyrén, W Ye, G Liu, Y Romero, L Bernstein, AH Wu, AG Casson, SJ Chanock, P Harrington, I Caldas, I Debiram-Beecham, C Caldas, NK Hayward, PD Pharoah, RC Fitzgerald, S Macgregor, DC Whiteman, TL Vaughan
GWAS: esophageal adenocarcinoma, digestive system disease, Barrett's esophagus
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 Digestive system disease (Barrett's esophagus and esophageal adenocarcinoma combined). The EFO term esophageal adenocarcinoma, digestive system disease, Barrett's esophagus 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:
DM Levine, WE Ek, R Zhang, X Liu, L Onstad, C Sather, P Lao-Sirieix, MD Gammon, DA Corley, NJ Shaheen, NC Bird, LJ Hardie, LJ Murray, BJ Reid, WH Chow, HA Risch, O Nyrén, W Ye, G Liu, Y Romero, L Bernstein, AH Wu, AG Casson, SJ Chanock, P Harrington, I Caldas, I Debiram-Beecham, C Caldas, NK Hayward, PD Pharoah, RC Fitzgerald, S Macgregor, DC Whiteman, TL Vaughan
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 Body fat percentage. The EFO term body fat percentage 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 Lu, FR Day, S Gustafsson, ML Buchkovich, J Na, V Bataille, DL Cousminer, Z Dastani, AW Drong, T Esko, DM Evans, M Falchi, MF Feitosa, T Ferreira, ÅK Hedman, R Haring, PG Hysi, MM Iles, AE Justice, S Kanoni, V Lagou, R Li, X Li, A Locke, C Lu, R Mägi, JR Perry, TH Pers, Q Qi, M Sanna, EM Schmidt, WR Scott, D Shungin, A Teumer, AA Vinkhuyzen, RW Walker, HJ Westra, M Zhang, W Zhang, JH Zhao, Z Zhu, U Afzal, TS Ahluwalia, SJ Bakker, C Bellis, A Bonnefond, K Borodulin, AS Buchman, T Cederholm, AC Choh, HJ Choi, JE Curran, LC de Groot, PL De Jager, RA Dhonukshe-Rutten, AW Enneman, E Eury, DS Evans, T Forsen, N Friedrich, F Fumeron, ME Garcia, S Gärtner, BG Han, AS Havulinna, C Hayward, D Hernandez, H Hillege, T Ittermann, JW Kent, I Kolcic, T Laatikainen, J Lahti, I Mateo Leach, CG Lee, JY Lee, T Liu, Y Liu, S Lobbens, M Loh, LP Lyytikäinen, C Medina-Gomez, K Michaëlsson, MA Nalls, CM Nielson, L Oozageer, L Pascoe, L Paternoster, O Polašek, S Ripatti, MA Sarzynski, CS Shin, NS Narančić, D Spira, P Srikanth, E Steinhagen-Thiessen, YJ Sung, KM Swart, L Taittonen, T Tanaka, E Tikkanen, N van der Velde, NM van Schoor, N Verweij, AF Wright, L Yu, JM Zmuda, N Eklund, T Forrester, N Grarup, AU Jackson, K Kristiansson, T Kuulasmaa, J Kuusisto, P Lichtner, J Luan, A Mahajan, S Männistö, CD Palmer, JS Ried, RA Scott, A Stancáková, PJ Wagner, A Demirkan, A Döring, V Gudnason, DP Kiel, B Kühnel, M Mangino, B Mcknight, C Menni, JR O'Connell, BA Oostra, AR Shuldiner, K Song, L Vandenput, CM van Duijn, P Vollenweider, CC White, M Boehnke, Y Boettcher, RS Cooper, NG Forouhi, C Gieger, H Grallert, A Hingorani, T Jørgensen, P Jousilahti, M Kivimaki, M Kumari, M Laakso, C Langenberg, A Linneberg, A Luke, CA Mckenzie, A Palotie, O Pedersen, A Peters, K Strauch, BO Tayo, NJ Wareham, DA Bennett, L Bertram, J Blangero, M Blüher, C Bouchard, H Campbell, NH Cho, SR Cummings, SA Czerwinski, I Demuth, R Eckardt, JG Eriksson, L Ferrucci, OH Franco, P Froguel, RT Gansevoort, T Hansen, TB Harris, N Hastie, M Heliövaara, A Hofman, JM Jordan, A Jula, M Kähönen, E Kajantie, PB Knekt, S Koskinen, P Kovacs, T Lehtimäki, L Lind, Y Liu, ES Orwoll, C Osmond, M Perola, L Pérusse, OT Raitakari, T Rankinen, DC Rao, TK Rice, F Rivadeneira, I Rudan, V Salomaa, TI Sørensen, M Stumvoll, A Tönjes, B Towne, GJ Tranah, A Tremblay, AG Uitterlinden, P van der Harst, E Vartiainen, JS Viikari, V Vitart, MC Vohl, H Völzke, M Walker, H Wallaschofski, S Wild, JF Wilson, L Yengo, DT Bishop, IB Borecki, JC Chambers, LA Cupples, A Dehghan, P Deloukas, G Fatemifar, C Fox, TS Furey, L Franke, J Han, DJ Hunter, J Karjalainen, F Karpe, RC Kaplan, JS Kooner, MI McCarthy, JM Murabito, AP Morris, JA Bishop, KE North, C Ohlsson, KK Ong, I Prokopenko, JB Richards, EE Schadt, TD Spector, E Widén, CJ Willer, J Yang, E Ingelsson, KL Mohlke, JN Hirschhorn, JA Pospisilik, MC Zillikens, C Lindgren, TO Kilpeläinen, RJ Loos
Whole Brain Gene Expression Correlates for ACTI_DIFF_05 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. The ACTI_DIFF_05 measures Difference in distance traveled (cm) during the first five min (saline-ethanol) under the domain Ethanol. The correlates were thresholded at a p-value of less than 0.001.
