{"lab": {"uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "display_title": "4DN DCIC, HMS", "@id": "/labs/4dn-dcic-lab/", "status": "current", "@type": ["Lab", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "award": {"display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE I", "uuid": "b0b9c607-f8b4-4f02-93f4-9895b461334b", "@id": "/awards/1U01CA200059-01/", "status": "current", "@type": ["Award", "Item"], "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "title": "single cell Methyl Hi-C", "status": "released", "other_tags": ["Methylation state", "DNA-DNA", "Pairwise", "3D", "Single Cell"], "date_created": "2019-10-07T17:09:17.085182+00:00", "submitted_by": {"error": "no view permissions"}, "last_modified": {"modified_by": {"error": "no view permissions"}, "date_modified": "2019-11-14T14:50:40.297364+00:00"}, "raw_file_types": "Reads (fastq) provided by lab", "reference_pubs": [{"status": "current", "uuid": "551c11b9-0873-4a4d-8779-c66c3a0ea5bb", "authors": ["Li G", "Liu Y", "Zhang Y", "Kubo N", "Yu M", "Fang R", "Kellis M", "Ren B"], "display_title": "Li G et al. (2019) PMID:31384045", "date_published": "2019-08-05", "short_attribution": "Li G et al. (2019)", "@type": ["Publication", "Item"], "journal": "Nature methods", "@id": "/publications/551c11b9-0873-4a4d-8779-c66c3a0ea5bb/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}], "schema_version": "1", "static_content": [{"content": {"filetype": "txt", "@type": ["StaticSection", "UserContent", "Item"], "content": "Single cell Methyl Hi-C is a method to assay chromatin \nconformation and DNA methylation in single cell.  The protocol \nfor in bulk Methyl Hi-C is followed through the steps of \nproximal ligation. After ligation, nuclei are isolated by FACS \nsorting and bisulfite conversion is performed on single nuclei.\n  Fragments are amplified and indexed to allow identification \nof reads obtained from a single nucleus.  Amplified libraries \nare pooled and sized selected prior to sequencing. The \nmethylation status of cytosines and the pair-wise contact \nfrequencies are then determined using custom software. ", "display_title": "Assay Description", "title": "Assay Description", "name": "tem-page-headers.ExperimentType.sc_methylhic", "@id": "/static-sections/12c74fbe-91f7-4121-a2b0-df7c3b8d9e47/", "uuid": "12c74fbe-91f7-4121-a2b0-df7c3b8d9e47", "lab": {"status": "current", "@type": ["Lab", "Item"], "display_title": "4DN DCIC, HMS", "uuid": "828cd4fe-ebb0-4b36-a94a-d2e3a36cc989", "@id": "/labs/4dn-dcic-lab/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "submits_for.828cd4fe-ebb0-4b36-a94a-d2e3a36cc989"]}}, "award": {"display_title": "4D NUCLEOME NETWORK DATA COORDINATION AND INTEGRATION CENTER - PHASE I", "status": "current", "@type": ["Award", "Item"], "uuid": "b0b9c607-f8b4-4f02-93f4-9895b461334b", "@id": "/awards/1U01CA200059-01/", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}}, "status": "released", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin", "userid.986b362f-4eb6-4a9c-8173-3ab267227777"]}}, "location": "tab:overview"}], "experiment_name": "single-cell-methyl-hi-c", "valid_item_types": ["ExperimentHiC"], "experiment_category": "Sequencing", "assay_classification": "3C via Ligation", "assay_subclass_short": "Hi-C (single cell)", "assay_subclassification": "DNA-DNA Pairwise Interactions - Single Cell", "@id": "/experiment-types/single-cell-methyl-hi-c/", "@type": ["ExperimentType", "Item"], "uuid": "a8afcaed-a2ea-4f47-931e-4ab56f267c2a", "principals_allowed": {"view": ["system.Everyone"], "edit": ["group.admin"]}, "display_title": "single cell Methyl Hi-C", "external_references": [], "@context": "/terms/", "aggregated-items": {}, "validation-errors": []}