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 Waist-hip ratio. The EFO term waist-hip 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:
IM Heid, AU Jackson, JC Randall, TW Winkler, L Qi, V Steinthorsdottir, G Thorleifsson, MC Zillikens, EK Speliotes, R Mägi, T Workalemahu, CC White, N Bouatia-Naji, TB Harris, SI Berndt, E Ingelsson, CJ Willer, MN Weedon, J Luan, S Vedantam, T Esko, TO Kilpeläinen, Z Kutalik, S Li, KL Monda, AL Dixon, CC Holmes, LM Kaplan, L Liang, JL Min, MF Moffatt, C Molony, G Nicholson, EE Schadt, KT Zondervan, MF Feitosa, T Ferreira, H Lango Allen, RJ Weyant, E Wheeler, AR Wood, K Estrada, ME Goddard, G Lettre, M Mangino, DR Nyholt, S Purcell, AV Smith, PM Visscher, J Yang, SA McCarroll, J Nemesh, BF Voight, D Absher, N Amin, T Aspelund, L Coin, NL Glazer, C Hayward, NL Heard-Costa, JJ Hottenga, A Johansson, T Johnson, M Kaakinen, K Kapur, S Ketkar, JW Knowles, P Kraft, AT Kraja, C Lamina, MF Leitzmann, B McKnight, AP Morris, KK Ong, JR Perry, MJ Peters, O Polasek, I Prokopenko, NW Rayner, S Ripatti, F Rivadeneira, NR Robertson, S Sanna, U Sovio, I Surakka, A Teumer, S van Wingerden, V Vitart, JH Zhao, C Cavalcanti-Proença, PS Chines, E Fisher, JR Kulzer, C Lecoeur, N Narisu, C Sandholt, LJ Scott, K Silander, K Stark, ML Tammesoo, TM Teslovich, NJ Timpson, RM Watanabe, R Welch, DI Chasman, MN Cooper, JO Jansson, J Kettunen, RW Lawrence, N Pellikka, M Perola, L Vandenput, H Alavere, P Almgren, LD Atwood, AJ Bennett, R Biffar, LL Bonnycastle, SR Bornstein, TA Buchanan, H Campbell, IN Day, M Dei, M Dörr, P Elliott, MR Erdos, JG Eriksson, NB Freimer, M Fu, S Gaget, EJ Geus, AP Gjesing, H Grallert, J Grässler, CJ Groves, C Guiducci, AL Hartikainen, N Hassanali, AS Havulinna, KH Herzig, AA Hicks, J Hui, W Igl, P Jousilahti, A Jula, E Kajantie, L Kinnunen, I Kolcic, S Koskinen, P Kovacs, HK Kroemer, V Krzelj, J Kuusisto, K Kvaloy, J Laitinen, O Lantieri, GM Lathrop, ML Lokki, RN Luben, B Ludwig, WL McArdle, A McCarthy, MA Morken, M Nelis, MJ Neville, G Paré, AN Parker, JF Peden, I Pichler, KH Pietiläinen, CG Platou, A Pouta, M Ridderstråle, NJ Samani, J Saramies, J Sinisalo, JH Smit, RJ Strawbridge, HM Stringham, AJ Swift, M Teder-Laving, B Thomson, G Usala, JB van Meurs, GJ van Ommen, V Vatin, CB Volpato, H Wallaschofski, GB Walters, E Widen, SH Wild, G Willemsen, DR Witte, L Zgaga, P Zitting, JP Beilby, AL James, M Kähönen, T Lehtimäki, MS Nieminen, C Ohlsson, LJ Palmer, O Raitakari, PM Ridker, M Stumvoll, A Tönjes, J Viikari, B Balkau, Y Ben-Shlomo, RN Bergman, H Boeing, GD Smith, S Ebrahim, P Froguel, T Hansen, C Hengstenberg, K Hveem, B Isomaa, T Jørgensen, F Karpe, KT Khaw, M Laakso, DA Lawlor, M Marre, T Meitinger, A Metspalu, K Midthjell, O Pedersen, V Salomaa, PE Schwarz, T Tuomi, J Tuomilehto, TT Valle, NJ Wareham, AM Arnold, JS Beckmann, S Bergmann, E Boerwinkle, DI Boomsma, MJ Caulfield, FS Collins, G Eiriksdottir, V Gudnason, U Gyllensten, A Hamsten, AT Hattersley, A Hofman, FB Hu, T Illig, C Iribarren, MR Jarvelin, WH Kao, J Kaprio, LJ Launer, PB Munroe, B Oostra, BW Penninx, PP Pramstaller, BM Psaty, T Quertermous, A Rissanen, I Rudan, AR Shuldiner, N Soranzo, TD Spector, AC Syvanen, M Uda, A Uitterlinden, H Völzke, P Vollenweider, JF Wilson, JC Witteman, AF Wright, GR Abecasis, M Boehnke, IB Borecki, P Deloukas, TM Frayling, LC Groop, T Haritunians, DJ Hunter, RC Kaplan, KE North, JR O'Connell, L Peltonen, D Schlessinger, DP Strachan, JN Hirschhorn, TL Assimes, HE Wichmann, U Thorsteinsdottir, CM van Duijn, K Stefansson, LA Cupples, RJ Loos, I Barroso, MI McCarthy, CS Fox, KL Mohlke, CM Lindgren
Chromosome 1, factor 2 combined scores. Factor two explains 14% of the variance and is loaded such that higher values reflect a later age of onset of drinking, higher harm avoidance and lower novelty seeking. Peak was plotted between D1S1595 (155688364) and D1S518 (187550535)
Authors:
Dick DM, Nurnberger J Jr, Edenberg HJ, Goate A, Crowe R, Rice J, Bucholz KK, Kramer J, Schuckit MA, Smith TL, Porjesz B, Begleiter H, Hesselbrock V, Foroud T
The chromosome 1 region has peak markers with of LOD of 3.45 and 3.46 for Alcoholism gender age and constraint as D1S2878 (165403366) D1S196 (167604128). Arbitrary interval of 25 MBp on each side of the peak makers was uploaded.