Authors:
Philip VM, Duvvuru S, Gomero B, Ansah TA, Blaha CD, Cook MN, Hamre KM, Lariviere WR, Matthews DB, Mittleman G, Goldowitz D, Chesler EJ
Hippocampus Gene Expression Correlates for LM_PAIR3 measured in BXD RI Females obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The LM_PAIR3 measures Activity during 3rd tone shock pairing under the domain Basal Behavior. The correlates were thresholded at a p-value of less than 0.001.
Authors:
Philip VM, Duvvuru S, Gomero B, Ansah TA, Blaha CD, Cook MN, Hamre KM, Lariviere WR, Matthews DB, Mittleman G, Goldowitz D, Chesler EJ
Cerebellum Gene Expression Correlates for OF_CENTER_DIST_PCT measured in BXD RI Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The OF_CENTER_DIST_PCT measures Open Field - Percentage of total distance traveled in center under the domain Basal Behavior. The correlates were thresholded at a p-value of less than 0.001.
Authors:
Philip VM, Duvvuru S, Gomero B, Ansah TA, Blaha CD, Cook MN, Hamre KM, Lariviere WR, Matthews DB, Mittleman G, Goldowitz D, Chesler EJ
Neocortex Gene Expression Correlates for MDMA_ACT_MDA_1 measured in BXD RI Females & Males obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The MDMA_ACT_MDA_1 measures Locomotor response of 10 mg/kg MDMA injected on Day 2 under the domain MDMA. The correlates were thresholded at a p-value of less than 0.001.
Authors:
Philip VM, Duvvuru S, Gomero B, Ansah TA, Blaha CD, Cook MN, Hamre KM, Lariviere WR, Matthews DB, Mittleman G, Goldowitz D, Chesler EJ
Neocortex Gene Expression Correlates for MDMA_ACT_MDA_1 measured in BXD RI Females obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The MDMA_ACT_MDA_1 measures Locomotor response of 10 mg/kg MDMA injected on Day 2 under the domain MDMA. The correlates were thresholded at a p-value of less than 0.001.
Authors:
Philip VM, Duvvuru S, Gomero B, Ansah TA, Blaha CD, Cook MN, Hamre KM, Lariviere WR, Matthews DB, Mittleman G, Goldowitz D, Chesler EJ
A list of genes whose transcript abundance in the PFC changed significantly 4 hours after an acute dose of ethanol (1.8 g/kg). This list was generated using Fisher's Combined Probability test to analyze saline vs ethanol S-scores across B6 and D2 inbred strains (n=3) and 27 BXD RI lines (n=1). Statistical significance was determined using 1,000 permutations of S-score data and selecting for probe-sets with q-values < 0.05. Aaron Wolen 5-26-10.
Authors:
Wolen AR, Phillips CA, Langston MA, Putman AH, Vorster PJ, Bruce NA, York TP, Williams RW, Miles MF
QTL for differences in cocaine responsiveness on Chr8 at D8MIt8 (53.66 Mbp , Build 37)
Description:
differences in cocaine responsiveness spans 28.66 - 78.66 Mbp (NCBI Build 37) on Chr8. 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 chronic alcohol withdrawal severity on Chr8 at D8Mit25 (65.54 Mbp , Build 37)
Description:
chronic alcohol withdrawal severity spans 40.54 - 90.54 Mbp (NCBI Build 37) on Chr8. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Authors:
Bergeson SE, Kyle Warren R, Crabbe JC, Metten P, Gene Erwin V, Belknap JK
QTL for METH responses for body temperature on Chr8 at D8Ncvs43 (95.66 Mbp , Build 37)
Description:
METH responses for body temperature spans 70.66 - 120.66 Mbp (NCBI Build 37) on Chr8. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
None - Basal gene expression profiles between C57BL/6J, DBA/2J, 129P3/J, and SWR/J strains DNA microarray Change in gene expression Two-way analysis of variance (ANOVA). 3,457 probe sets (corresponded to 2,870 different transcripts) with significant inter-strain differences (differ by at least 1.2-fold) - False discovery rate [FDR] < 1%, , rank > 3. Such a large disparity in the mouse striatal transcriptome was estimated by comparing nine array replicates prepared per strain from all of the treatment groups. More than half of the identified probe sets exhibited markedly significant results (1,735 with rank > 7). (NIF Method ID 84.1)
Authors:
Korostynski M, Piechota M, Kaminska D, Solecki W, Przewlocki R
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 Ovis aries that interact with the MeSH term 'Progesterone' (D011374). Incorporates data from 3 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 'butyraldehyde' (C018475). Incorporates data from 7 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 'Selenium' (D012643). Incorporates data from 99 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 'Asbestos, Crocidolite' (D017638). Incorporates data from 14 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
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