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 Type 2 diabetes. The EFO term type II diabetes mellitus 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:
JS Kooner, D Saleheen, X Sim, J Sehmi, W Zhang, P Frossard, LF Been, KS Chia, AS Dimas, N Hassanali, T Jafar, JB Jowett, X Li, V Radha, SD Rees, F Takeuchi, R Young, T Aung, A Basit, M Chidambaram, D Das, E Grundberg, AK Hedman, ZI Hydrie, M Islam, CC Khor, S Kowlessur, MM Kristensen, S Liju, WY Lim, DR Matthews, J Liu, AP Morris, AC Nica, JM Pinidiyapathirage, I Prokopenko, A Rasheed, M Samuel, N Shah, AS Shera, KS Small, C Suo, AR Wickremasinghe, TY Wong, M Yang, F Zhang, GR Abecasis, AH Barnett, M Caulfield, P Deloukas, TM Frayling, P Froguel, N Kato, P Katulanda, MA Kelly, J Liang, V Mohan, DK Sanghera, J Scott, M Seielstad, PZ Zimmet, P Elliott, YY Teo, MI McCarthy, J Danesh, ES Tai, JC Chambers
Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control (induction or repression) of gene action at the level of transcription or translation.
Generated by gene2mesh v. 1.1.1
The genetic complement of an organism, including all of its GENES, as represented in its DNA, or in some cases, its RNA.
Generated by gene2mesh v. 1.1.1
The processes, properties and biological objects that are involved in maintaining, expressing, and transmitting from one organism to another, genetically encoded traits.
Generated by gene2mesh v. 1.1.1
The biological objects that contain genetic information and that are involved in transmitting genetically encoded traits from one organism to another.
Generated by gene2mesh v. 1.1.1
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 Type 2 diabetes. The EFO term type II diabetes mellitus 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:
A Mahajan, MJ Go, W Zhang, JE Below, KJ Gaulton, T Ferreira, M Horikoshi, AD Johnson, MC Ng, I Prokopenko, D Saleheen, X Wang, E Zeggini, GR Abecasis, LS Adair, P Almgren, M Atalay, T Aung, D Baldassarre, B Balkau, Y Bao, AH Barnett, I Barroso, A Basit, LF Been, J Beilby, GI Bell, R Benediktsson, RN Bergman, BO Boehm, E Boerwinkle, LL Bonnycastle, N Burtt, Q Cai, H Campbell, J Carey, S Cauchi, M Caulfield, JC Chan, LC Chang, TJ Chang, YC Chang, G Charpentier, CH Chen, H Chen, YT Chen, KS Chia, M Chidambaram, PS Chines, NH Cho, YM Cho, LM Chuang, FS Collins, MC Cornelis, DJ Couper, AT Crenshaw, RM van Dam, J Danesh, D Das, U de Faire, G Dedoussis, P Deloukas, AS Dimas, C Dina, AS Doney, PJ Donnelly, M Dorkhan, C van Duijn, J Dupuis, S Edkins, P Elliott, V Emilsson, R Erbel, JG Eriksson, J Escobedo, T Esko, E Eury, JC Florez, P Fontanillas, NG Forouhi, T Forsen, C Fox, RM Fraser, TM Frayling, P Froguel, P Frossard, Y Gao, K Gertow, C Gieger, B Gigante, H Grallert, GB Grant, LC Grrop, CJ Groves, E Grundberg, C Guiducci, A Hamsten, BG Han, K Hara, N Hassanali, AT Hattersley, C Hayward, AK Hedman, C Herder, A Hofman, OL Holmen, K Hovingh, AB Hreidarsson, C Hu, FB Hu, J Hui, SE Humphries, SE Hunt, DJ Hunter, K Hveem, ZI Hydrie, H Ikegami, T Illig, E Ingelsson, M Islam, B Isomaa, AU Jackson, T Jafar, A James, W Jia, KH Jöckel, A Jonsson, JB Jowett, T Kadowaki, HM Kang, S Kanoni, WH Kao, S Kathiresan, N Kato, P Katulanda, KM Keinanen-Kiukaanniemi, AM Kelly, H Khan, KT Khaw, CC Khor, HL Kim, S Kim, YJ Kim, L Kinnunen, N Klopp, A Kong, E Korpi-Hyövälti, S Kowlessur, P Kraft, J Kravic, MM Kristensen, S Krithika, A Kumar, J Kumate, J Kuusisto, SH Kwak, M Laakso, V Lagou, TA Lakka, C Langenberg, C Langford, R Lawrence, K Leander, JM Lee, NR Lee, M Li, X Li, Y Li, J Liang, S Liju, WY Lim, L Lind, CM Lindgren, E Lindholm, CT Liu, JJ Liu, S Lobbens, J Long, RJ Loos, W Lu, J Luan, V Lyssenko, RC Ma, S Maeda, R Mägi, S Männisto, DR Matthews, JB Meigs, O Melander, A Metspalu, J Meyer, G Mirza, E Mihailov, S Moebus, V Mohan, KL Mohlke, AD Morris, TW Mühleisen, M Müller-Nurasyid, B Musk, J Nakamura, E Nakashima, P Navarro, PK Ng, AC Nica, PM Nilsson, I Njølstad, MM Nöthen, K Ohnaka, TH Ong, KR Owen, CN Palmer, JS Pankow, KS Park, M Parkin, S Pechlivanis, NL Pedersen, L Peltonen, JR Perry, A Peters, JM Pinidiyapathirage, CG Platou, S Potter, JF Price, L Qi, V Radha, L Rallidis, A Rasheed, W Rathman, R Rauramaa, S Raychaudhuri, NW