{
"@context": "/terms/",
"@id": "/curated-sets/IGVFDS8793NHEL/",
"@type": [
"CuratedSet",
"FileSet",
"Item"
],
"accession": "IGVFDS8793NHEL",
"aliases": [
"igvf:igvf_catalog_beta_v0.1_encode_mpra"
],
"assemblies": [
"GRCh38"
],
"audit": {
"WARNING": [
{
"category": "missing dbxrefs",
"detail": "Reference file [IGVFFI3973KCMA](/reference-files/IGVFFI3973KCMA/) is an external file, but does not have identifier(s) from an external resource listed in `dbxrefs`. Reference files uploaded from external resources are expected to have external identifiers in dbxrefs.",
"level": 40,
"level_name": "WARNING",
"name": "audit_external_reference_files",
"path": "/reference-files/IGVFFI3973KCMA/"
},
{
"category": "upload status not validated",
"detail": "Reference file [IGVFFI3973KCMA](/reference-files/IGVFFI3973KCMA/) has `upload_status` invalidated. Validation error detail: {\"validate_files\": \"Error [file=/home/ubuntu/igvf-files/2024/05/15/1eafd934-8f07-498d-91b5-b82cb62ad46f/IGVFFI3973KCMA.bed.gz, line=32637]: chrom chr22_KI270879v1_alt not found [chr22_KI270879v1_alt\\t278415\\t278615\\tHepG2_DNasePeakNoPromoter39560\\t543\\t+\\t1.519\\t0.087\\t0.248\\t-1\\t-1]\\nAborting ... found error.\"}. External files are expected to be validated.",
"level": 40,
"level_name": "WARNING",
"name": "audit_upload_status",
"path": "/reference-files/IGVFFI3973KCMA/"
},
{
"category": "missing dbxrefs",
"detail": "Reference file [IGVFFI4245JZEQ](/reference-files/IGVFFI4245JZEQ/) is an external file, but does not have identifier(s) from an external resource listed in `dbxrefs`. Reference files uploaded from external resources are expected to have external identifiers in dbxrefs.",
"level": 40,
"level_name": "WARNING",
"name": "audit_external_reference_files",
"path": "/reference-files/IGVFFI4245JZEQ/"
},
{
"category": "upload status not validated",
"detail": "Reference file [IGVFFI4245JZEQ](/reference-files/IGVFFI4245JZEQ/) has `upload_status` invalidated. Validation error detail: {\"validate_files\": \"Error [file=/home/ubuntu/igvf-files/2024/05/15/2bddf465-0da5-456d-a052-4b874fc44c1e/IGVFFI4245JZEQ.bed.gz, line=32637]: chrom chr22_KI270879v1_alt not found [chr22_KI270879v1_alt\\t278415\\t278615\\tHepG2_DNasePeakNoPromoter39560\\t462\\t+\\t0.964\\t0.095\\t0.186\\t-1\\t-1]\\nAborting ... found error.\"}. External files are expected to be validated.",
"level": 40,
"level_name": "WARNING",
"name": "audit_upload_status",
"path": "/reference-files/IGVFFI4245JZEQ/"
},
{
"category": "missing dbxrefs",
"detail": "Reference file [IGVFFI2957SSHD](/reference-files/IGVFFI2957SSHD/) is an external file, but does not have identifier(s) from an external resource listed in `dbxrefs`. Reference files uploaded from external resources are expected to have external identifiers in dbxrefs.",
"level": 40,
"level_name": "WARNING",
"name": "audit_external_reference_files",
"path": "/reference-files/IGVFFI2957SSHD/"
},
{
"category": "upload status not validated",
