Transcriptomics, epigenomics and genetic dataset generated or co-generated in our lab
Resource Description PMID Web / GEO
BOCA 3 FANS-sorted RNA-seq and ATAC-seq (neurons and non-neurons) across 25 distinct brain regions of 6 adult individuals. doi: 10.1101/2022.09.02.506419 Web
GEO
AD Microglia FANS-sorted RNA-seq, ATAC-seq accompanied by SNParrays from over 100 adult Alzheimer’s disease cases and controls. doi: 10.1101/2021.01.25.21250099v1 Synapse
AD NeuN+/- FANS-sorted ATAC-seq (nerons and non-neurons) across 2 brain regions of over 400 adult Alzheimer’s disease cases and controls. doi:10.1101/2021.01.11.426303v1 Web
UCSC
Synapse
Epidiff FANS-sorted and bulk ChIP-seq data (neurons) from PFC brain region of over 500 Schizophrenia cases and controls doi:10.1101/2021.06.02.446728 UCSC
Synapse
BOCA 2 FANS-sorted ATAC-seq (neurons and non-neurons) across 14 distinct brain regions of 5 adult individuals. 33149216 Web
UCSC
GEO
Epimap  FANS-sorted and bulk ChIP-seq (neurons and non-neurons) across 2 distinct brain regions of Schizophrenia cases and controls 30038276 Synapse
BOCA FANS-sorted ATAC-seq (neurons and non-neurons) across 14 distinct brain regions of 5 adult individuals. 29945882 Web
UCSC
GEO

 

Computational tools, servers, and databases
Visit our Github for the most updated list of tools!
Resource Description PMID Web / Github
mmQTL mmQTL is a statistical package applying meta-analysis to detect multiple QTL signals integrating signals among conditions, with control for population structure and relatedness 35058635 Github
Zenodo
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 31444360 Web
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. 28552197 Web
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. 29579179 Web