Single cell transcriptional and epigenomic atlas of the rhesus macaque brain

Project at a glance

Program

biccn

Submission status

['cell nucleus']

Funding support

Not listed

Consortium RRID

Not listed

Organizations

Seattle Children's Hospital, University of Washington, Arizona State University

Scope

Taxa

No taxa listed

Modalities

multimodal

Techniques

sci-atac-seq3 sci-rna-seq3

Assays

No assays listed

License

CC BY 4.0

Description

"We are generating an anatomically resolved, single cell atlas of the epigenome (5.5 million cells) and transcriptome (11 million cells) of the rhesus macaque brain. We use two recently developed methods that rely on combinatorial indexing to cost-effectively profile the epigenomes (sci-ATAC-seq) and transcriptomes (sci-RNA-seq) of large numbers of cells. The first aim of the project is to generate high resolution, single cell epigenetic and transcriptional atlases of one male and one female rhesus macaque brain by profiling chromatin accessibility in 750,000 nuclei (sci-ATAC-seq) and transcription in 1,500,000 nuclei (sci-RNA-seq) from each of two macaque brains (for a total of 4.5 million cells). These will be obtained from at least 25 anatomically dissected brain regions (30,000 sci-ATAC-seq and 60,000 sci-RNA-seq profiles per region per brain). In the second phase of the project, we are extending these atlases to span the primate lifespan by performing single cell epigenetic and transcriptional profiling of the brains of 50 additional rhesus macaques (25 regions per brain; 3,200 sci-ATAC-seq and 6,400 sci-RNA-seq profiles per individual/region, for a total of 12 million molecularly profiled cells). This large sample size will characterize natural variation in chromatin accessibility and transcription within each cell type, between individuals, sexes, and across the natural lifespan of rhesus macaques. At 16.5 million cells at the end of this project, this rhesus macaque brain atlas will also comprise the largest transcriptional and epigenomic single cell dataset of any primate organ to date. It is therefore  an essential resource, complementary to other efforts, for identifying the distribution and function of key cell types across the primate brain, allowing for the development of cell type- and region-specific molecular interventions that will help to understand brain function and the etiology, and potentially the treatment, of brain disorders."

Funding & grants

No grant information listed for this project.

Collections in this project

No collections listed for this project.

Publications in this project

No publications listed for this project.

Project attributes

No project attributes listed for this project.