From bfbcd9043a16060bfd3a69273e2fafd50fe2d77d Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Tue, 2 May 2023 12:02:31 -0400 Subject: [PATCH 1/8] Added scripts for downloading dbGaP files. --- data/bdc_dbgap_download.sh | 12 +++ data/bdc_dbgap_ids.csv | 154 +++++++++++++++++++++++++++++++++++++ 2 files changed, 166 insertions(+) create mode 100644 data/bdc_dbgap_download.sh create mode 100644 data/bdc_dbgap_ids.csv diff --git a/data/bdc_dbgap_download.sh b/data/bdc_dbgap_download.sh new file mode 100644 index 00000000..466213f4 --- /dev/null +++ b/data/bdc_dbgap_download.sh @@ -0,0 +1,12 @@ +#!/bin/bash +# +# Download the data dictionaries from dbGaP as listed in bdc_dbgap_ids.csv +# into the bdc_dbgap/ directory. +# + +CSV_FILE=bdc_dbgap_ids.csv +OUTPUT_DIR=bdc_dbgap_data_dicts +SCRIPT=../bin/get_dbgap_data_dicts.py + +mkdir -p $OUTPUT_DIR +python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR diff --git a/data/bdc_dbgap_ids.csv b/data/bdc_dbgap_ids.csv new file mode 100644 index 00000000..25de120d --- /dev/null +++ b/data/bdc_dbgap_ids.csv @@ -0,0 +1,154 @@ +Accession,Consent,Study Name,Last modified +phs000007.v31.p12,c1,Framingham Cohort,2023-03-27 +phs000007.v31.p12,c2,Framingham Cohort,2023-03-27 +phs000166.v2.p1,c1,"National Heart, Lung, and Blood Institute SNP Health Association Asthma Resource Project (SHARP)",2023-03-27 +phs000179.v6.p2,c1,"Genetic Epidemiology of COPD (COPDGene) Funded by the National Heart, Lung, and Blood Institute",2023-03-27 +phs000179.v6.p2,c2,"Genetic Epidemiology of COPD (COPDGene) Funded by the National Heart, Lung, and Blood Institute",2023-03-27 +phs000200.v12.p3,c1,Women's Health Initiative Clinical Trial and Observational Study,2023-03-27 +phs000200.v12.p3,c2,Women's Health Initiative Clinical Trial and Observational Study,2023-03-27 +phs000209.v13.p3,c1,Multi-Ethnic Study of Atherosclerosis (MESA) Cohort,2023-03-27 +phs000209.v13.p3,c2,Multi-Ethnic Study of Atherosclerosis (MESA) Cohort,2023-03-27 +phs000284.v2.p1,c1,NHLBI Cleveland Family Study (CFS) Candidate Gene Association Resource (CARe),2023-03-27 +phs000285.v3.p2,c1,Coronary Artery Risk Development in Young Adults (CARDIA) Study - Cohort,2023-03-27 +phs000285.v3.p2,c2,Coronary Artery Risk Development in Young Adults (CARDIA) Study - Cohort,2023-03-27 +phs000286.v6.p2,c1,Jackson Heart Study (JHS) Cohort,2023-03-27 +phs000286.v6.p2,c2,Jackson Heart Study (JHS) Cohort,2023-03-27 +phs000286.v6.p2,c3,Jackson Heart Study (JHS) Cohort,2023-03-27 +phs000286.v6.p2,c4,Jackson Heart Study (JHS) Cohort,2023-03-27 +phs000287.v7.p1,c1,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 +phs000287.v7.p1,c2,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 +phs000287.v7.p1,c3,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 +phs000287.v7.p1,c4,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 +phs000289.v2.p1,c1,National Human Genome Research Institute (NHGRI) GENEVA Genome-Wide Association Study of Venous Thrombosis (GWAS of VTE),2023-03-27 +phs000422.v1.p1,c1,NHLBI GO-ESP: Lung Cohorts Exome Sequencing Project (Asthma): Genetic variants affecting susceptibility and severity,2023-03-27 +phs000571.v6.p2,c1,Congenital Heart Disease Genetic Network Study,2023-03-27 +phs000703.v1.p1,c1,CATHeterization