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 Refractive astigmatism. The EFO term Astigmatism 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:
Q Li, R Wojciechowski, CL Simpson, PG Hysi, VJ Verhoeven, MK Ikram, R Höhn, V Vitart, AW Hewitt, K Oexle, KM Mäkelä, S MacGregor, M Pirastu, Q Fan, CY Cheng, B St Pourcain, G McMahon, JP Kemp, K Northstone, JS Rahi, PM Cumberland, NG Martin, PG Sanfilippo, Y Lu, YX Wang, C Hayward, O Polašek, H Campbell, G Bencic, AF Wright, J Wedenoja, T Zeller, A Schillert, A Mirshahi, K Lackner, SP Yip, MK Yap, JS Ried, C Gieger, F Murgia, JF Wilson, B Fleck, S Yazar, JR Vingerling, A Hofman, A Uitterlinden, F Rivadeneira, N Amin, L Karssen, BA Oostra, X Zhou, YY Teo, ES Tai, E Vithana, V Barathi, Y Zheng, RG Siantar, K Neelam, Y Shin, J Lam, E Yonova-Doing, C Venturini, SM Hosseini, HS Wong, T Lehtimäki, M Kähönen, O Raitakari, NJ Timpson, DM Evans, CC Khor, T Aung, TL Young, P Mitchell, B Klein, CM van Duijn, T Meitinger, JB Jonas, PN Baird, DA Mackey, TY Wong, SM Saw, O Pärssinen, D Stambolian, CJ Hammond, CC Klaver, C Williams, AD Paterson, JE Bailey-Wilson, JA Guggenheim
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 Educational attainment. The EFO term self reported educational attainment 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 Rietveld, T Esko, G Davies, TH Pers, P Turley, B Benyamin, CF Chabris, V Emilsson, AD Johnson, JJ Lee, C de Leeuw, RE Marioni, SE Medland, MB Miller, O Rostapshova, SJ van der Lee, AA Vinkhuyzen, N Amin, D Conley, J Derringer, CM van Duijn, R Fehrmann, L Franke, EL Glaeser, NK Hansell, C Hayward, WG Iacono, C Ibrahim-Verbaas, V Jaddoe, J Karjalainen, D Laibson, P Lichtenstein, DC Liewald, PK Magnusson, NG Martin, M McGue, G McMahon, NL Pedersen, S Pinker, DJ Porteous, D Posthuma, F Rivadeneira, BH Smith, JM Starr, H Tiemeier, NJ Timpson, M Trzaskowski, AG Uitterlinden, FC Verhulst, ME Ward, MJ Wright, G Davey Smith, IJ Deary, M Johannesson, R Plomin, PM Visscher, DJ Benjamin, D Cesarini, PD Koellinger
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 Depressive and manic episodes in bipolar disorder. The EFO term manic episode measurement, depressive episode measurement, bipolar disorder 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.
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 Depressive episodes in bipolar disorder. The EFO term depressive episode measurement, bipolar disorder 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.
GWAS: manic or hypomanic episode, bipolar disorder
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 Manic episodes in bipolar disorder. The EFO term manic or hypomanic episode, bipolar disorder 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.
We employed our recently developed FANS-based protocol to isolate two types of neuronal nuclei: (1) the MGE-derived GABA neurons, and (2) glutamatergic neurons with a small (~10%) admixture of non-MGE derived GABA neurons (denoted “Glu neurons”). PFC tissue samples from 3 control subjects were used for the experiments. EdgeR R package was used to perform differential expression (DE) analysis between GABA and Glu neurons, with DE criteria of FDR < 0.01, abs(FoldChange) > 2, and a cutoff of 0.1 counts per million (CPM). From supplementary table 2.
Authors:
Alexey Kozlenkov, Andrew E Jaffe, Alisa Timashpolsky, Pasha Apontes, Sergei Rudchenko, Mihaela Barbu, William Byne, Yasmin L Hurd, Steve Horvath, Stella Dracheva
We employed our recently developed FANS-based protocol to isolate two types of neuronal nuclei: (1) the MGE-derived GABA neurons, and (2) glutamatergic neurons with a small (~10%) admixture of non-MGE derived GABA neurons (denoted “Glu neurons”). PFC tissue samples from 3 control subjects were used for the experiments. EdgeR R package was used to perform differential expression (DE) analysis between GABA and Glu neurons, with DE criteria of FDR < 0.01, abs(FoldChange) > 2, and a cutoff of 0.1 counts per million (CPM). From supplementary table 2.
Authors:
Alexey Kozlenkov, Andrew E Jaffe, Alisa Timashpolsky, Pasha Apontes, Sergei Rudchenko, Mihaela Barbu, William Byne, Yasmin L Hurd, Steve Horvath, Stella Dracheva
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
Gene set has 67 genes associated with nicotine abstinence. Backgound: In this study, genome-wide association studies are conducted for two human cohorts, one group demonstrating nicotine dependence, and another that successfully quit smoking. The study shows that some genetic components associated with ability to quit overlap while many do not. To perform the study, DNA samples were obtained from NIH volunteers and allelic frequencies of the samples were analyzed using Affymetrix array analysis. Table S2.
Authors:
Drgon T, Montoya I, Johnson C, Liu QR, Walther D, Hamer D, Uhl GR
Hippocampus Gene Expression Correlates for TAILCLIP_LAT_SEC measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The TAILCLIP_LAT_SEC measures Mechanical Nociception - Tail Clip Test under the domain Pain. 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 TAILCLIP_LAT_SEC measured in BXD RI Females & Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The TAILCLIP_LAT_SEC measures Mechanical Nociception - Tail Clip Test under the domain Pain. 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 C1HDIS45 measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The C1HDIS45 measures Open Field locomotion (cm) 30-45 min post 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 C1HDIS45 measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The C1HDIS45 measures Open Field locomotion (cm) 30-45 min post cocaine under the domain Cocaine. The correlates were thresholded at a p-value of less than 0.001.
Striatum Gene Expression Correlates for C2HCOUNT45 measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The C2HCOUNT45 measures Open Field locomotion (activity beam breaks) 30-45 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 C2HDIS45 measured in BXD RI Females obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The C2HDIS45 measures Open Field locomotion (cm) 30-45 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
Cerebellum Gene Expression Correlates for LD_PCT_DISTLIGHT measured in BXD RI Females obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The LD_PCT_DISTLIGHT measures Light-Dark Box Percentage of distance traveled in light compartment 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 LD_PCT_LIGHT_TIME measured in BXD RI Females obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The LD_PCT_LIGHT_TIME measures Light-Dark Box Percentage time in light 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 LM_PS_INTVL2 measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The LM_PS_INTVL2 measures Activity in 30 second interval post 2nd tone shock pairing 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 OF_DIST_10_15 measured in BXD RI Females obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The OF_DIST_10_15 measures Open Field - Total distance traveled 10-15 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
Neocortex Gene Expression Correlates for OF_DIST_10_15 measured in BXD RI Females obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The OF_DIST_10_15 measures Open Field - Total distance traveled 10-15 minutes under the domain Basal Behavior. The correlates were thresholded at a p-value of less than 0.001.
Neocortex Gene Expression Correlates for ZM_ECLOSED measured in BXD RI Females & Males obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The ZM_ECLOSED measures Zero Maze - total entries in closed quadrants 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 AMCNT165 measured in BXD RI Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The AMCNT165 measures Morphine photocell counts minutes 150-165 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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