Four SNPs with p < 0.01 in the combined phase I and phase II analysis were genotyped in an additional 786 IBD samples (452 CD, 334 UC) and 768 independent controls
Authors:
Zhernakova A, Festen EM, Franke L, Trynka G, van Diemen CC, Monsuur AJ, Bevova M, Nijmeijer RM, van 't Slot R, Heijmans R, Boezen HM, van Heel DA, van Bodegraven AA, Stokkers PC, Wijmenga C, Crusius JB, Weersma RK
In phase III, four SNPs with p < 0.01 in the combined phase I and phase II analysis were genotyped in an additional 786 IBD samples (452 CD, 334 UC) and 768 independent controls. Joint analysis of 1851 IBD patients (1062 CD, 789 UC) and 1936 controls demonstrated strong association to the IL18RAP rs917997 SNP for both CD and UC (pIBD 1.9 3 108; OR 1.35).
Authors:
Zhernakova A, Festen EM, Franke L, Trynka G, van Diemen CC, Monsuur AJ, Bevova M, Nijmeijer RM, van 't Slot R, Heijmans R, Boezen HM, van Heel DA, van Bodegraven AA, Stokkers PC, Wijmenga C, Crusius JB, Weersma RK
In phase III, four SNPs with p < 0.01 in the combined phase I and phase II analysis were genotyped in an additional 786 IBD samples (452 CD, 334 UC) and 768 independent controls. Joint analysis of 1851 IBD patients (1062 CD, 789 UC) and 1936 controls demonstrated strong association to the IL18RAP rs917997 SNP for both CD and UC (pIBD 1.9 3 108; OR 1.35).
Authors:
Zhernakova A, Festen EM, Franke L, Trynka G, van Diemen CC, Monsuur AJ, Bevova M, Nijmeijer RM, van 't Slot R, Heijmans R, Boezen HM, van Heel DA, van Bodegraven AA, Stokkers PC, Wijmenga C, Crusius JB, Weersma RK
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 Ankylosing spondylitis. The EFO term ankylosing spondylitis 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:
DM Evans, CC Spencer, JJ Pointon, Z Su, D Harvey, G Kochan, U Oppermann, U Opperman, A Dilthey, M Pirinen, MA Stone, L Appleton, L Moutsianas, L Moutsianis, S Leslie, T Wordsworth, TJ Kenna, T Karaderi, GP Thomas, MM Ward, MH Weisman, C Farrar, LA Bradbury, P Danoy, RD Inman, W Maksymowych, D Gladman, P Rahman, A Morgan, H Marzo-Ortega, P Bowness, K Gaffney, JS Gaston, M Smith, J Bruges-Armas, AR Couto, R Sorrentino, F Paladini, MA Ferreira, H Xu, Y Liu, L Jiang, C Lopez-Larrea, R Díaz-Peña, A López-Vázquez, T Zayats, G Band, C Bellenguez, H Blackburn, JM Blackwell, E Bramon, SJ Bumpstead, JP Casas, A Corvin, N Craddock, P Deloukas, S Dronov, A Duncanson, S Edkins, C Freeman, M Gillman, E Gray, R Gwilliam, N Hammond, SE Hunt, J Jankowski, A Jayakumar, C Langford, J Liddle, HS Markus, CG Mathew, OT McCann, MI McCarthy, CN Palmer, L Peltonen, R Plomin, SC Potter, A Rautanen, R Ravindrarajah, M Ricketts, N Samani, SJ Sawcer, A Strange, RC Trembath, AC Viswanathan, M Waller, P Weston, P Whittaker, S Widaa, NW Wood, G McVean, JD Reveille, BP Wordsworth, MA Brown, P Donnelly
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 IgA nephropathy. The EFO term IGA glomerulonephritis 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 Kiryluk, Y Li, F Scolari, S Sanna-Cherchi, M Choi, M Verbitsky, D Fasel, S Lata, S Prakash, S Shapiro, C Fischman, HJ Snyder, G Appel, C Izzi, BF Viola, N Dallera, L Del Vecchio, C Barlassina, E Salvi, FE Bertinetto, A Amoroso, S Savoldi, M Rocchietti, A Amore, L Peruzzi, R Coppo, M Salvadori, P Ravani, R Magistroni, GM Ghiggeri, G Caridi, M Bodria, F Lugani, L Allegri, M Delsante, M Maiorana, A Magnano, G Frasca, E Boer, G Boscutti, C Ponticelli, R Mignani, C Marcantoni, D Di Landro, D Santoro, A Pani, R Polci, S Feriozzi, S Chicca, M Galliani, M Gigante, L Gesualdo, P Zamboli, GG Battaglia, M Garozzo, D Maixnerová, V Tesar, F Eitner, T Rauen, J Floege, T Kovacs, J Nagy, K Mucha, L Pączek, M Zaniew, M Mizerska-Wasiak, M Roszkowska-Blaim, K Pawlaczyk, D Gale, J Barratt, L Thibaudin, F Berthoux, G Canaud, A Boland, M Metzger, U Panzer, H Suzuki, S Goto, I Narita, Y Caliskan, J Xie, P Hou, N Chen, H Zhang, RJ Wyatt, J Novak, BA Julian, J Feehally, B Stengel, D Cusi, RP Lifton, AG Gharavi
