A large collection of DNA fragments cloned (CLONING, MOLECULAR) from a given organism, tissue, organ, or cell type. It may contain complete genomic sequences (GENOMIC LIBRARY) or complementary DNA sequences, the latter being formed from messenger RNA and lacking intron sequences.
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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 Obesity. The EFO term obesity 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:
SI Berndt, S Gustafsson, R Mägi, A Ganna, E Wheeler, MF Feitosa, AE Justice, KL Monda, DC Croteau-Chonka, FR Day, T Esko, T Fall, T Ferreira, D Gentilini, AU Jackson, J Luan, JC Randall, S Vedantam, CJ Willer, TW Winkler, AR Wood, T Workalemahu, YJ Hu, SH Lee, L Liang, DY Lin, JL Min, BM Neale, G Thorleifsson, J Yang, E Albrecht, N Amin, JL Bragg-Gresham, G Cadby, M den Heijer, N Eklund, K Fischer, A Goel, JJ Hottenga, JE Huffman, I Jarick, Å Johansson, T Johnson, S Kanoni, ME Kleber, IR König, K Kristiansson, Z Kutalik, C Lamina, C Lecoeur, G Li, M Mangino, WL McArdle, C Medina-Gomez, M Müller-Nurasyid, JS Ngwa, IM Nolte, L Paternoster, S Pechlivanis, M Perola, MJ Peters, M Preuss, LM Rose, J Shi, D Shungin, AV Smith, RJ Strawbridge, I Surakka, A Teumer, MD Trip, J Tyrer, JV Van Vliet-Ostaptchouk, L Vandenput, LL Waite, JH Zhao, D Absher, FW Asselbergs, M Atalay, AP Attwood, AJ Balmforth, H Basart, J Beilby, LL Bonnycastle, P Brambilla, M Bruinenberg, H Campbell, DI Chasman, PS Chines, FS Collins, JM Connell, WO Cookson, U de Faire, F de Vegt, M Dei, M Dimitriou, S Edkins, K Estrada, DM Evans, M Farrall, MM Ferrario, J Ferrières, L Franke, F Frau, PV Gejman, H Grallert, H Grönberg, V Gudnason, AS Hall, P Hall, AL Hartikainen, C Hayward, NL Heard-Costa, AC Heath, J Hebebrand, G Homuth, FB Hu, SE Hunt, E Hyppönen, C Iribarren, KB Jacobs, JO Jansson, A Jula, M Kähönen, S Kathiresan, F Kee, KT Khaw, M Kivimäki, W Koenig, AT Kraja, M Kumari, K Kuulasmaa, J Kuusisto, JH Laitinen, TA Lakka, C Langenberg, LJ Launer, L Lind, J Lindström, J Liu, A Liuzzi, ML Lokki, M Lorentzon, PA Madden, PK Magnusson, P Manunta, D Marek, W März, I Mateo Leach, B McKnight, SE Medland, E Mihailov, L Milani, GW Montgomery, V Mooser, TW Mühleisen, PB Munroe, AW Musk, N Narisu, G Navis, G Nicholson, EA Nohr, KK Ong, BA Oostra, CN Palmer, A Palotie, JF Peden, N Pedersen, A Peters, O Polasek, A Pouta, PP Pramstaller, I Prokopenko, C Pütter, A Radhakrishnan, O Raitakari, A Rendon, F Rivadeneira, I Rudan, TE Saaristo, JG Sambrook, AR Sanders, S Sanna, J Saramies, S Schipf, S Schreiber, H Schunkert, SY Shin, S Signorini, J Sinisalo, B Skrobek, N Soranzo, A Stančáková, K Stark, JC Stephens, K Stirrups, RP Stolk, M Stumvoll, AJ Swift, EV Theodoraki, B Thorand, DA Tregouet, E Tremoli, MM Van der Klauw, JB van Meurs, SH Vermeulen, J Viikari, J Virtamo, V Vitart, G Waeber, Z Wang, E Widén, SH Wild, G Willemsen, BR Winkelmann, JC Witteman, BH Wolffenbuttel, A Wong, AF Wright, MC Zillikens, P Amouyel, BO Boehm, E Boerwinkle, DI Boomsma, MJ Caulfield, SJ Chanock, LA Cupples, D Cusi, GV Dedoussis, J Erdmann, JG Eriksson, PW Franks, P Froguel, C Gieger, U Gyllensten, A Hamsten, TB Harris, C Hengstenberg, AA Hicks, A Hingorani, A Hinney, A Hofman, KG Hovingh, K Hveem, T Illig, MR Jarvelin, KH Jöckel, SM Keinanen-Kiukaanniemi, LA Kiemeney, D Kuh, M Laakso, T Lehtimäki, DF Levinson, NG Martin, A Metspalu, AD Morris, MS Nieminen, I Njølstad, C Ohlsson, AJ Oldehinkel, WH Ouwehand, LJ Palmer, B Penninx, C Power, MA Province, BM Psaty, L Qi, R Rauramaa, PM Ridker, S Ripatti, V Salomaa, NJ Samani, H Snieder, TI Sørensen, TD Spector, K Stefansson, A Tönjes, J Tuomilehto, AG Uitterlinden, M Uusitupa, P van der Harst, P Vollenweider, H Wallaschofski, NJ Wareham, H Watkins, HE Wichmann, JF Wilson, GR Abecasis, TL Assimes, I Barroso, M Boehnke, IB Borecki, P Deloukas, CS Fox, T Frayling, LC Groop, T Haritunian, IM Heid, D Hunter, RC Kaplan, F Karpe, MF Moffatt, KL Mohlke, JR O'Connell, Y Pawitan, EE Schadt, D Schlessinger, V Steinthorsdottir, DP Strachan, U Thorsteinsdottir, CM van Duijn, PM Visscher, AM Di Blasio, JN Hirschhorn, CM Lindgren, AP Morris, D Meyre, A Scherag, MI McCarthy, EK Speliotes, KE North, RJ Loos, E Ingelsson
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
The dataset used in this study (Bulk RNA-Seq) was previously published and can be found at NCBI GEO (GSE182321), this analysis was conducted by GEO2R to compare control and OUD samples, only top differentially expressed genes are reported. To understand mechanisms and identify potential targets for intervention in the current crisis of opioid use disorder (OUD), postmortem brains represent an under-utilized resource. To refine previously reported gene signatures of neurobiological alterations in OUD from the dorsolateral prefrontal cortex (Brodmann Area 9, BA9), we explored the role of microRNAs (miRNA) as powerful epigenetic regulators of gene function.
