FunGen-xQTL Resources

ROSMAP snATAC-seq Chromatin Accessibility

Cohort
ROSMAPReligious Orders Study and Rush Memory and Aging Project
Data type
snATAC-seqOmics data
Tissue or cell type
DLPFC, 6 cell types
Sample size
Not recorded on this page
Release status
Stagednot yet verified
Access
ControlledData use certificate
Lead analysts
Anjing LiuSelect a name to email them
Open syn69670592 in Synapse ↗

Access

Controlled access. Request data access for ROSMAP on the AD Knowledge Portal; you need a Synapse account. See How to get the data.

WhereIDAccessWhat you get
Synapsesyn69670592ControlledFiles described below

Other Synapse IDs on this page syn69670597 syn69670630 syn69865816

shell
pip install synapseclient
synapse login
synapse get -r syn69670592

Summary

Single-nucleus ATAC-seq (snATAC-seq) data from ROSMAP, profiling chromatin accessibility in individual nuclei from DLPFC brain tissue. The data are the MIT snATAC-seq dataset (syn52293417) described in Xiong et al., Cell 186, 4422–4437 (2023).

Dataset Information

  • Cohort: ROSMAP (MIT)
  • Brain region: Dorsolateral prefrontal cortex (DLPFC)
  • Data type: Single-nucleus ATAC-seq (snATAC-seq)
  • Cell types: Multiple brain cell types (neurons, oligodendrocytes, astrocytes, microglia, etc.)

Omics Data

Chromatin accessibility matrices

Peak-by-cell count matrices and pseudobulk accessibility profiles available through the AD Knowledge Portal.

QTL Analysis

QTL analysis for this dataset is documented in ../../qtl/caQTL/ROSMAP_snuc_caQTL_qtl.md.

Flagship paper analyses: