Alanine Transaminase, Lab Results
| dc.contributor.advisor | Utidjian, Levon |
| dc.contributor.advisor | Belew, Yodit |
| dc.contributor.author | Marchesani, Nicole |
| dc.contributor.other | PEDSnet Data Coordinating Center |
| dc.contributor.other | United States Food and Drug Administration |
| dc.date.accessioned | 2025-04-17T18:16:15Z |
| dc.date.available | 2024-06-10T19:03:26Z |
| dc.date.created | 2023-04-25 |
| dc.date.updated | 2023-04 |
| dc.description | This lab concept includes blood, serum, and plasma ALT labs. The original code list was generated by searching for all mention of 'alanine' and 'trans' in the concept_name, as well as mentions of 'serum', 'plasma' or 'blood', and limited to the LOINC vocabulary_id. Any mentions of aspartate in the name were filtered out. Body fluid concepts and other serum/blood concepts were added to improve the second version. |
| dc.description.abstract | A concept set indicating that a patient received a laboratory measurement for alanine transaminase. |
| dc.identifier.uri | https://hdl.handle.net/20.500.14642/563.2 |
| dc.identifier.uri | https://doi.org/10.24373/pdsp-279.2 |
| dc.provenance | Original concept set developed for Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE) study for alanine transaminase (ALT) labs. It was reused for the study "Natural History of Enteroviral Sepsis Using Real World Data" after slight modifications. |
| dc.publisher | PEDSnet |
| dc.relation.uri | https://atlassian.chop.edu/bitbucket/projects/PRP/repos/nes/browse/code/codeset_exploration.R#269-317 |
| dc.rights | a CC-BY Attribution 4.0 License. |
| dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ |
| dc.subject.mesh | Clinical Laboratory Techniques |
| dc.subject.mesh | Alanine Transaminase |
| dc.subject.mesh | Transaminases |
| dc.subject.mesh | Nitrous Group Transferases |
| dc.subject.other | LOINC |
| dc.title | Alanine Transaminase, Lab Results |
| dspace.entity.type | ConceptSet |
| local.admin.note | https://atlassian.chop.edu/bitbucket/projects/PRP/repos/nes/browse/code/codeset_exploration.R#269-317 |
| local.code.package | ## ALT # Alanine Aminotransferase alt_cids <- c('3015912', '3006923', '3005755', '3027388', '3045928', '3052018', '46235106', '46236949', '37071721', '37040912', '37047736', '37074219', '37054637', '40790133', '4146380', '3000784', '3013721') alt_name <- cdm_tbl('concept') %>% filter(!concept_id %in% alt_cids) %>% filter(domain_id == 'Measurement') %>% filter(vocabulary_id == 'LOINC') %>% mutate(msrt_name = tolower(concept_name)) %>% filter(str_detect(msrt_name, 'alanine aminotransferase')) %>% compute_new('alt_msrt_name') alt_name <- alt_name %>% collect() alt_cids <- c(alt_cids, alt_name$concept_id) alt <- cdm_tbl('concept') %>% filter(concept_id %in% alt_cids) %>% select(concept_id, concept_code, concept_name, vocabulary_id, concept_class_id) %>% collect() alt_source <- cdm_tbl('measurement_labs') %>% filter(!measurement_concept_id %in% alt_cids) %>% mutate(source = tolower(measurement_source_value)) %>% filter(str_detect(source, 'alanine aminotransferase')) %>% compute_new('alt_source') # 3013721 alt <- cdm_tbl('concept') %>% filter(concept_id %in% alt_cids) %>% select(concept_id, concept_code, concept_name, vocabulary_id, concept_class_id) %>% collect() write_csv(alt, 'specs/lab_alt.csv') |
| local.quality.status | Study-Specific |
| local.subject.DataModel | PEDSnet Data Model |
| local.subject.DataModel | PCORnet Data Model |
| local.subject.EvalType | Clinician Reviewed |
| local.variable.name | labs_alt |
| relation.isStudyOfConceptSet | 77b42351-824a-40d5-ab29-e070607cc5aa |
| relation.isStudyOfConceptSet.latestForDiscovery | 77b42351-824a-40d5-ab29-e070607cc5aa |
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