cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.24373/pdsp-65
title: Asthma, SNOMED-only

description: This concept set is inteded to identify patients with a diagnosis of asthma.
description: Developed for The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study for the diagnosis of asthma.
DOI: 10.24373/pdsp-233
title: Ethnicity Valueset (Person)

description: This concept set was developed for the PEDSnet Network Data Quality program to help identify cases where a non-valueset concept was present in the data.
description: This concept set reflects the controlled valueset for ethnicity_concept_id.
DOI: 10.24373/pdsp-176
title: Obesity

description: This concept set is inteded to identify patients with a diagnosis of obesity.
description: E-measures on Quality Safety Benchmarking
DOI: 10.24373/pdsp-56
title: Allergies, Respiratory

description: This concept set is one of a set which was created en masse to evaluate Asthma as part of a study. ICD-10 and ICD-10-CM codes were requested specifically by the study PI and mapped to SNOMED by the developer.
description: Concept set intended to map respiratory allergy diagnoses concepts between SNOMED and ICD codes.
description: This concept set was developed for the study "Neighborhood Greenspace as a Protective Factor Against Childhood Asthma."
DOI: 10.15468/dl.c3mxxg
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Spain, Portugal, Ireland, Guadeloupe, Italy, Greece, United Kingdom of Great Britain and Northern Ireland)",
 "OccurrenceStatus is Present",
 "TaxonKey is Sergia robusta",
 "Year 1970-1997"
 ]
}

 The dataset includes 44 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009954-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.24373/pdsp-109
title: Pediatric Rheumatology Clusters

description: This concept set was developed by a group of pediatric rheumatologists, led by Dr. Pamela Weiss, and one clinical informatician, Levon Utidjian. The group organized SNOMED concepts for diagnoses codes related to pediatric rheumatology with classification into categories of: Autoinflammatory, Connective Tissue Disorders, JIA (juvenile idiopathic arthritis), Labs, Other arthritis, Pain, Uveitis and Vasculitis. There is further sub-classification into clusters. Technical note: this code set is designed for use with the PEDSnet data model. Two additional columns for classification in categories and clusters within categories are included.
description: This concept set was utilized to identify pediatric rheumatology conditions in PEDSnet.
description: Created with Pamela Weiss as part of her BACK-OFF JSpA Study, which focused on recruitment of patients with Juvenile Spondyloarthritis.
DOI: 10.24373/pdsp-394
title: Primary Care, Provider

description: This concept set contains codes intended to identify primary care visits (in combination with the primary care facility concept set). This concept set was generated by restricting the PCORnet CDM value set to providers that are consistent with primary care (e.g., primary care, general practice, or preventative medicine). The value set uses the "Medicare Specialty" vocabulary, though the PEDSnet CDM also uses "ABMS", "NUCC", and "PEDSnet" vocabularies. Note: this concept set could benefit from additional review and validation. A PEDSnet equivalent concept set is linked below, though identification of primary care visits is currently an active area of development for PEDSnet. Visit specialty information alone is unlikely to capture all the required information to identify primary care.
description: Concept set intended to assess the frequency with which patients sought care with specialties involved in patient care for and related to primary care.
description: This concept set was developed for the Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE) study. Primary care visits per person year was summarized for PRESERVE cohorts, however, this was not a high priority variable for the study.
DOI: 10.24373/pdsp-92
title: Pain Interference, PROMIS Measure

