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:
CT Liu, KL Monda, KC Taylor, L Lange, EW Demerath, W Palmas, MK Wojczynski, JC Ellis, MZ Vitolins, S Liu, GJ Papanicolaou, MR Irvin, L Xue, PJ Griffin, MA Nalls, A Adeyemo, J Liu, G Li, EA Ruiz-Narvaez, WM Chen, F Chen, BE Henderson, RC Millikan, CB Ambrosone, SS Strom, X Guo, JS Andrews, YV Sun, TH Mosley, LR Yanek, D Shriner, T Haritunians, JI Rotter, EK Speliotes, M Smith, L Rosenberg, J Mychaleckyj, U Nayak, I Spruill, WT Garvey, C Pettaway, S Nyante, EV Bandera, AF Britton, AB Zonderman, LJ Rasmussen-Torvik, YD Chen, J Ding, K Lohman, SB Kritchevsky, W Zhao, PA Peyser, SL Kardia, E Kabagambe, U Broeckel, G Chen, J Zhou, S Wassertheil-Smoller, ML Neuhouser, E Rampersaud, B Psaty, C Kooperberg, JE Manson, LH Kuller, HM Ochs-Balcom, KC Johnson, L Sucheston, JM Ordovas, JR Palmer, CA Haiman, B McKnight, BV Howard, DM Becker, LF Bielak, Y Liu, MA Allison, SF Grant, GL Burke, SR Patel, PJ Schreiner, IB Borecki, MK Evans, H Taylor, MM Sale, V Howard, CS Carlson, CN Rotimi, M Cushman, TB Harris, AP Reiner, LA Cupples, KE North, CS Fox
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 circumference. The EFO term waist circumference 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:
CT Liu, KL Monda, KC Taylor, L Lange, EW Demerath, W Palmas, MK Wojczynski, JC Ellis, MZ Vitolins, S Liu, GJ Papanicolaou, MR Irvin, L Xue, PJ Griffin, MA Nalls, A Adeyemo, J Liu, G Li, EA Ruiz-Narvaez, WM Chen, F Chen, BE Henderson, RC Millikan, CB Ambrosone, SS Strom, X Guo, JS Andrews, YV Sun, TH Mosley, LR Yanek, D Shriner, T Haritunians, JI Rotter, EK Speliotes, M Smith, L Rosenberg, J Mychaleckyj, U Nayak, I Spruill, WT Garvey, C Pettaway, S Nyante, EV Bandera, AF Britton, AB Zonderman, LJ Rasmussen-Torvik, YD Chen, J Ding, K Lohman, SB Kritchevsky, W Zhao, PA Peyser, SL Kardia, E Kabagambe, U Broeckel, G Chen, J Zhou, S Wassertheil-Smoller, ML Neuhouser, E Rampersaud, B Psaty, C Kooperberg, JE Manson, LH Kuller, HM Ochs-Balcom, KC Johnson, L Sucheston, JM Ordovas, JR Palmer, CA Haiman, B McKnight, BV Howard, DM Becker, LF Bielak, Y Liu, MA Allison, SF Grant, GL Burke, SR Patel, PJ Schreiner, IB Borecki, MK Evans, H Taylor, MM Sale, V Howard, CS Carlson, CN Rotimi, M Cushman, TB Harris, AP Reiner, LA Cupples, KE North, CS Fox
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
Striatum Gene Expression Correlates for LM_PAIR2 measured in BXD RI Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The LM_PAIR2 measures Activity during 2ndtone 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
These genes are a 1 class SAM significant (1% FDR) in nucleus accumbens (core + shell) for saline treated ("basal") control vs. Fyn KO mice. The list was filtered for an average Sscore >2.0 or <-2.0. Data from Farris and Miles, PLoS One, 2013.
Annotated genes and anonymous ESTs differentially expressed in CD MIII biopsies in the presence or absence of dietary gluten, grouped according to known function. The indicated P-value is calculated from a Welch t-test. The level of up- or down-regulation in biopsies from MIII CD patients on gluten-free diet (gluten -) was expressed as the ratio of the average MIII gluten(-) and average MIII gluten(+), together with the calculated standard error (SE).
Authors:
Diosdado B, Wapenaar MC, Franke L, Duran KJ, Goerres MJ, Hadithi M, Crusius JB, Meijer JW, Duggan DJ, Mulder CJ, Holstege FC, Wijmenga C
QTL for nicotine sensitivity on Chr13 at D13Mit218 (22.75 Mbp , Build 37)
Description:
nicotine sensitivity spans 0.00 - 47.75 Mbp (NCBI Build 37) on Chr13. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for nicotine sensitivity on Chr13 at D13Mit59 (37.58 Mbp , Build 37)
Description:
nicotine sensitivity spans 12.58 - 62.58 Mbp (NCBI Build 37) on Chr13. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
None - Basal gene expression profiles between C57BL/6J, DBA/2J, 129P3/J, and SWR/J strains DNA microarray Change in gene expression Two-way analysis of variance (ANOVA). 3,457 probe sets (corresponded to 2,870 different transcripts) with significant inter-strain differences (differ by at least 1.2-fold) - False discovery rate [FDR] < 1%, , rank > 3. Such a large disparity in the mouse striatal transcriptome was estimated by comparing nine array replicates prepared per strain from all of the treatment groups. More than half of the identified probe sets exhibited markedly significant results (1,735 with rank > 7). (NIF Method ID 84.1)
Authors:
Korostynski M, Piechota M, Kaminska D, Solecki W, Przewlocki R
Genes associated with Homo sapiens that interact with the MeSH term 'Arsenic' (D001151). Incorporates data from 87 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 'Hydrochloric Acid' (D006851). Incorporates data from 10 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 'Dexamethasone' (D003907). Incorporates data from 14 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 '(6-(4-(2-piperidin-1-ylethoxy)phenyl))-3-pyridin-4-ylpyrazolo(1,5-a)pyrimidine' (C516138). 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 'vorinostat' (C111237). Incorporates data from 13 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Genes associated with Oryzias latipes that interact with the MeSH term 'Estradiol' (D004958). 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 '7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide' (D015123). Incorporates data from 660 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Authors:
None
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