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 Glaucoma (primary angle closure). The EFO term glaucoma 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:
EN Vithana, CC Khor, C Qiao, ME Nongpiur, R George, LJ Chen, T Do, K Abu-Amero, CK Huang, S Low, LS Tajudin, SA Perera, CY Cheng, L Xu, H Jia, CL Ho, KS Sim, RY Wu, CC Tham, PT Chew, DH Su, FT Oen, S Sarangapani, N Soumittra, EA Osman, HT Wong, G Tang, S Fan, H Meng, DT Huong, H Wang, B Feng, M Baskaran, B Shantha, VL Ramprasad, G Kumaramanickavel, SK Iyengar, AC How, KY Lee, TA Sivakumaran, VH Yong, SM Ting, Y Li, YX Wang, WT Tay, X Sim, R Lavanya, BK Cornes, YF Zheng, TT Wong, SC Loon, VK Yong, N Waseem, A Yaakub, KS Chia, RR Allingham, MA Hauser, DS Lam, ML Hibberd, SS Bhattacharya, M Zhang, YY Teo, DT Tan, JB Jonas, ES Tai, SM Saw, DN Hon, SA Al-Obeidan, J Liu, TN Chau, CP Simmons, JX Bei, YX Zeng, PJ Foster, L Vijaya, TY Wong, CP Pang, N Wang, T Aung
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 Glaucoma (primary angle closure). The EFO term primary angle closure glaucoma 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:
CC Khor, T Do, H Jia, M Nakano, R George, K Abu-Amero, R Duvesh, LJ Chen, Z Li, ME Nongpiur, SA Perera, C Qiao, HT Wong, H Sakai, M Barbosa de Melo, MC Lee, AS Chan, Y Azhany, TL Dao, Y Ikeda, RA Perez-Grossmann, T Zarnowski, AC Day, JB Jonas, PO Tam, TA Tran, H Ayub, F Akhtar, S Micheal, PT Chew, LA Aljasim, T Dada, TT Luu, MS Awadalla, N Kitnarong, B Wanichwecharungruang, YY Aung, J Mohamed-Noor, S Vijayan, S Sarangapani, R Husain, A Jap, M Baskaran, D Goh, DH Su, H Wang, VK Yong, LW Yip, TB Trinh, M Makornwattana, TT Nguyen, EU Leuenberger, KH Park, WA Wiyogo, RS Kumar, C Tello, Y Kurimoto, SS Thapa, K Pathanapitoon, JF Salmon, YH Sohn, A Fea, M Ozaki, JS Lai, V Tantisevi, CC Khaing, T Mizoguchi, S Nakano, CY Kim, G Tang, S Fan, R Wu, H Meng, TT Nguyen, TD Tran, M Ueno, JM Martinez, N Ramli, YM Aung, RD Reyes, SA Vernon, SK Fang, Z Xie, XY Chen, JN Foo, KS Sim, TT Wong, DT Quek, R Venkatesh, S Kavitha, SR Krishnadas, N Soumittra, B Shantha, BA Lim, J Ogle, JP de Vasconcellos, VP Costa, RY Abe, BB de Souza, CC Sng, MC Aquino, E Kosior-Jarecka, GB Fong, VC Tamanaja, R Fujita, Y Jiang, N Waseem, S Low, HN Pham, S Al-Shahwan, ER Craven, MI Khan, R Dada, K Mohanty, MA Faiq, AW Hewitt, KP Burdon, EH Gan, A Prutthipongsit, T Patthanathamrongkasem, MA Catacutan, IR Felarca, CS Liao, E Rusmayani, VW Istiantoro, G Consolandi, G Pignata, C Lavia, P Rojanapongpun, L Mangkornkanokpong, S Chansangpetch, JC Chan, BN Choy, JW Shum, HM Than, KT Oo, AT Han, VH Yong, XY Ng, SR Goh, YF Chong, ML Hibberd, M Seielstad, E Png, SJ Dunstan, NV Chau, J Bei, YX Zeng, A Karkey, B Basnyat, F Pasutto, D Paoli, P Frezzotti, JJ Wang, P Mitchell, JH Fingert, RR Allingham, MA Hauser, ST Lim, SH Chew, RP Ebstein, A Sakuntabhai, KH Park, J Ahn, G Boland, H Snippe, R Stead, R Quino, SN Zaw, U Lukasik, R Shetty, M Zahari, HW Bae, NL Oo, T Kubota, A Manassakorn, WL Ho, L Dallorto, YH Hwang, CA Kiire, M Kuroda, ZE Djamal, JI Peregrino, A Ghosh, JW Jeoung, TS Hoan, N Srisamran, T Sandragasu, SH Set, VH Doan, SS Bhattacharya, CL Ho, DT Tan, R Sihota, SC Loon, K Mori, S Kinoshita, AI Hollander, R Qamar, YX Wang, YY Teo, ES Tai, C Hartleben-Matkin, D Lozano-Giral, SM Saw, CY Cheng, JC Zenteno, CP Pang, HT Bui, O Hee, JE Craig, DP Edward, M Yonahara, JM Neto, ML Guevara-Fujita, L Xu, R Ritch, AT Liza-Sharmini, TY Wong, S Al-Obeidan, NH Do, P Sundaresan, CC Tham, PJ Foster, L Vijaya, K Tashiro, EN Vithana, N Wang, T Aung