Whole Brain Gene Expression Correlates for BEC measured in BXD RI Females & Males obtained using INIA Brain mRNA M430 (Jun06) RMA. The BEC measures blood ethanol concentration in mg/dl 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
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 15 (Cocrb15) spans 70.807693 - 120.807693 Mbp (NCBI Build 37) on Chr 15. Obtained from MGI (http://www.informatics.jax.org) by searching for QTLs containing the keyword .
QTL for cocaine related behavior on Chr15 at D15Mit3 (83.88 Mbp , Build 37)
Description:
cocaine related behavior spans 58.88 - 108.88 Mbp (NCBI Build 37) on Chr15. 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 consumption on Chr15 at D15Mit105 (87.33 Mbp , Build 37)
Description:
alcohol consumption spans 62.33 - 112.33 Mbp (NCBI Build 37) on Chr15. 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 cocaine induced activation on Chr15 at NA (92.79 Mbp , Build 37)
Description:
cocaine induced activation spans 67.79 - 117.79 Mbp (NCBI Build 37) on Chr15. 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 Chr15 at D15Mit1 (93.20 Mbp , Build 37)
Description:
METH responses for home cage activity spans 68.20 - 118.20 Mbp (NCBI Build 37) on Chr15. 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 cocaine related behavior on Chr15 at D15Ncvs29 (95.81 Mbp , Build 37)
Description:
cocaine related behavior spans 70.81 - 120.81 Mbp (NCBI Build 37) on Chr15. 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 Chr15 at Spt1 (102.87 Mbp , Build 37)
Description:
METH responses for home cage activity spans 77.87 - 127.87 Mbp (NCBI Build 37) on Chr15. 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 cocaine seizure on Chr15 at D15Mit48 (105.10 Mbp , Build 37)
Description:
cocaine seizure spans 80.10 - 130.10 Mbp (NCBI Build 37) on Chr15. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
Acute and chronic alcohol exposure was analyzed in 534 (C57BL/6J x C3H/HeJ)F2 mice. Behavioral testing was done using 5 traits, acute drug effect, forced ethanol drinking, withdrawal studies ethanol preference and stress induced ethanol drinking. The following QTL were found in a genome wide scan: Following the QTL is the Chromosome , cM location, and LOD score, Eih1 (Chr 1, 85 cM, LOD 6.6), Eih2 (Chr 7, 10 cM, LOD 3.6), Ceih1 (Chr 3, 55 cM, LOD 4.1), Ceih2 (Chr 6, 24.7 cM, LOD 4.1), Ceih3 (Chr 13, 39 cM, LOD 4.1), Eia1(Chr 1, 65 cM, LOD 10.3 and 10.4), Eiwa1 (Chr 7, 50 cM, LOD 4.4), Eiwa2(Chr 11, 43.1 cM, LOD 4.1),Aldd1(Chr 5, 42 cM, LOD 13.2), Aldd2(Chr 12, 18 cM, LOD 5.3),Eiwax1(Chr 1, 79 cM, LOD 6.5), Eiwax2(Chr 5, 59 cM, LOD 15.0), Eiwax3(Chr 12, 21 cM, LOD 3.6), Methp1(Chr 16, 31.4 cM, LOD 4.3), Mec1(Chr 16, 19.4 cM, LOD 5.1), Epbs1(Chr 16, 33 cM, LOD 4.1), Ecbs1(Chr 16, 29.4 cM, LOD 4.8), Mec2(Chr 1, 109 cM, LOD 3.9), Mec3(Chr 2, 109 cM, LOD 4.3), Mec4(Chr 5, 29 cM, LOD 3.9), Mec5(Chr 10, 2 cM, LOD 5.0), Mec6(Chr 15, 49 cM, LOD 5.2, 95% CI 6.7–56.7).
Authors:
Drews E, Rcz I, Lacava AD, Barth A, Bilkei-Gorz A, Wienker TF, Zimmer A
Ethanol Preference from BXD lines span 58586243-108586243. This interval was obtained by using an arbitrary interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org). Marker Loci associated with 10% Ethanol Preferences Drinking at p<0.05 (Two Tailed) in the BXD RI set and the Correlation Coefficient, p and Estimated LOD. D15Mit33 (83586243 NCBI 37) p=0.05, LOD=0.08 overall LOD BXD & Select Line 2.4.
QTL mapping results for B6D2F2 mice in regions provisionally identified in BXD RI mice for free-choice ethanol consumption. Peak D15Mit33 58586243-108586243. This interval was obtained by using an arbitrary interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org)
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 'Cyclosporine' (D016572). Incorporates data from 1 publications curated by the Comparative Toxicogenomics Database (CTD). ODE Gene scores represent number of supporting publications per gene.
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