ROSMAP Single-Nucleus Chromatin Accessibility QTL (caQTL)

Mon, 01 Jan 0001 00:00:00 +0000

ROSMAP Single-Nucleus Chromatin Accessibility QTL (caQTL)#

Single-nucleus ATAC-seq chromatin accessibility QTL analysis from ROSMAP donors, covering MIT snATAC-seq and CUIMC & MIT harmonized Multiome ATAC data.

Please refer to this document for an overview of the ROSMAP project.

Contact#

FunGen-xQTL Analysis Team

Study Overview#

Study name: ROSMAP snATAC-seq caQTL
Study Description: Chromatin accessibility quantitative trait loci (caQTL) using pseudo-bulk ATAC-seq profiles per cell type. Two datasets are included: (1) MIT snATAC-seq (Mic, Ast, Oli, OPC, Exc, Inh) and (2) CUIMC & MIT harmonized Multiome ATAC (Mic, Ast, Oli, OPC, Exc, Inh). A response caQTL (r-caQTL) analysis was also performed to identify variants affecting chromatin remodeling in context of co-measured gene expression.
Cell types: Microglia (Mic), Astrocytes (Ast), Oligodendrocytes (Oli), OPCs (OPC), Excitatory neurons (Exc), Inhibitory neurons (Inh)
Assay: 10x Genomics snATAC-seq and Multiome ATAC

Analysis Details#

Path(s) to cis-QTL association testing#

s3://statfungen/ftp_fgc_xqtl/analysis_result/cis_association/ROSMAP/caQTL/

Path(s) to fine-mapping with fSuSiE / SuSiE RSS model#

Fine-mapping model objects (fSuSiE/SuSiE-RSS, .rds) are available in the finemapping models folder (syn69670592).