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 Abdominal aortic aneurysm. The EFO term Abdominal Aortic Aneurysm 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:
MJ Bown, GT Jones, SC Harrison, BJ Wright, S Bumpstead, AF Baas, S Gretarsdottir, SA Badger, DT Bradley, K Burnand, AH Child, RE Clough, G Cockerill, H Hafez, DJ Scott, S Futers, A Johnson, S Sohrabi, A Smith, MM Thompson, FM van Bockxmeer, M Waltham, SE Matthiasson, G Thorleifsson, U Thorsteinsdottir, JD Blankensteijn, JA Teijink, C Wijmenga, J de Graaf, LA Kiemeney, TL Assimes, R McPherson, L Folkersen, A Franco-Cereceda, J Palmen, AJ Smith, N Sylvius, JB Wild, M Refstrup, S Edkins, R Gwilliam, SE Hunt, S Potter, JS Lindholt, R Frikke-Schmidt, A Tybjærg-Hansen, AE Hughes, J Golledge, PE Norman, A van Rij, JT Powell, P Eriksson, K Stefansson, JR Thompson, SE Humphries, RD Sayers, P Deloukas, NJ Samani
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 Migraine. The EFO term migraine 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.
Authors:
DI Chasman, M Schürks, V Anttila, B de Vries, U Schminke, LJ Launer, GM Terwindt, AM van den Maagdenberg, K Fendrich, H Völzke, F Ernst, LR Griffiths, JE Buring, M Kallela, T Freilinger, C Kubisch, PM Ridker, A Palotie, MD Ferrari, W Hoffmann, RY Zee, T Kurth
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 Migraine. The EFO term migraine 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.
Authors:
T Freilinger, V Anttila, B de Vries, R Malik, M Kallela, GM Terwindt, P Pozo-Rosich, B Winsvold, DR Nyholt, WP van Oosterhout, V Artto, U Todt, E Hämäläinen, J Fernández-Morales, MA Louter, MA Kaunisto, J Schoenen, O Raitakari, T Lehtimäki, M Vila-Pueyo, H Göbel, E Wichmann, C Sintas, AG Uitterlinden, A Hofman, F Rivadeneira, A Heinze, E Tronvik, CM van Duijn, J Kaprio, B Cormand, M Wessman, RR Frants, T Meitinger, B Müller-Myhsok, JA Zwart, M Färkkilä, A Macaya, MD Ferrari, C Kubisch, A Palotie, M Dichgans, AM van den Maagdenberg
GWAS: pulmonary function measurement, FEV/FEC ratio
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 Pulmonary function. The EFO term pulmonary function measurement, FEV/FEC 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:
M Soler Artigas, DW Loth, LV Wain, SA Gharib, M Obeidat, W Tang, G Zhai, JH Zhao, AV Smith, JE Huffman, E Albrecht, CM Jackson, DM Evans, G Cadby, M Fornage, A Manichaikul, LM Lopez, T Johnson, MC Aldrich, T Aspelund, I Barroso, H Campbell, PA Cassano, DJ Couper, G Eiriksdottir, N Franceschini, M Garcia, C Gieger, GK Gislason, I Grkovic, CJ Hammond, DB Hancock, TB Harris, A Ramasamy, SR Heckbert, M Heliövaara, G Homuth, PG Hysi, AL James, S Jankovic, BR Joubert, S Karrasch, N Klopp, B Koch, SB Kritchevsky, LJ Launer, Y Liu, LR Loehr, K Lohman, RJ Loos, T Lumley, KA Al Balushi, WQ Ang, RG Barr, J Beilby, JD Blakey, M Boban, V Boraska, J Brisman, JR Britton, GG Brusselle, C Cooper, I Curjuric, S Dahgam, IJ Deary, S Ebrahim, M Eijgelsheim, C Francks, D Gaysina, R Granell, X Gu, JL Hankinson, R Hardy, SE Harris, J Henderson, A Henry, AD Hingorani, A Hofman, PG Holt, J Hui, ML Hunter, M Imboden, KA Jameson, SM Kerr, I Kolcic, F Kronenberg, JZ Liu, J Marchini, T McKeever, AD Morris, AC Olin, DJ Porteous, DS Postma, SS Rich, SM Ring, F Rivadeneira, T Rochat, AA Sayer, I Sayers, PD Sly, GD Smith, A Sood, JM Starr, AG Uitterlinden, JM Vonk, SG Wannamethee, PH Whincup, C Wijmenga, OD Williams, A Wong, M Mangino, KD Marciante, WL McArdle, B Meibohm, AC Morrison, KE North, E Omenaas, LJ Palmer, KH Pietiläinen, I Pin, O Pola Sbreve Ek, A Pouta, BM Psaty, AL Hartikainen, T Rantanen, S Ripatti, JI Rotter, I Rudan, AR Rudnicka, H Schulz, SY Shin, TD Spector, I Surakka, V Vitart, H Völzke, NJ Wareham, NM Warrington, HE Wichmann, SH Wild, JB Wilk, M Wjst, AF Wright, L Zgaga, T Zemunik, CE Pennell, F Nyberg, D Kuh, JW Holloway, HM Boezen, DA Lawlor, RW Morris, N Probst-Hensch, J Kaprio, JF Wilson, C Hayward, M Kähönen, J Heinrich, AW Musk, DL Jarvis, S Gläser, MR Järvelin, BH Ch Stricker, P Elliott, GT O'Connor, DP Strachan, SJ London, IP Hall, V Gudnason, MD Tobin
The total transcriptome including genes that are differentially expressed in cocaine addicts compared to control subjects. Post-mortem brain samples were collected from the dorsolateral prefrontal cortex (dlPFC) of the cocaine addict group and the control group. To assess gene expression, RNA-seq was performed. Data taken from Supplementary Table 2. Values presented are k.diff values. Data available from GEO with accession number GSE99349."
Authors:
Efrain A Ribeiro, Joseph R Scarpa, Susanna P Garamszegi, Andrew Kasarskis, Deborah C Mash, Eric J Nestler
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
LSI derived gene associations with keyword query Reelin. The list contains the top 300 genes associated with Reelin from the >13000 mouse homolog gene collection
Whole Brain Gene Expression Correlates for ACTI_DIFF_20 measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. The ACTI_DIFF_20 measures Difference in distance traveled (cm) during the first last min (saline-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
Cerebellum Gene Expression Correlates for LOC_CHCL_VCOUNT_3 measured in BXD RI Males obtained using SJUT Cerebellum mRNA M430 (Mar05) RMA. The LOC_CHCL_VCOUNT_3 measures Cocaine Open Field TOTAL rears 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 HAND_6HOURS measured in BXD RI Females & Males obtained using GeneNetwork Striatum M430V2 (Apr05) RMA. The HAND_6HOURS measures Handling induced convulsions 6 hrs after ethanol under the domain Ethanol HIC. 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 VOCA_THRESHOLD measured in BXD RI Females obtained using INIA Brain mRNA M430 (Jun06) RMA. The VOCA_THRESHOLD measures Vocalization Threshold - shock intensity (mA) under the domain Stress Vocalization. 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
Each mRNA sample group was hybridized to three different arrays, and fold-change values are average of the triplicate measurements; from Parmentier-Batteur et al., 2002
Authors:
Parmentier-Batteur S, Jin K, Xie L, Mao XO, Greenberg DA
GeneWeaver