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 Serum albumin level. The EFO term serum albumin 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:
N Franceschini, FJ van Rooij, BP Prins, MF Feitosa, M Karakas, JH Eckfeldt, AR Folsom, J Kopp, A Vaez, JS Andrews, J Baumert, V Boraska, L Broer, C Hayward, JS Ngwa, Y Okada, O Polasek, HJ Westra, YA Wang, F Del Greco M, NL Glazer, K Kapur, IP Kema, LM Lopez, A Schillert, AV Smith, CA Winkler, L Zgaga, S Bandinelli, S Bergmann, M Boban, M Bochud, YD Chen, G Davies, A Dehghan, J Ding, A Doering, JP Durda, L Ferrucci, OH Franco, L Franke, G Gunjaca, A Hofman, FC Hsu, I Kolcic, A Kraja, M Kubo, KJ Lackner, L Launer, LR Loehr, G Li, C Meisinger, Y Nakamura, C Schwienbacher, JM Starr, A Takahashi, V Torlak, AG Uitterlinden, V Vitart, M Waldenberger, PS Wild, M Kirin, T Zeller, T Zemunik, Q Zhang, A Ziegler, S Blankenberg, E Boerwinkle, IB Borecki, H Campbell, IJ Deary, TM Frayling, C Gieger, TB Harris, AA Hicks, W Koenig, CJ O' Donnell, CS Fox, PP Pramstaller, BM Psaty, AP Reiner, JI Rotter, I Rudan, H Snieder, T Tanaka, CM van Duijn, P Vollenweider, G Waeber, JF Wilson, JC Witteman, BH Wolffenbuttel, AF Wright, Q Wu, Y Liu, NS Jenny, KE North, JF Felix, BZ Alizadeh, LA Cupples, JR Perry, AP Morris
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 Serum total protein level. The EFO term total blood protein 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:
N Franceschini, FJ van Rooij, BP Prins, MF Feitosa, M Karakas, JH Eckfeldt, AR Folsom, J Kopp, A Vaez, JS Andrews, J Baumert, V Boraska, L Broer, C Hayward, JS Ngwa, Y Okada, O Polasek, HJ Westra, YA Wang, F Del Greco M, NL Glazer, K Kapur, IP Kema, LM Lopez, A Schillert, AV Smith, CA Winkler, L Zgaga, S Bandinelli, S Bergmann, M Boban, M Bochud, YD Chen, G Davies, A Dehghan, J Ding, A Doering, JP Durda, L Ferrucci, OH Franco, L Franke, G Gunjaca, A Hofman, FC Hsu, I Kolcic, A Kraja, M Kubo, KJ Lackner, L Launer, LR Loehr, G Li, C Meisinger, Y Nakamura, C Schwienbacher, JM Starr, A Takahashi, V Torlak, AG Uitterlinden, V Vitart, M Waldenberger, PS Wild, M Kirin, T Zeller, T Zemunik, Q Zhang, A Ziegler, S Blankenberg, E Boerwinkle, IB Borecki, H Campbell, IJ Deary, TM Frayling, C Gieger, TB Harris, AA Hicks, W Koenig, CJ O' Donnell, CS Fox, PP Pramstaller, BM Psaty, AP Reiner, JI Rotter, I Rudan, H Snieder, T Tanaka, CM van Duijn, P Vollenweider, G Waeber, JF Wilson, JC Witteman, BH Wolffenbuttel, AF Wright, Q Wu, Y Liu, NS Jenny, KE North, JF Felix, BZ Alizadeh, LA Cupples, JR Perry, AP Morris
Assessment of differential expression of genes in the dorsal hippocampus of rats treated with 12% ethanol or tap water for 15 months helped identify ethanol-dependece genes. Uploaded here are genes upregulated during chronic ethanol treatment.