"detail": "Reference file [IGVFFI2957SSHD](/reference-files/IGVFFI2957SSHD/) has `upload_status` invalidated. Validation error detail: {\"validate_files\": \"Error [file=/home/ubuntu/igvf-files/2024/05/15/2c872464-d47e-4565-b7d5-fb4145fe7f5b/IGVFFI2957SSHD.bed.gz, line=32637]: chrom chr22_KI270879v1_alt not found [chr22_KI270879v1_alt\\t278415\\t278615\\tHepG2_DNasePeakNoPromoter39560\\t612\\t+\\t2.193\\t0.09\\t0.413\\t-1\\t-1]\\nAborting ... found error.\"}. External files are expected to be validated.",
"level": 40,
"level_name": "WARNING",
"name": "audit_upload_status",
"path": "/reference-files/IGVFFI2957SSHD/"
}
]
},
"award": {
"@id": "/awards/ENCODE/",
"title": "ENCODE"
},
"collections": [
"IGVF_catalog_beta_v0.3",
"IGVF_catalog_beta_v0.2",
"ENCODE"
],
"control_for": [],
"creation_timestamp": "2024-04-02T21:12:16.691152+00:00",
"description": "MPRA tested regulatory elements",
"file_set_type": "external data for catalog",
"files": [
{
"@id": "/reference-files/IGVFFI4245JZEQ/",
"accession": "IGVFFI4245JZEQ",
"aliases": [
"igvf:ENCFF475FKV"
],
"assembly": "GRCh38",
"content_type": "regulatory_regions",
"creation_timestamp": "2024-05-15T19:50:24.644861+00:00",
"file_format": "bed",
"file_size": 1085644,
"href": "/reference-files/IGVFFI4245JZEQ/@@download/IGVFFI4245JZEQ.bed.gz",
"s3_uri": "s3://igvf-files/2024/05/15/2bddf465-0da5-456d-a052-4b874fc44c1e/IGVFFI4245JZEQ.bed.gz",
"submitted_file_name": "ENCFF475FKV.bed.gz",
"upload_status": "invalidated"
},
{
"@id": "/reference-files/IGVFFI2957SSHD/",
"accession": "IGVFFI2957SSHD",
"aliases": [
"igvf:ENCFF769REH"
],
"assembly": "GRCh38",
"content_type": "regulatory_regions",
"creation_timestamp": "2024-05-15T19:50:33.190693+00:00",
"file_format": "bed",
"file_size": 1088965,
"href": "/reference-files/IGVFFI2957SSHD/@@download/IGVFFI2957SSHD.bed.gz",
"s3_uri": "s3://igvf-files/2024/05/15/2c872464-d47e-4565-b7d5-fb4145fe7f5b/IGVFFI2957SSHD.bed.gz",
"submitted_file_name": "ENCFF769REH.bed.gz",
"upload_status": "invalidated"
},
{
"@id": "/reference-files/IGVFFI3973KCMA/",
"accession": "IGVFFI3973KCMA",
"aliases": [
"igvf:ENCFF802FUV"
],
"assembly": "GRCh38",
"content_type": "regulatory_regions",
"creation_timestamp": "2024-05-15T19:50:28.996544+00:00",
"file_format": "bed",
"file_size": 1085246,
"href": "/reference-files/IGVFFI3973KCMA/@@download/IGVFFI3973KCMA.bed.gz",
"s3_uri": "s3://igvf-files/2024/05/15/1eafd934-8f07-498d-91b5-b82cb62ad46f/IGVFFI3973KCMA.bed.gz",
"submitted_file_name": "ENCFF802FUV.bed.gz",
"upload_status": "invalidated"
}
],
"input_for": [],
"lab": {
"@id": "/labs/encode/",
"title": "ENCODE Project, NHGRI"
},
"notes": "https://igvf.atlassian.net/browse/DSERV-93, https://igvf.atlassian.net/browse/WRN-512. This file set was moved from the Cherry lab and award to a community lab and award.",
"release_timestamp": "2024-07-12T06:44:16.899058+00:00",
"schema_version": "8",
"status": "released",
"submitted_by": {
"@id": "/users/6bae687f-b77a-46b9-af0e-a02c135cf42e/",
"title": "Meenakshi Kagda"
},
"submitted_files_timestamp": "2024-05-15T19:50:24.644861+00:00",
"summary": "Homo sapiens GRCh38 external data for catalog",
"taxa": "Homo sapiens",
"url": "https://www.encodeproject.org/search/?type=FunctionalCharacterizationExperiment&accession=ENCSR405QCT&accession=ENCSR203UFY&accession=ENCSR336MKI",
"uuid": "db63a466-ff76-4688-ac06-7670178bf97f"
}