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 Urinary albumin excretion. The EFO term albuminuria 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:
CA Böger, MH Chen, A Tin, M Olden, A Köttgen, IH de Boer, C Fuchsberger, CM O'Seaghdha, C Pattaro, A Teumer, CT Liu, NL Glazer, M Li, JR O'Connell, T Tanaka, CA Peralta, Z Kutalik, J Luan, JH Zhao, SJ Hwang, E Akylbekova, H Kramer, P van der Harst, AV Smith, K Lohman, M de Andrade, C Hayward, B Kollerits, A Tönjes, T Aspelund, E Ingelsson, G Eiriksdottir, LJ Launer, TB Harris, AR Shuldiner, BD Mitchell, DE Arking, N Franceschini, E Boerwinkle, J Egan, D Hernandez, M Reilly, RR Townsend, T Lumley, DS Siscovick, BM Psaty, B Kestenbaum, T Haritunians, S Bergmann, P Vollenweider, G Waeber, V Mooser, D Waterworth, AD Johnson, JC Florez, JB Meigs, X Lu, ST Turner, EJ Atkinson, TS Leak, K Aasarød, F Skorpen, AC Syvänen, T Illig, J Baumert, W Koenig, BK Krämer, O Devuyst, JC Mychaleckyj, C Minelli, SJ Bakker, L Kedenko, B Paulweber, S Coassin, K Endlich, HK Kroemer, R Biffar, S Stracke, H Völzke, M Stumvoll, R Mägi, H Campbell, V Vitart, ND Hastie, V Gudnason, SL Kardia, Y Liu, O Polasek, G Curhan, F Kronenberg, I Prokopenko, I Rudan, J Arnlöv, S Hallan, G Navis, A Parsa, L Ferrucci, J Coresh, MG Shlipak, SB Bull, NJ Paterson, HE Wichmann, NJ Wareham, RJ Loos, JI Rotter, PP Pramstaller, LA Cupples, JS Beckmann, Q Yang, IM Heid, R Rettig, AW Dreisbach, M Bochud, CS Fox, WH Kao
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 Colorectal cancer. The EFO term colorectal 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:
NA Al-Tassan, N Whiffin, FJ Hosking, C Palles, SM Farrington, SE Dobbins, R Harris, M Gorman, A Tenesa, BF Meyer, SM Wakil, B Kinnersley, H Campbell, L Martin, CG Smith, S Idziaszczyk, E Barclay, TS Maughan, R Kaplan, R Kerr, D Kerr, DD Buchanan, DD Buchannan, AK Win, J Hopper, M Jenkins, NM Lindor, PA Newcomb, S Gallinger, D Conti, F Schumacher, G Casey, MG Dunlop, IP Tomlinson, JP Cheadle, RS Houlston
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 Urinary albumin-to-creatinine ratio. The EFO term urinary albumin to creatinine ratio 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 Teumer, A Tin, R Sorice, M Gorski, NC Yeo, AY Chu, M Li, Y Li, V Mijatovic, YA Ko, D Taliun, A Luciani, MH Chen, Q Yang, MC Foster, M Olden, LT Hiraki, BO Tayo, C Fuchsberger, AK Dieffenbach, AR Shuldiner, AV Smith, AM Zappa, A Lupo, B Kollerits, B Ponte, B Stengel, BK Krämer, B Paulweber, BD Mitchell, C Hayward, C Helmer, C Meisinger, C Gieger, CM Shaffer, C Müller, C Langenberg, D Ackermann, D Siscovick, E Boerwinkle, F Kronenberg, GB Ehret, G Homuth, G Waeber, G Navis, G Gambaro, G Malerba, G Eiriksdottir, G Li, HE Wichmann, H Grallert, H Wallaschofski, H Völzke, H Brenner, H Kramer, I Mateo Leach, I Rudan, HL Hillege, JS Beckmann, JC Lambert, J Luan, JH Zhao, J Chalmers, J Coresh, JC Denny, K Butterbach, LJ Launer, L Ferrucci, L Kedenko, M Haun, M Metzger, M Woodward, MJ Hoffman, M Nauck, M Waldenberger, M Pruijm, M Bochud, M Rheinberger, N Verweij, NJ Wareham, N Endlich, N Soranzo, O Polasek, P van der Harst, PP Pramstaller, P Vollenweider, PS Wild, RT Gansevoort, R Rettig, R Biffar, RJ Carroll, R Katz, RJ Loos, SJ Hwang, S Coassin, S Bergmann, SE Rosas, S Stracke, TB Harris, T Corre, T Zeller, T Illig, T Aspelund, T Tanaka, U Lendeckel, U Völker, V Gudnason, V Chouraki, W Koenig, Z Kutalik, JR O'Connell, A Parsa, IM Heid, AD Paterson, IH de Boer, O Devuyst, J Lazar, K Endlich, K Susztak, J Tremblay, P Hamet, HJ Jacob, CA Böger, CS Fox, C Pattaro, A Köttgen