Hippocampus Gene Expression Correlates for OF_DIST_0_5 measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The OF_DIST_0_5 measures Open Field - Total distance traveled 0-5 minutes 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
alcohol preference 7 spans 13.47 - 63.47 Mbp (NCBI Build 37) on Chr7. 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 ethanol conditioned taste aversion on Chr7 at D7Ncvs57 (73.76 Mbp , Build 37)
Description:
ethanol conditioned taste aversion spans 48.76 - 98.76 Mbp (NCBI Build 37) on Chr7. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Chronic cocaine - Cocaine-paired (conditioned place preference) vs. Control (saline or cocaine-non-paired) DNA microarray All genes on microarray presented After the pre-conditioning phase where animals were allowed access to either compartment for 15 minutes for 4 consecutive days, the conditioning phase for the cocaine-paired groups and cocaine non-paired groups began, consisting of eight subsequent daily sessions. For both groups, cocaine (10 mg / kg) or saline injections were administered on alternate days. For the cocaine-paired groups, rats were immediately placed in one of the two compartments for 30 min with the door in place restricting a z transformation followed by z test and anova followed by Student-Newman-Keuls' post hoc test. Gene expression profile was assessed 24 h after the last conditioning session that corresponded to 48 h after last cocaine exposure, when drug has been eliminated from the body and transient transcriptional changes are likely to be minimal. Therefore, changes in gene expression at this time-point are likely to reflect longer lasting adaptations that may account for maintenance of cocaine-induced memories. The complete lists of normalized gene expression values for the hippocampus of saline-treated, cocaine non-paired and cocaine-paired groups are presented. Analyses revealed that 214 transcripts were differentially regulated in the hippocampus of cocaine-paired rats vs. non-paired and saline-treated controls. Cocaine-induced conditioned place preference caused significant increases in the expression of 151 genes and caused decreases in the expression of 63 genes. (NIF Table ID 130.1 [83])
Authors:
Krasnova IN, Li SM, Wood WH, McCoy MT, Prabhu VV, Becker KG, Katz JL, Cadet JL
Chronic cocaine - Cocaine-paired (conditioned place preference) vs. Control (saline or cocaine-non-paired) DNA microarray All genes on microarray presented After the pre-conditioning phase where animals were allowed access to either compartment for 15 minutes for 4 consecutive days, the conditioning phase for the cocaine-paired groups and cocaine non-paired groups began, consisting of eight subsequent daily sessions. For both groups, cocaine (10 mg / kg) or saline injections were administered on alternate days. For the cocaine-paired groups, rats were immediately placed in one of the two compartments for 30 min with the door in place restricting a z transformation followed by z test and anova followed by Student-Newman-Keuls' post hoc test. Gene expression profile was assessed 24 h after the last conditioning session that corresponded to 48 h after last cocaine exposure, when drug has been eliminated from the body and transient transcriptional changes are likely to be minimal. Therefore, changes in gene expression at this time-point are likely to reflect longer lasting adaptations that may account for maintenance of cocaine-induced memories. The complete lists of normalized gene expression values for the frontal cortex of saline-treated, cocaine non-paired and cocaine-paired groups are presented. Differences in the expression of 39 transcripts in the frontal cortex were related to the conditioned place preference paradigm. These include increases in the level of 22 genes and decreases in 17 genes. (NIF Table ID 130.3 [83.5])
Authors:
Krasnova IN, Li SM, Wood WH, McCoy MT, Prabhu VV, Becker KG, Katz JL, Cadet JL
Genes associated with Homo sapiens that interact with the MeSH term 'Copper Sulfate' (D019327). Incorporates data from 72 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 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 'Cyclosporine' (D016572). 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 Homo sapiens that interact with the MeSH term 'Aflatoxin B1' (D016604). Incorporates data from 5 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 'Particulate Matter' (D052638). Incorporates data from 6 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 'sulindac sulfide' (C025462). 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 'Vehicle Emissions' (D001335). Incorporates data from 20 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 'Valproic Acid' (D014635). Incorporates data from 1238 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
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