GWAS: response to simvastatin, PCSK9 protein measurement
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 simvastatin treatment (PCSK9 protein level change). The EFO term response to simvastatin, PCSK9 protein 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.
Gene Ontology (GO) gene set. This set contains genes that have been annotated to the GO term "PCSK9-LDLR complex", which is defined as "A protein complex consisting of the serine protease PCSK9 (Proprotein convertase subtilisin/kexin-9) and a low-density lipoprotein receptor (LDLR). Interaction typically occurs through the epidermal growth factor-like repeat A (EGF-A) domain of the LDLR, and complex formation promotes degradation of the LDLR through the endosome/lysosome pathway." This gene set was automatically constructed using annotation and ontology data provided by GO and only includes annotations with experimental and curatorial evidence codes (EXP, IDA, IPI, IMP, IGI, IEP, TAS, IC). The transitive closure of this term is taken into account using is_a and part_of relationships. For more information: The Gene Ontology Consortium (GOC), http://geneontology.org This gene set was generated using the GeneWeaver GO loader v. 0.2.8.
Authors:
M Ashburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel-Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock
Gene Ontology (GO) gene set. This set contains genes that have been annotated to the GO term "PCSK9-AnxA2 complex", which is defined as "A protein complex consisting of the serine protease PCSK9 (Proprotein convertase subtilisin/kexin-9) and Annexin A2 (AnxA2)." This gene set was automatically constructed using annotation and ontology data provided by GO and only includes annotations with experimental and curatorial evidence codes (EXP, IDA, IPI, IMP, IGI, IEP, TAS, IC). The transitive closure of this term is taken into account using is_a and part_of relationships. For more information: The Gene Ontology Consortium (GOC), http://geneontology.org This gene set was generated using the GeneWeaver GO loader v. 0.2.8.
Authors:
M Ashburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel-Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock
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 Myocardial infarction (early onset). The EFO term myocardial infarction 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:
S Kathiresan, BF Voight, S Purcell, K Musunuru, D Ardissino, PM Mannucci, S Anand, JC Engert, NJ Samani, H Schunkert, J Erdmann, MP Reilly, DJ Rader, T Morgan, JA Spertus, M Stoll, D Girelli, PP McKeown, CC Patterson, DS Siscovick, CJ O'Donnell, R Elosua, L Peltonen, V Salomaa, SM Schwartz, O Melander, D Altshuler, D Ardissino, PA Merlini, C Berzuini, L Bernardinelli, F Peyvandi, M Tubaro, P Celli, M Ferrario, R Fetiveau, N Marziliano, G Casari, M Galli, F Ribichini, M Rossi, F Bernardi, P Zonzin, A Piazza, PM Mannucci, SM Schwartz, DS Siscovick, J Yee, Y Friedlander, R Elosua, J Marrugat, G Lucas, I Subirana, J Sala, R Ramos, S Kathiresan, JB Meigs, G Williams, DM Nathan, CA MacRae, CJ O'Donnell, V Salomaa, AS Havulinna, L Peltonen, O Melander, G Berglund, BF Voight, S Kathiresan, JN Hirschhorn, R Asselta, S Duga, M Spreafico, K Musunuru, MJ Daly, S Purcell, BF Voight, S Purcell, J Nemesh, JM Korn, SA McCarroll, SM Schwartz, J Yee, S Kathiresan, G Lucas, I Subirana, R Elosua, A Surti, C Guiducci, L Gianniny, D Mirel, M Parkin, N Burtt, SB Gabriel, NJ Samani, JR Thompson, PS Braund, BJ Wright, AJ Balmforth, SG Ball, A Hall, H Schunkert, J Erdmann, P Linsel-Nitschke, W Lieb, A Ziegler, I König, C Hengstenberg, M Fischer, K Stark, A Grosshennig, M Preuss, HE Wichmann, S Schreiber, H Schunkert, NJ Samani, J Erdmann, W Ouwehand, C Hengstenberg, P Deloukas, M Scholz, F Cambien, MP Reilly, M Li, Z Chen, R Wilensky, W Matthai, A Qasim, HH Hakonarson, J Devaney, MS Burnett, AD Pichard, KM Kent, L Satler, JM Lindsay, R Waksman, CW Knouff, DM Waterworth, MC Walker, V Mooser, SE Epstein, DJ Rader, T Scheffold, K Berger, M Stoll, A Huge, D Girelli, N Martinelli, O Olivieri, R Corrocher, T Morgan, JA Spertus, P McKeown, CC Patterson, H Schunkert, E Erdmann, P Linsel-Nitschke, W Lieb, A Ziegler, IR König, C Hengstenberg, M Fischer, K Stark, A Grosshennig, M Preuss, HE Wichmann, S Schreiber, H Hólm, G Thorleifsson, U Thorsteinsdottir, K Stefansson, JC Engert, R Do, C Xie, S Anand, S Kathiresan, D Ardissino, PM Mannucci, D Siscovick, CJ O'Donnell, NJ Samani, O Melander, R Elosua, L Peltonen, V Salomaa, SM Schwartz, D Altshuler
