{"ID": "PMID:36162821", "lab": {"@id": "/labs/external-lab/", "uuid": "d3412190-317a-4837-823f-3892b9f641a4", "status": "current", "display_title": "External Lab", "@type": ["Lab", "Item"], "title": "External Lab", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "role.lab_submitter", "submits_for.d3412190-317a-4837-823f-3892b9f641a4"]}}, "url": "https://www.ncbi.nlm.nih.gov/pubmed/36162821", "tags": ["4dn-external-reuse"], "award": {"uuid": "12a92962-8265-4fc0-b2f8-cf14f05db58b", "center_title": "External", "name": "external-award", "display_title": "EXTERNAL AWARD", "project": "External", "@type": ["Award", "Item"], "status": "current", "center": "External", "description": "Funding source is from outside 4DN.", "@id": "/awards/external-award/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "title": "CohesinDB: a comprehensive database for decoding cohesin-related epigenomes, 3D  genomes and transcriptomes in human cells.", "status": "current", "aliases": ["4dn-dcic-lab:PMID:36162821"], "authors": ["Wang J", "Nakato R"], "journal": "Nucleic acids research", "abstract": "Cohesin is a multifunctional protein responsible for transcriptional regulation  and chromatin organization. Cohesin binds to chromatin at tens of thousands of  distinct sites in a conserved or tissue-specific manner, whereas the function of  cohesin varies greatly depending on the epigenetic properties of specific  chromatin loci. Cohesin also extensively mediates cis-regulatory modules (CRMs)  and chromatin loops. Even though next-generation sequencing technologies have  provided a wealth of information on different aspects of cohesin, the integration  and exploration of the resultant massive cohesin datasets are not  straightforward. Here, we present CohesinDB  (https://cohesindb.iqb.u-tokyo.ac.jp), a comprehensive multiomics cohesin  database in human cells. CohesinDB includes 2043 epigenomics, transcriptomics and  3D genomics datasets from 530 studies involving 176 cell types. By integrating  these large-scale data, CohesinDB summarizes three types of 'cohesin objects':  751 590 cohesin binding sites, 957 868 cohesin-related chromatin loops and 2 229  500 cohesin-related CRMs. Each cohesin object is annotated with locus, cell type,  classification, function, 3D genomics and cis-regulatory information. CohesinDB  features a user-friendly interface for browsing, searching, analyzing,  visualizing and downloading the desired information. CohesinDB contributes a  valuable resource for all researchers studying cohesin, epigenomics,  transcriptional regulation and chromatin organization.", "date_created": "2024-02-13T22:04:47.564687+00:00", "published_by": "External", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2024-03-15T15:44:12.872241+00:00"}, "date_published": "2023-01-06", "public_release": "2024-03-15", "schema_version": "2", "project_release": "2024-03-15", "exp_sets_used_in_pub": [{"@type": ["ExperimentSetReplicate", "ExperimentSet", "Item"], "display_title": "4DNES21D8SP8", "uuid": "a9007b58-6a8c-4d22-8f6f-f9f347e58165", "experimentset_type": "replicate", "status": "released", "@id": "/experiment-set-replicates/4DNES21D8SP8/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "@id": "/publications/6bf7c532-961a-49e1-8fef-0f699d1708ac/", "@type": ["Publication", "Item"], "uuid": "6bf7c532-961a-49e1-8fef-0f699d1708ac", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "Wang J and Nakato R (2023) PMID:36162821", "external_references": [], "short_attribution": "Wang J and Nakato R (2023)", "@context": "/terms/", "aggregated-items": {}, "validation-errors": []}