{
"@context": "/terms/",
"@id": "/tabular-files/IGVFFI5545DTHI/",
"@type": [
"TabularFile",
"File",
"Item"
],
"accession": "IGVFFI5545DTHI",
"aliases": [
"jay-shendure:tabularfile_CREs_scATAC_FragmentFile_2a_LaLanne"
],
"analysis_step_version": "/analysis-step-versions/f24bbbaf-4b85-4f27-bc11-d6527da766e2/",
"assay_titles": [
"scATAC-seq"
],
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released tabular file [IGVFFI5545DTHI](/tabular-files/IGVFFI5545DTHI/) has in progress subobject analysis step version [f24bbbaf-4b85-4f27-bc11-d6527da766e2](/analysis-step-versions/f24bbbaf-4b85-4f27-bc11-d6527da766e2/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/tabular-files/IGVFFI5545DTHI/"
}
]
},
"award": {
"@id": "/awards/HG011966/",
"component": "functional characterization"
},
"barcode_map_for": [],
"content_md5sum": "72dd9571ac0163d83557147759a35f68",
"content_type": "fragments",
"controlled_access": false,
"creation_timestamp": "2024-11-25T19:55:28.364485+00:00",
"derived_from": [
"/sequence-files/IGVFFI1783KKSX/",
"/sequence-files/IGVFFI2924IWFH/",
"/sequence-files/IGVFFI4921RBMQ/",
"/sequence-files/IGVFFI5441SJAB/",
"/sequence-files/IGVFFI7928KWSV/",
"/sequence-files/IGVFFI8854LSLE/",
"/sequence-files/IGVFFI9392NJAO/",
"/sequence-files/IGVFFI9532BEXG/"
],
"file_format": "tsv",
"file_format_specifications": [
"/documents/43920105-5f77-430a-9bcd-f00180ff2b1d/"
],
"file_set": {
"@id": "/analysis-sets/IGVFDS7801YPEU/",
"accession": "IGVFDS7801YPEU",
"file_set_type": "principal analysis",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM4284RDJK/",
"accession": "IGVFSM4284RDJK",
"classifications": [
"differentiated cell specimen"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"status": "released",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days (cellular sub pool: 10XlaneB), male, Mus musculus WD44",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"status": "released",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM7126ZMPT/",
"accession": "IGVFSM7126ZMPT",
"classifications": [
"differentiated cell specimen"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"status": "released",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days (cellular sub pool: 10XlaneA), male, Mus musculus WD44",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"status": "released",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM9475FJUV/",
"accession": "IGVFSM9475FJUV",
"classifications": [
"differentiated cell specimen"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"status": "released",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days (cellular sub pool: 10XlaneA), male, Mus musculus WD44",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"status": "released",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
},
{
"@id": "/in-vitro-systems/IGVFSM6820XJKR/",
"accession": "IGVFSM6820XJKR",
"classifications": [
"differentiated cell specimen"
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0004038/",
"status": "released",
"term_name": "mouse embryonic stem cell"
}
],
"status": "released",
"summary": "mouse embryonic stem differentiated cell specimen induced to embryoid body for 21 days (cellular sub pool: 10XlaneB), male, Mus musculus WD44",
"targeted_sample_term": {
"@id": "/sample-terms/UBERON_0014374/",
"status": "released",
"term_name": "embryoid body"
},
"taxa": "Mus musculus"
}
],
"status": "released",
"summary": "scATAC-seq: fragments, peaks, signal, sparse peak count matrix"
},
"file_size": 1485880263,
"gene_list_for": [],
"href": "/tabular-files/IGVFFI5545DTHI/@@download/IGVFFI5545DTHI.tsv.gz",
"input_file_for": [
"/tabular-files/IGVFFI9775SYBY/"
],
"integrated_in": [],
"lab": {
"@id": "/labs/jay-shendure/",
"title": "Jay Shendure, UW"
},
"loci_list_for": [],
"md5sum": "60b3b1393e98ae741cf3df46ad2028aa",
"release_timestamp": "2025-01-11T01:50:33.445359+00:00",
"s3_uri": "s3://igvf-files/2024/11/25/c268d72c-dc4e-4d2e-97ea-bd3216a0a0f7/IGVFFI5545DTHI.tsv.gz",
"schema_version": "13",
"status": "released",
"submitted_by": {
"@id": "/users/73f58e9f-8f5d-4fee-a7cd-dd63c0167e4b/",
"title": "Beth Martin"
},
"submitted_file_name": "/net/shendure/vol8/projects/JBL/GEO_scATAC_EB_correction_nobackup/bigwigs/fragments_2a_mm39.tsv.gz",
"summary": "fragments",
"upload_status": "validated",
"uuid": "c268d72c-dc4e-4d2e-97ea-bd3216a0a0f7",
"workflow": {
"@id": "/workflows/IGVFWF7196TNJP/",
"name": "Shendure scATAC-seq Pipeline",
"uniform_pipeline": false
}
}