description: Two concept sets which inform one another to identify patient reported pain interference. This first concept set, `promis_pain_interference.csv`, was developed to identify the questions that make up the Pain Interference Patient Reported Outcome Measurement Information System (PROMIS) measure. These elements were identified by PCORnet as part of the CDM enhancement efforts for version 7.0. Self reported and parent proxy questions are identified in the concept set to aid in categorizing responses, especially in pediatric cohorts. Only this file in necessary to define a cohort of patients with a PROMIS measure for pain interference. The second concept set, `promis_pain_interference_values.csv`, was developed to identify the ANSWERS (i.e. `value_as_concept_id`) to the questions that make up the Pain Interference Patient Reported Outcome Measurement Information System (PROMIS) measure. These elements were identified by PCORnet as part of the CDM enhancement efforts for version 7.0. They were identified by joining the concept set with the questions to the concept_relationship table and extracting `concept_id_2` where `relationship_id` = ‘Has Answer’.
description: Concept sets intended to identify the presence and responses to the PROMIS measure for pain interference.
DOI: 10.24373/pdsp-22
title: Congenital Anomalies of the Kidneys and Urinary Tracts (CAKUT)

description: This broad condition concept set includes congenital anomalies of the kidneys and urinary tract. Limited to SNOMED, ICD9CM, ICD10,and ICD10CM diagnosis codes. ICD codes are included with and without decimal points, indicated by cc_decimal_removal.
description: This concept set was created to identify patients with a diagnosis of Congenital anomalies of the kidneys and urinary tract (CAKUT).
description: Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE)
DOI: 10.24373/pdsp-402
title: Dermatology, Providers and Care Sites

description: This concept set contains provider and care site specialties for dermatology. It was developed using a string search for "derm" related terms in vocabularies related to specialty. It was developed to assess the frequency with which patients with primary hyperoxaluria (PH) sought care with specialties involved in patient care for and related to PH. Vocabularies in this concept set are ABMS, HES Specialty, Medicare Specialty, and NUCC. Many of the vocabularies in the concept set are not utilized in the PEDSnet CDM to describe provider or care site specialty, but could potentially be present in other networks for distributed queries.
description: Concept set intended to assess the frequency with which patients sought care with specialties involved in patient care for and related to dermatology.
description: This concept set was developed to assess the frequency with which patients with primary hyperoxaluria (PH) were seeking care with specialties involved in patient care for and related to PH as part of a study to Evaluate DCR-PHXC in Children and Adults With Primary Hyperoxaluria Type 1 and Primary Hyperoxaluria Type 2 (PHYOX2).
DOI: 10.24373/pdsp-199
title: Pulmonary Embolism Diagnosis

description: This diagnosis concept set contains diagnosis codes for pulmonary embolism. This codeset was developed by finding the concept_ids for a subset of the AHRQ CCSR clusters (https://hcup-us.ahrq.gov/toolssoftware/ccsr/dxccsr.jsp#overview) related to pulmonary embolism. This concept set alone was not reviewed by a clinician, but it was a component of a larger codeset that was reviewed by Chris Forrest. It was developed as part of systemic conditions for a RECOVER study manuscript exploring features of PASC in children. This diagnosis concept set only contains ICD10 and ICD10CM codes. Versions of each of the codes without a decimal point are not included. This concept set contains additional columns "systemic" and "syndromic" which were used as classification categories for the study to differentiate between conditions (systemic) and symptoms (syndromic) in addition to a "condition_category" which was a further classification mechanism which could be rolled up with other codes. In this concept set, all condition_category are heme. Technical Note: Since this concept set originated from another project outside of PEDSnet and was not created within the OMOP vocabulary, it's advised use is only as a starting point.
description: This concept set is inteded to identify patients with a diagnosis of a pulmonary embolism.
description: The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study
DOI: 10.24373/pdsp-285.2
title: ACE Inhibitor, Drug Exposure

description: This medication concept set includes the following ingredients: Benazepril, Captopril, Enalapril, Fosinopril, Lisinopril, Moexipril, Periondopril, Quinapril,Ramipril, Trandolapril. It also includes combinations of these ingredients with other antihypertensive medications. This concept set, in contrast to its previous version, does NOT contain IV formulations. This code list was generated by taking the descendants of all the ACE inhibitor ingredients of interest and string matching with the concept_name of the ingredient. The broad concept set was intended to identify patients who received ACE inhibitors. It is limited to NDC, RxNorm, and RxNorm Extension codes. Meds were expected to be only oral/enteral/IV, not topical, ophthalmic/ocular, or buccal.
description: Concept set intended to identify patients with an ACE inhibitor medication exposure.
description: Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE)
DOI: 10.24373/pdsp-72
title: COVID-19