Authors:
Hill SY, Shen S, Zezza N, Hoffman EK, Perlin M, Allan W
The total transcriptome including genes that are differentially expressed in cocaine addicts compared to control subjects. Post-mortem brain samples were collected from the dorsolateral prefrontal cortex (dlPFC) of the cocaine addict group and the control group. To assess gene expression, RNA-seq was performed. Data taken from Supplementary Table 2. Values presented are k.diff values. Data available from GEO with accession number GSE99349."
Authors:
Efrain A Ribeiro, Joseph R Scarpa, Susanna P Garamszegi, Andrew Kasarskis, Deborah C Mash, Eric J Nestler
Data from GEO GSE194368 and analyzed using GEO2R, only top gene shown. Authors identified transcriptional adaptations of GR signaling in the amygdala of humans with OUD. Thus, GRs, their coregulators and downstream systems may represent viable therapeutic targets to treat the “stress side” of OUD.
Authors:
Stephanie A Carmack, Janaina C M Vendruscolo, M Adrienne McGinn, Jorge Miranda-Barrientos, Vez Repunte-Canonigo, Gabriel D Bosse, Daniele Mercatelli, Federico M Giorgi, Yu Fu, Anthony J Hinrich, Francine M Jodelka, Karen Ling, Robert O Messing, Randall T Peterson, Frank Rigo, Scott Edwards, Pietro P Sanna, Marisela Morales, Michelle L Hastings, George F Koob, Leandro F Vendruscolo
Hippocampus Gene Expression Correlates for C2HCOUNT30 measured in BXD RI Females obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The C2HCOUNT30 measures Open Field locomotion (activity beam breaks) 15-30 min post 2nd cocaine under the domain Cocaine. 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 C2HDIS30 measured in BXD RI Females obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The C2HDIS30 measures Open Field locomotion (cm) 15-30 min post 2nd cocaine under the domain Cocaine. 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 NEPCOUNT15 measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The NEPCOUNT15 measures Novel environment vertical activity counts minutes 0-15 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
Striatum Gene Expression Correlates for NEPCOUNT15 measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The NEPCOUNT15 measures Novel environment vertical activity counts minutes 0-15 under the domain Morphine. The correlates were thresholded at a p-value of less than 0.001.
Neocortex Gene Expression Correlates for OF_DIST_15_20 measured in BXD RI Females obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The OF_DIST_15_20 measures Open Field - Total distance traveled 15-20 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
Striatum Gene Expression Correlates for ST_BACKGROUND measured in BXD RI Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The ST_BACKGROUND measures Background startle response 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
Whole Brain Gene Expression Correlates for ST_PCT_PPI_85 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. The ST_PCT_PPI_85 measures Prepulse inhibition at 85db 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
Whole Brain Gene Expression Correlates for ST_PCT_STARTLE_85 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. The ST_PCT_STARTLE_85 measures Acoustic Startle Response Percentage of maximum response at 85 db 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 ZM_ACTIVITY measured in BXD RI Females & Males obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The ZM_ACTIVITY measures Zero Maze - Total Activity count; number of beam breaks 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 COCA_TIME_COND_CHG measured in BXD RI Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The COCA_TIME_COND_CHG measures Cocaine CPP - difference in time spent relative to baseline drug exposure under the domain Cocaine. 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 COCA_TIME_PCT_CHANGE measured in BXD RI Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The COCA_TIME_PCT_CHANGE measures Cocaine CPP - difference in percent test time spent relative to preconditioning under the domain Cocaine. 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 HAND_BASELINE measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The HAND_BASELINE measures Handling induced convulsion baseline 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 VERCNT30 measured in BXD RI Females & Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT30 measures Morphine vertical activity counts minutes 15-30 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
Cerebellum Gene Expression Correlates for VERCNT45 measured in BXD RI Females & Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT45 measures Morphine Vertical Activity 30-45 min 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
Cerebellum Gene Expression Correlates for VERCNT45 measured in BXD RI Females obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT45 measures Morphine Vertical Activity 30-45 min 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
Cerebellum Gene Expression Correlates for VERCNT60 measured in BXD RI Females & Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT60 measures Morphine 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
Cerebellum Gene Expression Correlates for VERCNT60 measured in BXD RI Females obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT60 measures Morphine 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
Cerebellum Gene Expression Correlates for VERCNT75 measured in BXD RI Females & Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT75 measures Morphine vertical activity counts minutes 60-75 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
Cerebellum Gene Expression Correlates for VERCNT90 measured in BXD RI Females & Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The VERCNT90 measures Morphine vertical activity counts minutes 75-90 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
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