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 Microalbuminuria. The EFO term Microalbuminuria 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 Teumer, A Tin, R Sorice, M Gorski, NC Yeo, AY Chu, M Li, Y Li, V Mijatovic, YA Ko, D Taliun, A Luciani, MH Chen, Q Yang, MC Foster, M Olden, LT Hiraki, BO Tayo, C Fuchsberger, AK Dieffenbach, AR Shuldiner, AV Smith, AM Zappa, A Lupo, B Kollerits, B Ponte, B Stengel, BK Krämer, B Paulweber, BD Mitchell, C Hayward, C Helmer, C Meisinger, C Gieger, CM Shaffer, C Müller, C Langenberg, D Ackermann, D Siscovick, E Boerwinkle, F Kronenberg, GB Ehret, G Homuth, G Waeber, G Navis, G Gambaro, G Malerba, G Eiriksdottir, G Li, HE Wichmann, H Grallert, H Wallaschofski, H Völzke, H Brenner, H Kramer, I Mateo Leach, I Rudan, HL Hillege, JS Beckmann, JC Lambert, J Luan, JH Zhao, J Chalmers, J Coresh, JC Denny, K Butterbach, LJ Launer, L Ferrucci, L Kedenko, M Haun, M Metzger, M Woodward, MJ Hoffman, M Nauck, M Waldenberger, M Pruijm, M Bochud, M Rheinberger, N Verweij, NJ Wareham, N Endlich, N Soranzo, O Polasek, P van der Harst, PP Pramstaller, P Vollenweider, PS Wild, RT Gansevoort, R Rettig, R Biffar, RJ Carroll, R Katz, RJ Loos, SJ Hwang, S Coassin, S Bergmann, SE Rosas, S Stracke, TB Harris, T Corre, T Zeller, T Illig, T Aspelund, T Tanaka, U Lendeckel, U Völker, V Gudnason, V Chouraki, W Koenig, Z Kutalik, JR O'Connell, A Parsa, IM Heid, AD Paterson, IH de Boer, O Devuyst, J Lazar, K Endlich, K Susztak, J Tremblay, P Hamet, HJ Jacob, CA Böger, CS Fox, C Pattaro, A Köttgen
Genome-wide association studies are conducted of two human cohorts, one group demonstrating nicotine dependence and another successfully quitting smoking. Study shows that some genetic components associated with the ability to quit overlap while many do not overlap. To perform the study, DNA samples were obtained from NIH volunteers and the allelic frequencies of the samples were analyzed using Affymetrix array analysis. This gene set comprises 290 genes associated with nicotine dependence.
Authors:
Drgon T, Montoya I, Johnson C, Liu QR, Walther D, Hamer D, Uhl GR
Hippocampus Gene Expression Correlates for OF_CENTER_DIST_PCT measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) 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 HAND_6HOURS measured in BXD RI Males obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The HAND_6HOURS measures Handling induced convulsions 6 hrs after ethanol under the domain Ethanol HIC. 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 MDMA_ACT_SAL_2 measured in BXD RI Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The MDMA_ACT_SAL_2 measures Locomotor activity after second saline treatment. 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
Striatum Gene Expression Correlates for SPD_TIMEDOWELBSEC measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The SPD_TIMEDOWELBSEC measures Dowel Test - Time B Sec under the domain Porsolt. 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 ethanol conditioned taste aversion on Chr2 at NA (35.13 Mbp , Build 37)
Description:
ethanol conditioned taste aversion spans 10.13 - 60.13 Mbp (NCBI Build 37) on Chr2. 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 'entinostat' (C118739). Incorporates data from 11 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
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 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 'Methamphetamine' (D008694). 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 'pirinixic acid' (C006253). 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 'zoledronic acid' (C088658). 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 '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.
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