GENetics (CATHGEN),2023-03-27 +phs000784.v3.p1,c1,Genetic Epidemiology Network of Salt Sensitivity (GenSalt),2023-03-27 +phs000810.v1.p1,c1,Hispanic Community Health Study /Study of Latinos (HCHS/SOL),2023-03-27 +phs000810.v1.p1,c2,Hispanic Community Health Study /Study of Latinos (HCHS/SOL),2023-03-27 +phs000820.v1.p1,c1,The Cleveland Clinic Foundation's Lone Atrial Fibrillation GWAS Study,2023-03-27 +phs000914.v1.p1,c1,Genome-Wide Association Study of Adiposity in Samoans,2023-03-27 +phs000920.v4.p2,c2,NHLBI TOPMed - NHGRI CCDG: Genes-Environments and Admixture in Latino Asthmatics (GALA II),2023-03-27 +phs000921.v4.p1,c2,"NHLBI TOPMed: Study of African Americans, Asthma, Genes and Environment (SAGE)",2023-03-27 +phs000946.v4.p1,c1,NHLBI TOPMed: Boston Early-Onset COPD Study,2023-03-27 +phs000951.v4.p4,c1,NHLBI TOPMed: Genetic Epidemiology of COPD (COPDGene),2023-03-27 +phs000951.v4.p4,c2,NHLBI TOPMed: Genetic Epidemiology of COPD (COPDGene),2023-03-27 +phs000954.v3.p2,c1,NHLBI TOPMed: The Cleveland Family Study (CFS),2023-03-27 +phs000956.v4.p1,c2,NHLBI TOPMed: Genetics of Cardiometabolic Health in the Amish,2023-03-27 +phs000964.v4.p1,c1,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 +phs000964.v4.p1,c2,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 +phs000964.v4.p1,c3,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 +phs000964.v4.p1,c4,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 +phs000972.v4.p1,c1,NHLBI TOPMed: Genome-Wide Association Study of Adiposity in Samoans,2023-03-27 +phs000974.v4.p3,c1,NHLBI TOPMed: Genomic Activities such as Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study,2023-03-27 +phs000974.v4.p3,c2,NHLBI TOPMed: Genomic Activities such as Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study,2023-03-27 +phs000988.v4.p1,c1,NHLBI TOPMed: The Genetic Epidemiology of Asthma in Costa Rica,2023-03-27 +phs000993.v4.p2,c1,NHLBI TOPMed: Heart and Vascular Health Study (HVH),2023-03-27 +phs000993.v4.p2,c2,NHLBI TOPMed: Heart and Vascular Health Study (HVH),2023-03-27 +phs000997.v4.p2,c1,NHLBI TOPMed - NHGRI CCDG: The Vanderbilt AF Ablation Registry,2023-03-27 +phs001001.v1.p1,c1,Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 +phs001001.v1.p1,c2,Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 +phs001012.v1.p1,c1,The Diabetes Heart Study (DHS),2023-03-27 +phs001013.v3.p2,c1,Heart and Vascular Health Study (HVH),2023-03-27 +phs001013.v3.p2,c2,Heart and Vascular Health Study (HVH),2023-03-27 +phs001024.v4.p1,c1,NHLBI TOPMed: Partners HealthCare Biobank,2023-03-27 +phs001032.v5.p2,c1,NHLBI TOPMed: The Vanderbilt Atrial Fibrillation Registry (VU_AF),2023-03-27 +phs001040.v4.p1,c1,NHLBI TOPMed: Novel Risk Factors for the Development of Atrial Fibrillation in Women,2023-03-27 +phs001062.v4.p2,c1,NHLBI TOPMed - NHGRI CCDG: Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 +phs001062.v4.p2,c2,NHLBI TOPMed - NHGRI CCDG: Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 +phs001074.v1.p1,c2,GeneSTAR (Genetic Study of Atherosclerosis Risk) NextGen Consortium: Functional Genomics of Platelet Aggregation Using iPS and Derived Megakaryocytes,2023-03-27 +phs001143.v3.p1,c1,NHLBI TOPMed: The Genetics and Epidemiology of Asthma in Barbados,2023-03-27 +phs001180.v2.p1,c2,Genes-Environments and Admixture in Latino Asthmatics (GALA II) Study,2023-03-27 +phs001189.v3.p1,c1,NHLBI TOPMed: Cleveland Clinic Atrial Fibrillation (CCAF) Study,2023-03-27 +phs001194.v2.p2,c1,"National Heart, Lung, and Blood Institute (NHLBI) Bench to Bassinet Program: The Pediatric Cardiac Genetics Consortium (PCGC) Study",2023-03-27 +phs001194.v2.p2,c2,"National Heart, Lung, and Blood Institute (NHLBI) Bench to Bassinet Program: The Pediatric Cardiac Genetics Consortium (PCGC) Study",2023-03-27 +phs001207.v2.p1,c1,NHLBI TOPMed: African American Sarcoidosis Genetics Resource,2023-03-27 +phs001211.v3.p2,c1,NHLBI TOPMed - NHGRI CCDG: Atherosclerosis Risk in Communities (ARIC),2023-03-27 +phs001211.v3.p2,c2,NHLBI TOPMed - NHGRI CCDG: Atherosclerosis Risk in Communities (ARIC),2023-03-27 +phs001215.v3.p2,c1,NHLBI TOPMed: San Antonio Family Heart Study (SAFHS),2023-03-27 +phs001217.v2.p1,c1,NHLBI TOPMed: Genetic Epidemiology Network of Salt Sensitivity (GenSalt),2023-03-27 +phs001218.v2.p1,c2,NHLBI TOPMed: Genetic Study of Atherosclerosis Risk (GeneSTAR),2023-03-27 +phs001237.v2.p1,c1,NHLBI TOPMed: Women's Health Initiative (WHI),2023-03-27 +phs001237.v2.p1,c2,NHLBI TOPMed: Women's Health Initiative (WHI),2023-03-27 +phs001238.v2.p1,c1,Genetic Epidemiology Network of Arteriopathy (GENOA),2023-03-27 +phs001252.v1.p1,c1,Evaluation of COPD Longitudinally to Identify Predictive Surrogate Endpoints (ECLIPSE),2023-03-27 +phs001293.v2.p1,c1,NHLBI TOPMed: HyperGEN - Genetics of Left Ventricular (LV) Hypertrophy,2023-03-27 +phs001293.v2.p1,c2,NHLBI TOPMed: HyperGEN - Genetics of Left Ventricular (LV) Hypertrophy,2023-03-27 +phs001345.v2.p1,c1,NHLBI TOPMed: Genetic Epidemiology Network of Arteriopathy (GENOA),2023-03-27 +phs001359.v2.p1,c1,NHLBI TOPMed: GOLDN Epigenetic Determinants of Lipid Response to Dietary Fat and Fenofibrate,2023-03-27 +phs001368.v2.p2,c1,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27 +phs001368.v2.p2,c2,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27 +phs001368.v2.p2,c4,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27 +phs001387.v2.p1,c3,NHLBI TOPMed: Rare Variants for Hypertension in Taiwan Chinese (THRV),2023-03-27 +phs001395.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Hispanic Community Health Study/Study of Latinos (HCHS/SOL),2023-03-27 +phs001395.v1.p1,c2,NHLBI TOPMed - NHGRI CCDG: Hispanic Community Health Study/Study of Latinos (HCHS/SOL),2023-03-27 +phs001402.v2.p1,c1,NHLBI TOPMed: Whole Genome Sequencing of Venous Thromboembolism (WGS of VTE),2023-03-27 +phs001412.v2.p1,c1,NHLBI TOPMed: Diabetes Heart Study (DHS) African American Coronary Artery Calcification (AA CAC),2023-03-27 +phs001412.v2.p1,c2,NHLBI TOPMed: Diabetes Heart Study (DHS) African American Coronary Artery Calcification (AA CAC),2023-03-27 +phs001416.v2.p1,c1,NHLBI TOPMed: MESA and MESA Family AA-CAC,2023-03-27 +phs001416.v2.p1,c2,NHLBI TOPMed: MESA and MESA Family AA-CAC,2023-03-27 +phs001434.v1.p1,c1,NHLBI TOPMed: Defining the time-dependent genetic and transcriptomic responses to cardiac injury among patients with arrhythmias,2023-03-27 +phs001435.v1.p1,c1,NHLBI TOPMed: Australian Familial Atrial Fibrillation Study,2023-03-27 +phs001466.v1.p1,c1,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27 +phs001466.v1.p1,c2,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27 +phs001466.v1.p1,c3,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27 +phs001467.v1.p1,c1,NHLBI TOPMed: Study of Asthma Phenotypes and Pharmacogenomic Interactions by Race-Ethnicity (SAPPHIRE),2023-03-27 +phs001468.v2.p1,c1,NHLBI TOPMed: REDS-III Brazil Sickle Cell Disease Cohort (REDS-BSCDC),2023-03-27 +phs001472.v1.p1,c1,NHLBI TOPMed: Evaluation of COPD Longitudinally to Identify Predictive Surrogate Endpoints (ECLIPSE),2023-03-27 +phs001514.v1.p1,c1,NHLBI TOPMed: Walk-PHaSST Sickle Cell Disease (SCD),2023-03-27 +phs001514.v1.p1,c2,NHLBI TOPMed: Walk-PHaSST Sickle Cell Disease (SCD),2023-03-27 +phs001515.v1.p1,c1,NHLBI TOPMed: MyLifeOurFuture (MLOF) Research Repository of patients with hemophilia A (factor VIII deficiency) or hemophilia B (factor IX deficiency),2023-03-27 +phs001542.v1.p1,c2,NHLBI TOPMed: Genetics of Asthma in Latino Americans (GALA),2023-03-27 +phs001543.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: AF Biobank LMU in the context of the MED Biobank LMU,2023-03-27 +phs001544.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Malmo Preventive Project (MPP),2023-03-27 +phs001545.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Intermountain INSPIRE Registry,2023-03-27 +phs001546.v1.p1,c1,NHLBI TOPMed: Determining the association of chromosomal variants with non-PV triggers and ablation-outcome in AF (DECAF),2023-03-27 +phs001547.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The GENetics in Atrial Fibrillation (GENAF) Study,2023-03-27 +phs001598.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The Johns Hopkins University School of Medicine Atrial Fibrillation Genetics Study,2023-03-27 +phs001599.v1.p1,c1,NHLBI TOPMed: Boston-Brazil Sickle Cell Disease (SCD) Cohort,2023-03-27 +phs001600.v2.p2,c1,NHLBI TOPMed - NHGRI CCDG: Early-onset Atrial Fibrillation in the CATHeterization GENetics (CATHGEN) Cohort,2023-03-27 +phs001601.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Penn Medicine BioBank Early Onset Atrial Fibrillation Study,2023-03-27 +phs001602.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Integrative Genetic Approaches to Gene-Air Pollution Interactions in Asthma (GAP),2023-03-27 +phs001603.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Integrative Genomics and Environmental Research of Asthma (IGERA),2023-03-27 +phs001604.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Effects of Air Pollution on the Development of Obesity in Children (Meta-AIR),2023-03-27 +phs001605.v1.p1,c2,NHLBI TOPMed: Chicago Initiative to Raise Asthma Health Equity (CHIRAH),2023-03-27 +phs001606.v1.p1,c1,NHLBI TOPMed: Early-onset Atrial Fibrillation in the Estonian Biobank,2023-03-27 +phs001607.v2.p2,c1,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 +phs001607.v2.p2,c2,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 +phs001607.v2.p2,c3,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 +phs001607.v2.p2,c4,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 +phs001607.v2.p2,c5,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 +phs001608.v1.p1,c1,NHLBI TOPMed: Outcome Modifying Genes in Sickle Cell Disease (OMG),2023-03-27 +phs001612.v1.p1,c1,NHLBI TOPMed: Coronary Artery Risk Development in Young Adults (CARDIA),2023-03-27 +phs001612.v1.p1,c2,NHLBI TOPMed: Coronary Artery Risk Development in Young Adults (CARDIA),2023-03-27 +phs001624.