PKBDS4560HGQV
{
"@context": "/terms/",
"@id": "/measurement-sets/PKBDS4560HGQV/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "PKBDS4560HGQV",
"aliases": [
"pankbase-consortium:FunctionalData_MeasurementSet_RRIDSAMN28088752"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003778/",
"term_name": "an analyte assay that measures the abundance of a hormone"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released measurement set [PKBDS4560HGQV](/measurement-sets/PKBDS4560HGQV/) has in progress subobject assay term [OBI_0003778](/assay-terms/OBI_0003778/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/measurement-sets/PKBDS4560HGQV/"
}
],
"NOT_COMPLIANT": [
{
"category": "missing nih certification",
"detail": "Measurement set [PKBDS4560HGQV](/measurement-sets/PKBDS4560HGQV/) has a sample [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) that lacks any `institutional_certificates` issued to the lab that submitted this file set. Measurement sets for mapping assays involving samples with a human origin are expected to link to the relevant institutional certificates issued to a matching lab and award.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_missing_institutional_certification",
"path": "/measurement-sets/PKBDS4560HGQV/"
},
{
"category": "missing protocol",
"detail": "Measurement set [PKBDS4560HGQV](/measurement-sets/PKBDS4560HGQV/) has no `protocols`. Measurement sets are expected to specify the experimental protocol utilized for conducting the assay on protocols.io.",
"level": 50,
"level_name": "NOT_COMPLIANT",
"name": "audit_unspecified_protocol",
"path": "/measurement-sets/PKBDS4560HGQV/"
}
],
"WARNING": [
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) is missing tier 2 field `organ_source`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_desired_fields",
"path": "/primary-islet/PKBSM3838VVFY/"
},
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) is missing tier 2 field `prep_viability`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_desired_fields",
"path": "/primary-islet/PKBSM3838VVFY/"
},
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) is missing tier 2 field `warm_ischaemia_duration`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_desired_fields",
"path": "/primary-islet/PKBSM3838VVFY/"
},
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) is missing tier 2 field `purity`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_desired_fields",
"path": "/primary-islet/PKBSM3838VVFY/"
},
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) is missing tier 2 field `pre_shipment_culture_time`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_desired_fields",
"path": "/primary-islet/PKBSM3838VVFY/"
},
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBSM3838VVFY](/primary-islet/PKBSM3838VVFY/) is missing tier 2 field `islet_function_available`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_desired_fields",
"path": "/primary-islet/PKBSM3838VVFY/"
},
{
"category": "missing files",
"detail": "Measurement set [PKBDS4560HGQV](/measurement-sets/PKBDS4560HGQV/) has no `files`. File sets are expected to have files.",
"level": 40,
"level_name": "WARNING",
"name": "audit_no_files",
"path": "/measurement-sets/PKBDS4560HGQV/"
},
{
"category": "missing tier 1 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 1 field `sex`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier1_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 2 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 2 field `glucose_loweing_theraphy`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier2_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 3 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 3 field `phenotypic_features`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier3_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 3 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 3 field `family_history_of_diabetes_relationship`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier3_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 3 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 3 field `diabetes_duration`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier3_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 3 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 3 field `other_therapy`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier3_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 3 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 3 field `documents`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier3_fields",
"path": "/human-donors/PKBDO1253VULF/"
},
{
"category": "missing tier 3 field",
"detail": "Human donor [PKBDO1253VULF](/human-donors/PKBDO1253VULF/) is missing tier 3 field `related_donors`.",
"level": 40,
"level_name": "WARNING",
"name": "audit_tier3_fields",
"path": "/human-donors/PKBDO1253VULF/"
}
]
},
"award": {
"@id": "/awards/UC4DK112217/",
"contact_pi": {
"@id": "/users/e1c8c91f-3952-45a9-9f56-442627f60c13/",
"title": "Klaus Kaestner"
},
"title": "PENN INTEGRATED HUMAN PANCREAS PROCUREMENT AND ANALYSIS PROGRAM"
},
"base_media": "5.6 mM",
"control_for": [],
"creation_timestamp": "2026-05-21T01:05:14.822886+00:00",
"description": "Dynamic islet perifusion assay for human donor RRID:SAMN28088752",
"donors": [
{
"@id": "/human-donors/PKBDO1253VULF/",
"accession": "PKBDO1253VULF",
"aliases": [
"klaus-kaestner:HPAP-114"
],
"gender": "Female",
"status": "released",
"taxa": "Homo sapiens"
}
],
"file_set_type": "experimental data",
"files": [],
"fraction_collection_time": "3",
"hormone_assays": [
"Insulin",
"Glucagon"
],
"input_file_set_for": [
"/analysis-sets/PKBDS8178DSHK/"
],
"islet_diameter": 172.85,
"islet_endocrine_composition": "beta:59%;alpha:31%;delta:10%",
"islet_purification_method": "Hand-picked",
"islet_purity_for_assay": 100,
"islets_shipped": true,
"lab": {
"@id": "/labs/klaus-kaestner/"
},
"perifusion_flow_rate": "1",
"perifusion_fraction_volume": "3",
"perifusion_protocol": "https://www.protocols.io/view/analysis-of-islet-function-in-dynamic-cell-perifus-eq2ly4nxrlx9/v1",
"release_timestamp": "2026-05-21T18:59:07.093524+00:00",
"samples": [
{
"@id": "/primary-islet/PKBSM3838VVFY/",
"@type": [
"PrimaryIslet",
"Biosample",
"Sample",
"Item"
],
"accession": "PKBSM3838VVFY",
"aliases": [
"pankbase-consortium:postShipmentBiosample_RRIDSAMN28088752"
],
"sample_terms": [
{
"@id": "/sample-terms/UBERON_0000006/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"kyle-gaulton:sample_isletofLangerhans"
],
"status": "released",
"summary": "islet of Langerhans",
"term_name": "islet of Langerhans"
}
],
"status": "released",
"summary": "islet of Langerhans cell, Female, Homo sapiens"
}
],
"schema_version": "17",
"status": "released",
"stimuli_secretagogues": "16.7 mM glucose;16.7 mM glucose + 100 μM IBMX;1.7mM glucose + 1 μM Epinephrine;5.6 mM glucose + 20 mM KCl",
"submitted_by": {
"@id": "/users/5e3038c4-baa5-4589-b3d8-ad2fe634e826/",
"title": "Ying Sun"
},
"total_islets_for_assay": 117,
"uuid": "925af05c-1d02-4053-b0e1-cf33bcd1f17f"
}
Supported by National Institutes of Health (NIH) grants U24 DK138515, U24 DK138512
Supplemental funds from the NIH Office of Data Science Strategies
Supplemental funds from the NIH Office of Data Science Strategies