description: This concept set is inteded to identify patients with a diagnosis of COVID-19.
description: The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study
DOI: 10.24373/pdsp-247.2
title: C-Reactive Protein, Lab Results

description: The modified concept set includes c-reactive protein tests. It's unclear how the concept set was developed (note that "C reactive protein" was not simply searched under concept_name, as the codeset is more narrowly defined.) This concept set is limited to LOINC and SNOMED codes. This concept set appears to have been used in a RECOVER publication, "Changes in Treatment and Severity of Multisystem Inflammatory Syndrome in Children: An EHR-based cohort study from the RECOVER program." The paper examines changes over the COVID era in abnormal laboratory measurements for patients diagnosed with MIS-C. It's unclear why this concept set was used for this purpose, rather than the original concept set.
description: A concept set indicating that a patient received a laboratory measurement for C-reactive protein.
description: The concept set was likely originally constructed to identify C reactive protein labs for a paper for the Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study.
DOI: 10.24373/pdsp-248
title: Spirometry, Lab Results

description: This concept set was developed to examine FEV/FVC in exploratory analysis of patients with asthma with COVID vs. patients without COVID. This concept set was initially developed for an exploratory analysis, but was not used in a subsequent Y2, Q1 query which further explored asthma, as low sample sizes were observed when identifying patients with pulmonary function testing.
description: A concept set indicating that a patient received a laboratory measurement for spirometry results.
description: The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study
DOI: 10.24373/pdsp-223
title: Alcohol Use Disorder SDOH Measure Responses

description: This concept set was developed to identify the ANSWERS to the questions that make up the Social Determinants of Health (SDOH) metrics for alcohol use disorder (AUD). These include the Alcohol Use Disorder Identification Test - Consumption (AUDIT-C). These elements were identified by PCORnet as part of the CDM enhancement efforts for version 7.0. They were identified by joining the concept set with the questions to the concept_relationship table and extracting concept_id_2 where relationship_id = 'Has Answer'.
description: This concept set is intended to identify the responses to the alcohol use disorder (AUD) SDOH measure(s).
DOI: 10.24373/pdsp-75
title: Esophageal Reflux

description: This concept set is inteded to identify patients with a diagnosis of esophageal reflux.
description: NEST R2: AventaMed - Typmpanostomy Tube Insertion Treatment Episodes: Practice Variation and Outcomes
DOI: 10.24373/pdsp-382
title: General Visits

description: Identification of primary care visits is currently an active area of development for PEDSnet. Visit specialty information alone is unlikely to capture all the required information.
description: Concept set intended to assess the frequency with which patients sought care with specialties involved in patient care for and related to primary care.
description: To aid the National Academies of Science, Engineering and Medicine looking at specialist referrals.
DOI: 10.15468/dl.rrzj7k
title: Occurrence Download

description: A dataset containing 90 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Spain, Portugal, Ireland, Guadeloupe, Italy, Greece, France)",
 "OccurrenceStatus is Present",
 "TaxonKey is Sergia robusta",
 "Year 1950-1997"
 ]
}

