{
"@context": "/terms/",
"@id": "/tissues/IGVFSM3939SHHK/",
"@type": [
"Tissue",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM3939SHHK",
"age": "15-25",
"age_units": "month",
"audit": {
"ERROR": [
{
"category": "unexpected CCF ID",
"detail": "Tissue [IGVFSM3939SHHK](/tissues/IGVFSM3939SHHK/) has a `ccf_id` but is associated with a non-human donor. Non-human tissues are not expected to specify a common coordinate framework identifier (CCF ID).",
"level": 60,
"level_name": "ERROR",
"name": "audit_tissue_ccf_id",
"path": "/tissues/IGVFSM3939SHHK/"
}
],
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Archived tissue [IGVFSM3939SHHK](/tissues/IGVFSM3939SHHK/) has in progress subobject document [d8ce793f-933b-45ea-9611-1c3f80cb7e11](/documents/d8ce793f-933b-45ea-9611-1c3f80cb7e11/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/tissues/IGVFSM3939SHHK/"
},
{
"category": "mismatched status",
"detail": "Archived tissue [IGVFSM3939SHHK](/tissues/IGVFSM3939SHHK/) has in progress subobject treatment [612fd456-886b-412d-b935-c5cac7a1df21](/treatments/612fd456-886b-412d-b935-c5cac7a1df21/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/tissues/IGVFSM3939SHHK/"
},
{
"category": "mismatched status",
"detail": "Archived tissue [IGVFSM3939SHHK](/tissues/IGVFSM3939SHHK/) has in progress subobject phenotype term [MONDO_0015924](/phenotype-terms/MONDO_0015924/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/tissues/IGVFSM3939SHHK/"
}
]
},
"award": {
"@id": "/awards/HG012012/",
"component": "data coordination"
},
"ccf_id": "db06dea9-bba2-e923-4fc7-f67ae567a100",
"cellular_sub_pool": "AT9029",
"classifications": [
"tissue"
],
"collections": [
"ENCODE"
],
"creation_timestamp": "2023-04-25T13:57:50.715613+00:00",
"date_obtained": "2022-12-10",
"description": "Description of a tissue object",
"disease_terms": [
{
"@id": "/phenotype-terms/MONDO_0015924/",
"term_name": "pulmonary arterial hypertension"
}
],
"documents": [
"/documents/d8ce793f-933b-45ea-9611-1c3f80cb7e11/"
],
"donors": [
"/rodent-donors/IGVFDO8570HWEN/"
],
"embryonic": false,
"file_sets": [
{
"@id": "/measurement-sets/IGVFDS1317BKCD/",
"accession": "IGVFDS1317BKCD",
"aliases": [
"lior-pachter:share_seq"
],
"file_set_type": "experimental data",
"lab": {
"title": "Lior Pachter, Caltech"
},
"preferred_assay_title": "SHARE-seq",
"status": "released",
"summary": "SHARE-seq (SHARE-seq)"
},
{
"@id": "/prediction-sets/IGVFDS3565IUJC/",
"accession": "IGVFDS3565IUJC",
"aliases": [
"igvf:prediction_set_2"
],
"file_set_type": "functional effect",
"lab": {
"title": "Alan Boyle, UMich"
},
"status": "in progress",
"summary": "functional effect prediction"
},
{
"@id": "/measurement-sets/IGVFDS5330YIDV/",
"accession": "IGVFDS5330YIDV",
"aliases": [
"igvf:basic_measurement_set"
],
"file_set_type": "experimental data",
"lab": {
"title": "J. Michael Cherry, Stanford"
},
"preferred_assay_title": "SUPERSTARR",
"status": "in progress",
"summary": "SUPERSTARR"
}
],
"institutional_certificates": [],
"lab": {
"@id": "/labs/j-michael-cherry/",
"title": "J. Michael Cherry, Stanford"
},
"lot_id": "309",
"lower_bound_age": 15,
"lower_bound_age_in_hours": 10800,
"multiplexed_in": [],
"notes": "Previous taxa: Mus musculus will now be calculated. This biosample previously specified NIC0003291 as its NIC, but this property has been moved to the institutional certification object. Please submit there instead to specify certification.",
"origin_of": [],
"parts": [],
"pmi": 4,
"pmi_units": "week",
"pooled_in": [
"/tissues/IGVFSM2353PGIB/"
],
"preservation_method": "cryopreservation",
"product_id": "9301-A",
"release_timestamp": "2023-04-26T13:57:50.715613+00:00",
"sample_terms": [
{
"@id": "/sample-terms/UBERON_0002369/",
"term_name": "adrenal gland"
}
],
"schema_version": "21",
"sex": "male",
"sorted_fractions": [],
"sources": [
{
"@id": "/labs/j-michael-cherry/",
"title": "J. Michael Cherry, Stanford"
}
],
"starting_amount": 80000,
"starting_amount_units": "cells",
"status": "archived",
"submitted_by": {
"@id": "/users/5e3038c4-baa5-4589-b3d8-ad2fe634e826/",
"title": "Kalina Andreeva"
},
"submitter_comment": "Comment on Tissue object",
"summary": "adrenal gland tissue (cellular sub pool: AT9029), male, Mus musculus B6XCast (15-25 months) associated with pulmonary arterial hypertension, treated with 10 mM leucine for 6 hours",
"taxa": "Mus musculus",
"treatments": [
{
"@id": "/treatments/612fd456-886b-412d-b935-c5cac7a1df21/",
"depletion": false,
"purpose": "stimulation",
"status": "in progress",
"treatment_term_name": "leucine",
"treatment_type": "chemical"
}
],
"upper_bound_age": 25,
"upper_bound_age_in_hours": 18000,
"url": "https://data.igvf.org",
"uuid": "d8e781b3-3059-4c7b-9915-d5618bf748fc",
"virtual": false
}