Hippocampus Gene Expression Correlates for HARGREAVES_MEANBOTH measured in BXD RI Females obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The HARGREAVES_MEANBOTH measures Thermal Nociception Hargreaves' 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
Whole Brain Gene Expression Correlates for OF_DIST_10_15 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. 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
Whole Brain Gene Expression Correlates for OF_DIST_10_15 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. 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.
Whole Brain Gene Expression Correlates for OF_DIST_15_20 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. 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
Cerebellum Gene Expression Correlates for TAILCLIP_LAT_SEC measured in BXD RI Males obtained using SJUT Cerebellum mRNA M430 (Mar05) 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 COCA_BASE_DRUG measured in BXD RI Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The COCA_BASE_DRUG measures CPP - Time (s) in drug-paired compartment a 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 COCA_TIME_BASELINE measured in BXD RI Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The COCA_TIME_BASELINE measures Cocaine CPP - Proportion of time spent in conditioned side prior to conditioning 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 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
Genes with a mean fold change > 1.5 or < 0.7 were selected and annotated. Values are taken from microarray analysis and represent mean ratios of alcoholic cases compared with matched control cases(n = 6). P values were from t-test; from Flatscher-Bader et al., 2005
Authors:
Flatscher-Bader T, van der Brug M, Hwang JW, Gochee PA, Matsumoto I, Niwa S, Wilce PA
QTL for alcohol consumption on Chr1 at D1Mit167 (21.28 Mbp , Build 37)
Description:
alcohol consumption spans 0.00 - 46.28 Mbp (NCBI Build 37) on Chr1. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Authors:
Vadasz C, Saito M, Gyetvai B, Mikics E, Vadasz C 2nd
QTL for alcohol preference locus on Chr1 at D1Mit295 (22.09 Mbp , Build 37)
Description:
alcohol preference locus spans 0.00 - 47.09 Mbp (NCBI Build 37) on Chr1. 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 preference locus on Chr1 at D1Mit165 (22.12 Mbp , Build 37)
Description:
alcohol preference locus spans 0.00 - 47.12 Mbp (NCBI Build 37) on Chr1. 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 home cage activity on Chr1 at D1Mit1 (22.85 Mbp , Build 37)
Description:
METH responses for home cage activity spans 0.00 - 47.85 Mbp (NCBI Build 37) on Chr1. 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 morphine antinociception on Chr1 at D1Mit67 (22.97 Mbp , Build 37)
Description:
morphine antinociception spans 0.00 - 47.97 Mbp (NCBI Build 37) on Chr1. 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, Helms ML, O\'Toole LA, Jarvis MW, Hain HS, Mogil JS, Belknap JK
Genes associated with Homo sapiens that interact with the MeSH term 'sodium arsenite' (C017947). Incorporates data from 15 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 'cadmium sulfate' (C037123). Incorporates data from 1 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 'kojic acid' (C011890). Incorporates data from 5 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 'kavain' (C011889). Incorporates data from 312 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 'Valproic Acid' (D014635). Incorporates data from 1238 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 'Cytarabine' (D003561). Incorporates data from 2 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
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