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 Monocyte chemoattractant protein-1. The EFO term CCL2 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:
VS Voruganti, S Laston, K Haack, NR Mehta, CW Smith, SA Cole, NF Butte, AG Comuzzie
Neocortex Gene Expression Correlates for ACTI05_SAL measured in BXD RI Females & Males obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The ACTI05_SAL measures Distance traveled (cm) during the first five minutes after saline 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
Neocortex Gene Expression Correlates for ACTI15_ETHA measured in BXD RI Males obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The ACTI15_ETHA measures Distance traveled (cm) during the third five minute bin after 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
Neocortex Gene Expression Correlates for ACTITOT_DIFF measured in BXD RI Females obtained using GeneNetwork Neocortex ILM6v1.1 (Feb08) RankInv. The ACTITOT_DIFF measures Difference in total distance traveled (cm) (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
The majority of DEGs were also modulated <2-fold when compared to vehicle-treated controls as was observed in the HCT116 cells. Of the 2448 DEGs modulated by vorinostat treatment in HT29 cells, 138 were up-regulated and 53 were down-regulated >2-fold. Of the 3509 genes modulated following treatment with LBH589 in HT29 cells, 163 genes were upregulated and 54 were downregulated >2-fold. The top 15 up- and downregulated genes for both vorinostat and LBH589 treatment in HT29 cells are displayed.
Top tier were previously reported at genome-wide significance (5×10−8), bottom tier were previously reported with weaker evidence. P values are one-tailed in the direction of the previously reported association.
Authors:
Barrett JC, Lee JC, Lees CW, Prescott NJ, Anderson CA, Phillips A, Wesley E, Parnell K, Zhang H, Drummond H, Nimmo ER, Massey D, Blaszczyk K, Elliott T, Cotterill L, Dallal H, Lobo AJ, Mowat C, Sanderson JD, Jewell DP, Newman WG, Edwards C, Ahmad T, Mansfield JC, Satsangi J, Parkes M, Mathew CG, Donnelly P, Peltonen L, Blackwell JM, Bramon E, Brown MA, Casas JP, Corvin A, Craddock N, Deloukas P, Duncanson A, Jankowski J, Markus HS, Mathew CG, McCarthy MI, Palmer CN, Plomin R, Rautanen A, Sawcer SJ, Samani N, Trembath RC, Viswanathan AC, Wood N, Spencer CC, Barrett JC, Bellenguez C, Davison D, Freeman C, Strange A, Donnelly P, Langford C, Hunt SE, Edkins S, Gwilliam R, Blackburn H, Bumpstead SJ, Dronov S, Gillman M, Gray E, Hammond N, Jayakumar A, McCann OT, Liddle J, Perez ML, Potter SC, Ravindrarajah R, Ricketts M, Waller M, Weston P, Widaa S, Whittaker P, Deloukas P, Peltonen L, Mathew CG, Blackwell JM, Brown MA, Corvin A, McCarthy MI, Spencer CC, Attwood AP, Stephens J, Sambrook J, Ouwehand WH, McArdle WL, Ring SM, Strachan DP
QTL for ethanol conditioned taste aversion on Chr2 at NA (35.13 Mbp , Build 37)
Description:
ethanol conditioned taste aversion spans 10.13 - 60.13 Mbp (NCBI Build 37) on Chr2. 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 Chr2 at Brp13 (41.42 Mbp , Build 37)
Description:
METH responses for climbing spans 16.42 - 66.42 Mbp (NCBI Build 37) on Chr2. 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 ethanol consumption on Chr2 at D2Mit7 (47.24 Mbp , Build 37)
Description:
ethanol consumption spans 22.24 - 72.24 Mbp (NCBI Build 37) on Chr2. This interval was obtained by using an 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 '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 Cricetulus griseus that interact with the MeSH term 'Thapsigargin' (D019284). Incorporates data from 376 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 'Copper Sulfate' (D019327). Incorporates data from 72 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 'Tretinoin' (D014212). 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 'Cyclosporine' (D016572). 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 'propionaldehyde' (C005556). 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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