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 Hirschsprung disease. The EFO term Hirschsprung disease 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:
MM Garcia-Barcelo, CS Tang, ES Ngan, VC Lui, Y Chen, MT So, TY Leon, XP Miao, CK Shum, FQ Liu, MY Yeung, ZW Yuan, WH Guo, L Liu, XB Sun, LM Huang, JF Tou, YQ Song, D Chan, KM Cheung, KK Wong, SS Cherny, PC Sham, PK Tam
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 Hirschsprung disease. The EFO term Hirschsprung disease 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:
JH Kim, HS Cheong, JH Sul, JM Seo, DY Kim, JT Oh, KW Park, HY Kim, SM Jung, K Jung, MJ Cho, JS Bae, HD Shin
GWAS: unipolar depression, response to selective serotonin reuptake inhibitor
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 Response to serotonin reuptake inhibitors in major depressive disorder. The EFO term unipolar depression, response to selective serotonin reuptake inhibitor 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:
JM Biernacka, K Sangkuhl, G Jenkins, RM Whaley, P Barman, A Batzler, RB Altman, V Arolt, J Brockmöller, CH Chen, K Domschke, DK Hall-Flavin, CJ Hong, A Illi, Y Ji, O Kampman, T Kinoshita, E Leinonen, YJ Liou, T Mushiroda, S Nonen, MK Skime, L Wang, BT Baune, M Kato, YL Liu, V Praphanphoj, JC Stingl, SJ Tsai, M Kubo, TE Klein, R Weinshilboum
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 Hirschsprung disease. The EFO term Hirschsprung disease 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:
CS Tang, H Gui, A Kapoor, JH Kim, B Luzón-Toro, A Pelet, G Burzynski, F Lantieri, MT So, C Berrios, HD Shin, RM Fernández, TL Le, JB Verheij, I Matera, SS Cherny, P Nandakumar, HS Cheong, G Antiñolo, J Amiel, JM Seo, DY Kim, JT Oh, S Lyonnet, S Borrego, I Ceccherini, RM Hofstra, A Chakravarti, HY Kim, PC Sham, PK Tam, MM Garcia-Barceló
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 Thyroid hormone levels. The EFO term thyroid stimulating hormone 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:
E Porcu, M Medici, G Pistis, CB Volpato, SG Wilson, AR Cappola, SD Bos, J Deelen, M den Heijer, RM Freathy, J Lahti, C Liu, LM Lopez, IM Nolte, JR O'Connell, T Tanaka, S Trompet, A Arnold, S Bandinelli, M Beekman, S Böhringer, SJ Brown, BM Buckley, C Camaschella, AJ de Craen, G Davies, MC de Visser, I Ford, T Forsen, TM Frayling, L Fugazzola, M Gögele, AT Hattersley, AR Hermus, A Hofman, JJ Houwing-Duistermaat, RA Jensen, E Kajantie, M Kloppenburg, EM Lim, C Masciullo, S Mariotti, C Minelli, BD Mitchell, R Nagaraja, RT Netea-Maier, A Palotie, L Persani, MG Piras, BM Psaty, K Räikkönen, JB Richards, F Rivadeneira, C Sala, MM Sabra, N Sattar, BM Shields, N Soranzo, JM Starr, DJ Stott, FC Sweep, G Usala, MM van der Klauw, D van Heemst, A van Mullem, SH Vermeulen, WE Visser, JP Walsh, RG Westendorp, E Widen, G Zhai, F Cucca, IJ Deary, JG Eriksson, L Ferrucci, CS Fox, JW Jukema, LA Kiemeney, PP Pramstaller, D Schlessinger, AR Shuldiner, EP Slagboom, AG Uitterlinden, B Vaidya, TJ Visser, BH Wolffenbuttel, I Meulenbelt, JI Rotter, TD Spector, AA Hicks, D Toniolo, S Sanna, RP Peeters, S Naitza
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 Thyroid cancer. The EFO term thyroid carcinoma 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:
J Gudmundsson, P Sulem, DF Gudbjartsson, JG Jonasson, G Masson, H He, A Jonasdottir, A Sigurdsson, SN Stacey, H Johannsdottir, HT Helgadottir, W Li, R Nagy, MD Ringel, RT Kloos, MC de Visser, TS Plantinga, M den Heijer, E Aguillo, A Panadero, E Prats, A Garcia-Castaño, A De Juan, F Rivera, GB Walters, H Bjarnason, L Tryggvadottir, GI Eyjolfsson, US Bjornsdottir, H Holm, I Olafsson, K Kristjansson, H Kristvinsson, OT Magnusson, G Thorleifsson, JR Gulcher, A Kong, LA Kiemeney, T Jonsson, H Hjartarson, JI Mayordomo, RT Netea-Maier, A de la Chapelle, J Hrafnkelsson, U Thorsteinsdottir, T Rafnar, 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 Obstructive sleep apnea. The EFO term obstructive sleep apnea 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.
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following 1 day of D-amphetamine exposure. Genes in bold font were downregulated and genes in regular font were upregulated in the amphetamine- treated group. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are ""1"" for presence."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following 7 days of D-amphetamine exposure. Genes in bold font were downregulated and genes in regular font were upregulated in the amphetamine- treated group. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are ""1"" for presence."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following 21 days of D-amphetamine exposure. Genes in bold font were downregulated and genes in regular font were upregulated in the amphetamine- treated group. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are ""1"" for presence."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following D-amphetamine exposure. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are ""1"" for presence."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following 1 d of D-amphetamine exposure. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are p-adjusted values."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following 7 d of D-amphetamine exposure. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are p-adjusted values."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
Differentially expressed genes in the striatum of male, group housed 129Sv/Jae S4 mice (8-10 months old) following 21 d of D-amphetamine exposure. Gene expression was evaluated via RNA-seq. Genes with RPKM sequence counts fewer than 1 in all samples were removed. Data taken from Table 2. Values presented are p-adjusted values."
Authors:
Jill R Crittenden, Theresa A Gipson, Anne C Smith, Hilary A Bowden, Ferah Yildirim, Kyle B Fischer, Michael Yim, David E Housman, Ann M Graybiel
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
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 Morning vs. evening chronotype. The EFO term circadian rhythm 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 Hu, A Shmygelska, D Tran, N Eriksson, JY Tung, DA Hinds
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
To monitor the expression levels of a large number of genes and to identify genes not previously implicated in traumatic brain injury pathophysiology, a high-density oligonucleotide array containing 8,800 genes was interrogated. RNA samples were prepared from ipsilateral hippocampi 3 hr and 24 hr following lateral cortical impact injury and compared to samples from sham-operated controls.
Authors:
Matzilevich DA, Rall JM, Moore AN, Grill RJ, Dash PK
Striatum Gene Expression Correlates for ROTATRAIN_DIFF measured in BXD RI Females & Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The ROTATRAIN_DIFF measures Difference in time on rotarod between training and saline 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 ZM_LATENCY measured in BXD RI Females & Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The ZM_LATENCY measures Zero Maze - Latency to enter an open quadrant 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
Hippocampus Gene Expression Correlates for SPD_TIMEDOWEL0SEC measured in BXD RI Females obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The SPD_TIMEDOWEL0SEC measures Dowel Test - Time 0 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
Hippocampus Gene Expression Correlates for VOCA_THRESHOLD measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The VOCA_THRESHOLD measures Vocalization Threshold - shock intensity (mA) under the domain Stress Vocalization. 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).
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