{
"@context": "/terms/",
"@id": "/tabular-files/IGVFFI0595ICZF/",
"@type": [
"TabularFile",
"File",
"Item"
],
"accession": "IGVFFI0595ICZF",
"aliases": [
"ansuman-satpathy:igvf3_peaks_10x1"
],
"analysis_step_version": "/analysis-step-versions/699d6738-4033-4afc-b6f3-1d82a80e0b41/",
"assay_titles": [
"10x multiome with MULTI-seq"
],
"assembly": "GRCh38",
"audit": {},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization"
},
"barcode_map_for": [],
"checkfiles_version": "v14",
"content_md5sum": "10d8324f83bf9e10b1bda6782e4e5fff",
"content_type": "peaks",
"controlled_access": false,
"creation_timestamp": "2025-01-28T05:50:48.160883+00:00",
"derived_from": [
"/tabular-files/IGVFFI5547HSOB/"
],
"file_format": "bed",
"file_format_specifications": [
"/documents/07404908-2ed4-4286-8345-97e0fc205b36/"
],
"file_format_type": "bed3",
"file_set": {
"@id": "/analysis-sets/IGVFDS9170BNTS/",
"accession": "IGVFDS9170BNTS",
"file_set_type": "intermediate analysis",
"samples": [
{
"@id": "/multiplexed-samples/IGVFSM8818QZOF/",
"accession": "IGVFSM8818QZOF",
"classifications": [
"cell line",
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001187/",
"status": "released",
"term_name": "HepG2"
},
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
},
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples",
"taxa": "Homo sapiens",
"treatments": []
},
{
"@id": "/multiplexed-samples/IGVFSM7454SJSO/",
"accession": "IGVFSM7454SJSO",
"classifications": [
"cell line",
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001187/",
"status": "released",
"term_name": "HepG2"
},
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
},
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples",
"taxa": "Homo sapiens",
"treatments": []
},
{
"@id": "/multiplexed-samples/IGVFSM8265VEJP/",
"accession": "IGVFSM8265VEJP",
"classifications": [
"cell line",
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001187/",
"status": "released",
"term_name": "HepG2"
},
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
},
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples",
"taxa": "Homo sapiens",
"treatments": []
},
{
"@id": "/multiplexed-samples/IGVFSM4259POAT/",
"accession": "IGVFSM4259POAT",
"classifications": [
"cell line",
"differentiated cell specimen",
"multiplexed sample"
],
"disease_terms": [],
"modifications": [],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001187/",
"status": "released",
"term_name": "HepG2"
},
{
"@id": "/sample-terms/EFO_0003045/",
"status": "released",
"term_name": "H9"
},
{
"@id": "/sample-terms/EFO_0009747/",
"status": "released",
"term_name": "GM25256 (WTC-11)"
}
],
"status": "released",
"summary": "multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples",
"taxa": "Homo sapiens",
"treatments": []
}
],
"status": "released",
"summary": "10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix"
},
"file_size": 1992668,
"gene_list_for": [],
"href": "/tabular-files/IGVFFI0595ICZF/@@download/IGVFFI0595ICZF.bed.gz",
"input_file_for": [],
"integrated_in": [],
"lab": {
"@id": "/labs/ansuman-satpathy/",
"title": "Ansuman Satpathy, Stanford"
},
"loci_list_for": [],
"md5sum": "6766bc571e3d73c30aa599827d059a98",
"quality_metrics": [],
"release_timestamp": "2025-03-07T06:04:18.412400+00:00",
"s3_uri": "s3://igvf-files/2025/01/28/d48e3a7c-7532-47e1-8988-27adf42d7662/IGVFFI0595ICZF.bed.gz",
"schema_version": "13",
"status": "released",
"submitted_by": {
"@id": "/users/353655bc-31a1-4cd9-bac3-c7d34faf722f/",
"title": "Christopher Mcginnis"
},
"submitted_file_name": "/oak/stanford/groups/satpathy/users/backup/cmcg/analysis_sets/igvf3/e3l1_peaks.bed",
"summary": "GRCh38 peaks",
"upload_status": "validation exempted",
"uuid": "d48e3a7c-7532-47e1-8988-27adf42d7662",
"validation_error_detail": "{\"md5sum\": \"original md5sum 10d8324f83bf9e10b1bda6782e4e5fff does not match newly calculated md5sum 6766bc571e3d73c30aa599827d059a98.\", \"validate_files\": \"Error [file=/home/ubuntu/igvf-files/2025/01/28/d48e3a7c-7532-47e1-8988-27adf42d7662/IGVFFI0595ICZF.bed.gz, line=241379]: chrom KI270728.1 not found [KI270728.1\\t232282\\t233179]\\nAborting ... found error.\"}",
"workflow": {
"@id": "/workflows/IGVFWF1453HVEC/",
"name": "Satpathy Cell Ranger",
"uniform_pipeline": false
}
}