Identifier Results
| Field | Value |
|---|---|
| Identifier | nemo:dat-wywv153 |
| Dataset Name | An Atlas of Gene Regulatory Elements in Adult Mouse Cerebrum |
| Version | 1 |
| Release Date | NA |
| DOI | NA |
| Source Data URL | http://data.nemoarchive.org/biccn/grant/u19_cemba/cemba/epigenome/sncell/ATACseq/mouse/ |
| Dataset Collection URL | https://data.nemoarchive.org/publication_release/ecker_sn_ATACseq_pub_bdbag_2021_06_04.tgz |
| Description | The mammalian cerebrum performs high level sensory, motor control and cognitive functions through highly specialized cortical networks and subcortical nuclei. Recent surveys of mouse and human brains with single cell transcriptomics1–3 and high-throughput imaging technologies4,5 have uncovered hundreds of neuronal cell types and a variety of non-neuronal cell types distributed in different brain regions, but the cell-type-specific transcriptional regulatory programs responsible for the unique identity and function of each brain cell type have yet to be elucidated. Here, we probe the accessible chromatin in >800,000 individual nuclei from 45 regions spanning the adult mouse isocortex, olfactory bulb, hippocampus and cerebral nuclei, and use the resulting data to define 491,818 candidate cis regulatory DNA elements in 160 distinct sub-types. We link a significant fraction of them to putative target genes expressed in diverse cerebral cell types and uncover transcriptional regulators involved in a broad spectrum of molecular and cellular pathways in different neuronal and glial cell populations. Our results provide a foundation for comprehensive analysis of gene regulatory programs of the mammalian brain and assist in the interpretation of non-coding risk variants associated with various neurological disease and traits in humans. To facilitate the dissemination of information, we have set up a web portal (http://catlas.org/mousebrain) |
| Keywords | Chromatin accessibility, snATAC-seq |
| Total Files in Collection | 90 |
| Total Size in Collection (in GB) | 0.0 |
| Authors | Yang Eric Li*, Sebastian Preissl*, Xiaomeng Hou, Ziyang Zhang, Kai Zhang, Yunjiang Qiu, Olivier Poirion, Bin Li, Joshua Chiou, Hanqing Liu, Antonio Pinto-Duarte, Naoki Kubo, Xiaoyu Yang, Rongxin Fang, Xinxin Wang, Jee Yun Han, Jacinta Lucero, Yiming Yan, Michael Miller,Samantha Kuan, David Gorkin, Kyle J. Gaulton, Yin Shen, Michael Nunn, Eran A. Mukamel, M. Margarita Behrens, Joseph R. Ecker & Bing Ren |
| Organization | Ludwig Institute for Cancer Research, UCSD; Center for Epigenomics, UCSD; Salk Institute for Biological Studies |
| Contact Person | Bing Ren |
| Contact E-Mail | biren@health.ucsd.edu |
| External Identifier | ecker_sn_ATACseq_pub |
| Grant Name | 1U19MH114831-01 |
| Consortium | BICCN |
| Data Repository | NeMO |
| Data Repository RRID | RRID:SCR_016152 |
| Data License | CC BY 4.0 |
| Data Access | https://biccn.org/terms-of-use |
| Community Standards | https://biccn.org/standards |
| Study Organism | mouse |
| Protocol ID | https://www.protocols.io/view/sequencing-open-chromatin-of-single-cell-nuclei-sn-4zzgx76 |
| Parent Identifier | NA |
This identifier does not have sub-identifiers with "raw" data associated
This identifier does not have sub-identifiers with "analysis" data associated