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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 Smoking behavior. The EFO term smoking behavior 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:
TE Thorgeirsson, DF Gudbjartsson, I Surakka, JM Vink, N Amin, F Geller, P Sulem, T Rafnar, T Esko, S Walter, C Gieger, R Rawal, M Mangino, I Prokopenko, R Mägi, K Keskitalo, IH Gudjonsdottir, S Gretarsdottir, H Stefansson, JR Thompson, YS Aulchenko, M Nelis, KK Aben, M den Heijer, A Dirksen, H Ashraf, N Soranzo, AM Valdes, C Steves, AG Uitterlinden, A Hofman, A Tönjes, P Kovacs, JJ Hottenga, G Willemsen, N Vogelzangs, A Döring, N Dahmen, B Nitz, ML Pergadia, B Saez, V De Diego, V Lezcano, MD Garcia-Prats, S Ripatti, M Perola, J Kettunen, AL Hartikainen, A Pouta, J Laitinen, M Isohanni, S Huei-Yi, M Allen, M Krestyaninova, AS Hall, GT Jones, AM van Rij, T Mueller, B Dieplinger, M Haltmayer, S Jonsson, SE Matthiasson, H Oskarsson, T Tyrfingsson, LA Kiemeney, JI Mayordomo, JS Lindholt, JH Pedersen, WA Franklin, H Wolf, GW Montgomery, AC Heath, NG Martin, PA Madden, I Giegling, D Rujescu, MR Järvelin, V Salomaa, M Stumvoll, TD Spector, HE Wichmann, A Metspalu, NJ Samani, BW Penninx, BA Oostra, DI Boomsma, H Tiemeier, CM van Duijn, J Kaprio, JR Gulcher, MI McCarthy, L Peltonen, U Thorsteinsdottir, K Stefansson
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 Nicotine dependence. The EFO term nicotine dependence 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:
JP Rice, SM Hartz, A Agrawal, L Almasy, S Bennett, N Breslau, KK Bucholz, KF Doheny, HJ Edenberg, AM Goate, V Hesselbrock, WB Howells, EO Johnson, J Kramer, RF Krueger, S Kuperman, C Laurie, TA Manolio, RJ Neuman, JI Nurnberger, B Porjesz, E Pugh, EM Ramos, N Saccone, S Saccone, M Schuckit, LJ Bierut
Whole Brain Gene Expression Correlates for NEVCOUNT60 measured in BXD RI Females & Males obtained using INIA Brain mRNA M430 (Jun06) RMA. The NEVCOUNT60 measures Novel environment vertical activity counts minutes 45-60 under the domain Morphine. 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
QTL for nicotine sensitivity on Chr8 at D8Mit124 (13.44 Mbp , Build 37)
Description:
nicotine sensitivity spans 0.00 - 38.44 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).
alcohol preference spans 0.00 - 40.29 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:
Bachmanov AA, Reed DR, Li X, Li S, Beauchamp GK, Tordoff MG
QTL for METH responses for home cage activity on Chr8 at D8Bir2 (25.76 Mbp , Build 37)
Description:
METH responses for home cage activity spans 0.76 - 50.76 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).
chronic alcohol withdrawal severity spans 1.57 - 51.57 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
Genes associated with Oikopleura dioica that interact with the MeSH term 'Clofibrate' (D002994). Incorporates data from 27 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Genes associated with Colinus virginianus that interact with the MeSH term '2,6-dinitrotoluene' (C023514). Incorporates data from 2 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 'Amiodarone' (D000638). Incorporates data from 38 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 'Plant Extracts' (D010936). Incorporates data from 489 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 'Atrazine' (D001280). Incorporates data from 48 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 'AM 251' (C103505). Incorporates data from 10 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 'Sirolimus' (D020123). Incorporates data from 21 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 'Benzo(a)pyrene' (D001564). 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 'Carmustine' (D002330). Incorporates data from 5 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Ethanol induced LORR Chr# 8 rs3666140 (44049661) with right flanking marker rs3661760(24557766) and left marker rs13479995 (116236688). This was mapped in 300 + (b6x129)F2 mice.
Genes associated to MeSH term 'Alcoholism' or a descendant in PubMed's curated annotations. METHOD: NCBI's gene2pubmed and e-utilities were used to associate MeSH PubMed annotations to Entrz Gene IDs. To control for outlier associations, curated annotations must have at least 2 occurances to be retained. Retained annotations were then pushed to ancestor terms to ensure a complete tree. All data fetched 28 Feb 2012.
Analysis performed on raw data in GEO2R with default settings. These are derived sets from the publication data. The data is available in GEO, and was analyzed using default setting in their suite of tools. This allowed the production of age independent differential expression set to be created for bHR vs bLR by brain region. Something not presented in the paper.
Analysis performed on raw data in GEO2R with default settings. These are derived sets from the publication data. The data is available in GEO, and was analyzed using default setting in their suite of tools. This allowed the production of age independent differential expression set to be created for bHR vs bLR by brain region. Something not presented in the paper.
QTL associated with Alzheimer's disease modifier 4. This interval was obtained by using a fixed interval width of 25 Mbp around the peak marker (27830259)
Authors:
Sebastiani G, Krzywkowski P, Dudal S, Yu M, Paquette J, Malo D, Gervais F, Tremblay P
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