GWAS: low density lipoprotein cholesterol measurement
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 LDL cholesterol. The EFO term low density lipoprotein cholesterol 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:
CJ Willer, S Sanna, AU Jackson, A Scuteri, LL Bonnycastle, R Clarke, SC Heath, NJ Timpson, SS Najjar, HM Stringham, J Strait, WL Duren, A Maschio, F Busonero, A Mulas, G Albai, AJ Swift, MA Morken, N Narisu, D Bennett, S Parish, H Shen, P Galan, P Meneton, S Hercberg, D Zelenika, WM Chen, Y Li, LJ Scott, PA Scheet, J Sundvall, RM Watanabe, R Nagaraja, S Ebrahim, DA Lawlor, Y Ben-Shlomo, G Davey-Smith, AR Shuldiner, R Collins, RN Bergman, M Uda, J Tuomilehto, A Cao, FS Collins, E Lakatta, GM Lathrop, M Boehnke, D Schlessinger, KL Mohlke, GR Abecasis
Striatum Gene Expression Correlates for ROTAETHA_TIME measured in BXD RI Females & Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The ROTAETHA_TIME measures Mean time on rotarod following ethanol 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 NX_VCOUNT_3 measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The NX_VCOUNT_3 measures Naloxone induced Morphine Withdrawal - TOTAL vertical activity counts in 15 minutes 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
Renthal W, Kumar A, Xiao G, Wilkinson M, Covington HE 3rd, Maze I, Sikder D, Robison AJ, LaPlant Q, Dietz DM, Russo SJ, Vialou V, Chakravarty S, Kodadek TJ, Stack A, Kabbaj M, Nestler EJ
cocaine related behavior 5 (Cocrb5) spans 57.11978 - 107.11978 Mbp (NCBI Build 37) on Chr 4. Obtained from MGI (http://www.informatics.jax.org) by searching for QTLs containing the keyword .
cocaine and amphetamine-regulated transcript QTL 2 (Crq2) spans 99.841331 - 149.841331 Mbp (NCBI Build 37) on Chr 4. Obtained from MGI (http://www.informatics.jax.org) by searching for QTLs containing the keyword .
cocaine related behavior spans 61.29 - 111.29 Mbp (NCBI Build 37) on Chr4. 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 alcohol withdrawal on Chr4 at D4Mit79 (84.39 Mbp , Build 37)
Description:
alcohol withdrawal spans 59.39 - 109.39 Mbp (NCBI Build 37) on Chr4. 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 METH responses for climbing on Chr4 at Ms6hm (85.41 Mbp , Build 37)
Description:
METH responses for climbing spans 60.41 - 110.41 Mbp (NCBI Build 37) on Chr4. 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 high-dose ethanol actions on Chr4 at D4Mit205 (91.14 Mbp , Build 37)
Description:
high-dose ethanol actions spans 66.14 - 116.14 Mbp (NCBI Build 37) on Chr4. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Authors:
Erwin VG, Markel PD, Johnson TE, Gehle VM, Jones BC
QTL for chronic alcohol withdrawal severity on Chr4 at D4Mit186 (95.43 Mbp , Build 37)
Description:
chronic alcohol withdrawal severity spans 70.43 - 120.43 Mbp (NCBI Build 37) on Chr4. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Authors:
Bergeson SE, Kyle Warren R, Crabbe JC, Metten P, Gene Erwin V, Belknap JK
Genes associated with Homo sapiens that interact with the MeSH term '2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one' (C093973). 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 'Simvastatin' (D019821). Incorporates data from 23 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
Genes associated with Oryctolagus cuniculus that interact with the MeSH term '15-deoxyprostaglandin J2' (C477819). 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 '(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 'Amiodarone' (D000638). Incorporates data from 38 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 'Nanotubes, Carbon' (D037742). 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 'resveratrol' (C059514). Incorporates data from 16 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
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