Rayner, SD Rees, E Rehnberg, S Ripatti, N Robertson, M Roden, EJ Rossin, I Rudan, D Rybin, TE Saaristo, V Salomaa, J Saltevo, M Samuel, DK Sanghera, J Saramies, J Scott, LJ Scott, RA Scott, AV Segrè, J Sehmi, B Sennblad, N Shah, S Shah, AS Shera, XO Shu, AR Shuldiner, G Sigurđsson, E Sijbrands, A Silveira, X Sim, S Sivapalaratnam, KS Small, WY So, A Stančáková, K Stefansson, G Steinbach, V Steinthorsdottir, K Stirrups, RJ Strawbridge, HM Stringham, Q Sun, C Suo, AC Syvänen, R Takayanagi, F Takeuchi, WT Tay, TM Teslovich, B Thorand, G Thorleifsson, U Thorsteinsdottir, E Tikkanen, J Trakalo, E Tremoli, MD Trip, FJ Tsai, T Tuomi, J Tuomilehto, AG Uitterlinden, A Valladares-Salgado, S Vedantam, F Veglia, BF Voight, C Wang, NJ Wareham, R Wennauer, AR Wickremasinghe, T Wilsgaard, JF Wilson, S Wiltshire, W Winckler, TY Wong, AR Wood, JY Wu, Y Wu, K Yamamoto, T Yamauchi, M Yang, L Yengo, M Yokota, R Young, D Zabaneh, F Zhang, R Zhang, W Zheng, PZ Zimmet, D Altshuler, DW Bowden, YS Cho, NJ Cox, M Cruz, CL Hanis, J Kooner, JY Lee, M Seielstad, YY Teo, M Boehnke, EJ Parra, JC Chambers, ES Tai, MI McCarthy, AP Morris
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 Type 2 diabetes. The EFO term type II diabetes mellitus 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:
K Hara, H Fujita, TA Johnson, T Yamauchi, K Yasuda, M Horikoshi, C Peng, C Hu, RC Ma, M Imamura, M Iwata, T Tsunoda, T Morizono, N Shojima, WY So, TF Leung, P Kwan, R Zhang, J Wang, W Yu, H Maegawa, H Hirose, K Kaku, C Ito, H Watada, Y Tanaka, K Tobe, A Kashiwagi, R Kawamori, W Jia, JC Chan, YY Teo, TE Shyong, N Kamatani, M Kubo, S Maeda, T Kadowaki
Gene Ontology (GO) gene set. This set contains genes that have been annotated to the GO term "intracellular part", which is defined as "Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." 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 "cell part", which is defined as "Any constituent part of a cell, the basic structural and functional unit of all organisms." 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
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
Differential gene expression between CS15 and CS22 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17 and CS22. Here the differential expression comparison between CS15 and CS22 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS13 and CS22 - Log2FC
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17, and CS22. Here the differential expression comparison between CS13 and CS22 is shown. Gene expressions values with log to the base 2, FC are presented with P-Adj <0.05. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS13 and CS22 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17 and CS22. Here the differential expression comparison between CS13 and CS22 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS14 and CS22 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17 and CS22. Here the differential expression comparison between CS14 and CS22 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS14 and CS22 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17 and CS22. Here the differential expression comparison between CS14 and CS22 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Preference for 10% ethanol (g/kg) in tap water offered vs. tap water; means are the average of days 2 and 4 of a 4-day 24-hr access period by Phillips TJ , et al
Whole Brain Gene Expression Correlates for AMDIST15 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. The AMDIST15 measures Morphine distance (cm) travelled minutes 0-15 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
Hippocampus Gene Expression Correlates for ENTRIES_CLOSED measured in BXD RI Males obtained using GeneNetwork Hippocampus Consortium M430v2 (Jun06) RMA. The ENTRIES_CLOSED measures Number of entries into closed arms of plus maze 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
Striatum Gene Expression Correlates for NX_ACOUNT_3 measured in BXD RI Females & Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The NX_ACOUNT_3 measures Naloxone induced Morphine Withdrawal TOTAL photocell 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
GeneWeaver