 The dataset includes 90 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009955-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.24373/pdsp-18
title: Stomatitis

description: The measurement concept set includes all serum/blood/plasma potassium labs. This code list was generated by searching all mentions of 'potassium' with 'serum', 'plasma' or 'blood' in the concept_name. Limited to the LOINC vocabulary_id. Filtered out terms like urine, fraction, renal, sodium, etc.
description: This concept set is intended to identify patients with a diagnosis of stomatitis.
description: Developed for the Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE) study for diagnoses of stomatitis.
DOI: 10.24373/pdsp-339
title: Intravenous Fluids, Drug Exposure (SCDC)

description: The medication list in this concept set was compiled at the Semantic Clinical Drug Component level of description.
description: Concept set intended to identify patients with an exposure to intravenous fluids.
description: The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study
DOI: 10.24373/pdsp-391
title: Emergency Visits

description: This concept set contains encounter types which are emergency visits in the PCORnet data model. It was created by limiting the PCORnet value set for the ENC_TYPE field in the ENCOUNTER table to emergency department and emergency department to inpatient admissions. This concept set was not reviewed, but it is a generally accepted subset of the PCORnet value sets that does not contain clinical terms. It was created to identify emergency visits in the PCORnet data model.All concepts are expected to appear in the ENC_TYPE field in the PCORnet CDM ENCOUNTER table.
description: Concept set intended to assess the frequency with which patients sought care at an emergency facility.
description: Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE)
DOI: 10.24373/pdsp-82
title: Severity Class 3, Severe Complications

description: This concept set is inteded to identify patients with a severe complication of Severity Class 3.
description: The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study
DOI: 10.24373/pdsp-181
title: Pain Behavior, PROMIS Measure

description: Two concept sets which inform one another to identify patient reported pain behavior. The first concept set, `promis_pain_behavior.csv`, was developed to identify the questions that make up the Pain Behavior Patient Reported Outcome Measurement Information System (PROMIS) measure. These elements were identified by PCORnet as part of the CDM enhancement efforts for version 7.0. Self reported and parent proxy questions are identified in the concept set to aid in categorizing responses, especially in pediatric cohorts. Only this file is necessary to define a cohort of patients with a PROMIS measure for pain behavior. The second concept set, `promis_pain_behavior_values.csv`, was developed to identify the ANSWERS (i.e. `value_as_concept_id`) to the questions that make up the Pain Behavior Patient Reported Outcome Measurement Information System (PROMIS) measure. These elements were identified by PCORnet as part of the CDM enhancement efforts for version 7.0. They were identified by joining the concept set with the questions to the concept_relationship table and extracting `concept_id_2` where `relationship_id` = ‘Has Answer’.
description: Concept sets intended to identify the presence and responses to the PROMIS measure for pain behavior.
description: This concept set was developed in support of quarterly network data quality analysis of the PEDSnet database.
DOI: 10.24373/pdsp-35
title: Death Date Imputation Valueset

description: This concept set was developed for the PEDSnet Network Data Quality program to help identify cases where a non-valueset concept was present in the data.
description: This concept set reflects the controlled valueset for death_impute_concept_id.
DOI: 10.24373/pdsp-220
title: Food Insecurity, SDOH Measure

description: This concept set was developed to identify the questions that make up the Social Determinants of Health (SDOH) metrics for food insecurity. These includes the U.S. Food Security Survey. These elements were identified by PCORnet as part of the CDM enhancement efforts for version 7.0.
description: This concept set is intended to identify the SDOH measure(s) for food insecurity.
DOI: 10.24373/pdsp-290
title: Injectable Antifungal, Drug Exposure

description: This codeset was created by searching for medication names provided by the study team. This broad concept set was developed at the SCDG drug levels and descendants were grabbed when running the code for the study.
description: The concept set was used to identify patients who had record of injectable antifungal medications.
description: Developed for Neonatal Enteroviral Sepsis (NES) study to locate injectable antifungal medications for neonates/infants.
DOI: 10.24373/pdsp-21
title: Allergies, Food

description: This concept set is one of a set which was created en masse to evaluate Asthma as part of a study. ICD-10 and ICD-10-CM codes were requested specifically by the study PI and mapped to SNOMED by the developer.
description: Concept set intended to map food allergy diagnoses concepts between SNOMED and ICD codes.
description: This concept set was developed for the study "Neighborhood Greenspace as a Protective Factor Against Childhood Asthma."
DOI: 10.24373/pdsp-40
title: Chronic Kidney Disease, All Stages

