EpiXcan

EpiXcan is a repository of transcriptome prediction and gene-trait association. It is based on a method, named as EpiXcan, that increases prediction accuracy in transcriptome imputation by integrating epigenetic data to model the prior probability that a SNP affects transcription. Please visit the database webpage by clicking on the above logo.’

Integrative transcriptome imputation reveals tissue-specific and shared biological mechanisms mediating susceptibility to complex traits
Wen Zhang, Georgios Voloudakis, Veera M. Rajagopal, Ben Readhead, Joel T. Dudley, Eric E. Schadt, Johan L.M. Björkegrn, Yungil Kim, John F. Fullard, Gabriel E. Hoffman, Panos Roussos.
Nature Communications, 2019. DOI: 10.1038/s41467-019-11874-7

 

GWAS2Genes

GWAS2Genes is a database of how common genetic variants affect gene expressions. GWAS2Genes links common variants of GWAS loci to which genes are affected and in which direction by using eQTLs and SMR. Please visit the database webpage by clicking on the above logo.

Large-scale Identification of Common Variants Affecting Gene Expression in Traits and Diseases
Mads Engel Hauberg, Wen Zhang, Claudia Giambartolomei, Oscar Franzén, David L Morris, Timothy J Vyse, Arno Ruusalepp, the CommonMind Consortium, Pamela Sklar, Eric E. Schadt, Johan L.M. Björkegren, Panos Roussos.
Am J Hum Genet. 2017. DOI: 10.1016/j.ajhg.2017.04.016. PMID: 28552197

 

MOLOC

MOLOC (multiple-trait-coloc) is a Bayesian statistical framework that integrates GWAS summary data with multiple molecular QTL data to identify regulatory effects at GWAS risk loci.

A Bayesian Framework for Multiple Trait Colocalization From Summary Association Statistics
C. Giambartolomei, J. Z. Liu, W. Zhang, M. Hauberg, H. Shi, J. Boocock, J. Pickrell, A. Jaffe, the CommonMind Consortium, B. Pasaniuc, P. Roussos.
Bioinformatics. 2018 Mar 19.  DOI: 10.1093/bioinformatics/bty147. PMID: 29579179

 

BOCA

BOCA (Brain Open Chromatin Atlas) provides the maps of neuronal and non-neuronal chromatin accessibility across 14 distinct brain regions of 5 adult individuals.

An atlas of chromatin accessibility in the adult human brain
Fullard JF, Hauberg ME, Bendl J, Egervari G, Cirnaru MD, Reach SM, Motl J, Ehrlich ME, Hurd YL, Roussos P.
Genome Res. 2018 Jun 26. pii: gr.232488.117. doi: 10.1101/gr.232488.117. [Epub ahead of print] PMID: 29945882