description: This condition concept set includes all CKD-related conditions. This code list was generated by taking all descendants of the SNOMED code 709044004 for Chronic kidney disease, related ICD9/10/10CM codes, and searching all mentions of 'chronic kidney disease' and 'chronic renal disease' in the concept_name. This concept set is limited to ICD9, ICD10, ICD10CM, and SNOMED diagnosis codes. ICD codes are included with and without decimal points, indicated by cc_decimal_removal.
description: This concept set is inteded to identify patients with a diagnosis of any stage of Chronic Kidney Disease.
description: Developed for the RECOVER study to identify patients all CKD stages.
DOI: 10.24373/pdsp-376
title: Mechanical Ventilation

description: Concept set intended to identify patients having undergone a ventilatory support (NIV/IV) procedure.
description: - Original concept set was developed as part of the "The Researching COVID to Enhance Recovery (RECOVER) Post-Acute Sequelae of SARS-CoV-2 (PASC) Electronic Health Record (EHR) Cohort Study."
description: - Concept set reused without modification for "Natural History of Enteroviral Sepsis Using Real World Data."
DOI: 10.24373/pdsp-367
title: Ambulatory Blood Pressure Monitoring

description: This concept set contains codes to identify whether a patient underwent to Ambulatory Blood Pressure Monitoring (ABPM). It was provided by PRESERVE Ambulatory Blood Pressure Monitoring (ABPM) workgroup. Members include Levon Utidjian (clinician/informaticist), Joseph Flynn (clinician) and Ben Laskin (clinician). Although not designed to validate the concept set, PRESERVE chart reviews indicated discordance between ABPM procedure codes and available ABPM measurement data in a patient's chart. There were patients with ABPM data available in chart review but no ABPM procedure codes in the database, as well as patients with ABPM procedure codes in the database but no ABPM data available from chart review. Further exploration would be necessary to better understand the validity of this concept set. This concept set is restricted to four CPT-4 codes provided by the ABPM workgroup.
description: Concept set intended to identify patients having undergone an ambulatory blood pressure monitoring procedure within a cohort of patients meeting criteria for mild-to-moderate Chronic Kidney Disease.
description: This concept set was developed for the Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE) study. This codeset was used to enrich PRESERVE chart reviews with patients who underwent ABPM.
DOI: 10.24373/pdsp-203
title: Hypotension

description: This condition concept set includes all hypotension-related conditions. This code list was generated by taking all descendants of the SNOMED code 45007003 for hypotension, related ICD9/10/10CM codes, and searching all mentions of 'hypotension' or 'hypotensive' in the concept_name. ICD codes are included with and without decimal points, indicated by cc_decimal_removal. Diagnosis with terms like 'cranial,' 'pulmonary,' 'screening,' etc. were not included. Note: This codeset can be improved by removing maternal hypotension and history of hypotension.
description: This concept set is intended to identify patients with a diagnosis of hypotension.
description: Developed for the Preserving Kidney Function in Children with Chronic Kidney Disease (PRESERVE) study for diagnoses of hypotension.
DOI: 10.24373/pdsp-185
title: Obstructive Sleep Apnea

description: The concept set was generated by searching for terms obstructive sleep apnea in the vocabulary table. Face validity was verified with looking at the expected frequency of qualified patients as well as manual chart review on a small subset of patients.
description: Concept set intended to identify patients with obstructive sleep apnea.
description: This concept set was used for Impact of the 2014 NHLBI Guidelines on Cerebrovascular Events in Sickle Cell Disease to indentify sickle cell patients with occurrence on obstructive sleep apnea.
DOI: 10.24373/pdsp-200.2
title: Sepsis

description: This concept set is inteded to identify patients with a diagnosis of sepsis.
description: Original concept set was developed for a RECOVER query. It was reused for the study "Natural History of Enteroviral Sepsis Using Real World Data" after slight modifications.