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The Vanderbilt University BioVU Atrial Fibrillation Genetics Study,2023-03-27 +phs001644.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The BioMe Biobank at Mount Sinai,2023-03-27 +phs001661.v2.p1,c1,NHLBI TOPMed: Genetic Causes of Complex Pediatric Disorders - Asthma (GCPD-A),2023-03-27 +phs001662.v1.p1,c2,NHLBI TOPMed: Lung Tissue Research Consortium (LTRC),2023-03-27 +phs001682.v1.p1,c1,NHLBI TOPMed: Pulmonary Hypertension and the Hypoxic Response in SCD (PUSH),2023-03-27 +phs001725.v1.p1,c1,NHLBI TOPMed CCDG: Groningen Genetics of Atrial Fibrillation (GGAF) Study,2023-03-27 +phs001726.v1.p1,c1,NHLBI TOPMed: Childhood Asthma Management Program (CAMP),2023-03-27 +phs001727.v1.p1,c2,NHLBI TOPMed: Pathways to Immunologically Mediated Asthma (PIMA),2023-03-27 +phs001728.v1.p1,c2,NHLBI TOPMed: Best ADd-on Therapy Giving Effective Response (BADGER),2023-03-27 +phs001729.v1.p1,c2,NHLBI TOPMed: Characterizing the Response to a Leukotriene Receptor Antagonist and an Inhaled Corticosteroid (CLIC),2023-03-27 +phs001730.v1.p1,c2,NHLBI TOPMed: Pediatric Asthma Controller Trial (PACT),2023-03-27 +phs001732.v1.p1,c2,NHLBI TOPMed: TReating Children to Prevent EXacerbations of Asthma (TREXA),2023-03-27 +phs001735.v2.p1,c1,NHLBI TOPMed: Pediatric Cardiac Genomics Consortium (PCGC)'s Congenital Heart Disease Biobank,2023-03-27 +phs001735.v2.p1,c2,NHLBI TOPMed: Pediatric Cardiac Genomics Consortium (PCGC)'s Congenital Heart Disease Biobank,2023-03-27 +phs001843.v1.p2,c1,Pediatric Cardiac Genomics Consortium (PCGC) Study - Centers for Mendelian Genomics Collaboration,2023-03-27 +phs001927.v1.p1,c1,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 +phs001927.v1.p1,c2,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 +phs001927.v1.p1,c3,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 +phs001927.v1.p1,c4,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 +phs002348.v1.p1,c1,Multicenter Study of Hydroxyurea (MSH),2023-03-27 +phs002362.v1.p1,c1,Cooperative Study of Sickle Cell Disease (CSSCD),2023-03-27 +phs002383.v1.p1,c1,Treatment of Pulmonary Hypertension and Sickle Cell Disease With Sildenafil Therapy (walk-PHaSST),2023-03-27 +phs002385.v1.p1,c1,Hematopoietic Cell Transplant for Sickle Cell Disease (HCT for SCD),2023-03-27 +phs002386.v1.p1,c1,Optimizing Primary Stroke Prevention in Children with Sickle Cell Anemia (STOP II),2023-03-27 +phs002415.v1.p1,c1,Hydroxyurea to Prevent Organ Damage in Children with Sickle Cell Anemia (BABY HUG),2023-03-27 +phs002715.v1.p1,c1,Cleveland Family Study,2023-03-27 +phs002299.v1.p1,c1,PETAL Network: Outcomes Related to COVID-19 Treated With Hydroxychloroquine Among Inpatients With Symptomatic Disease (ORCHID) Trial,2023-03-27 +phs002363.v1.p1,c1,PETAL - Repository of Electronic Data COVID-19 Observational Study,2023-03-27 +phs002694.v1.p1,c1,Accelerating COVID-19 Therapeutic Interventions and Vaccines 4 ACUTE (ACTIV-4A),2023-03-27 +phs002710.v1.p1,c1,COVID-19 Positive Outpatient Thrombosis Prevention in Adults Aged 40-80,2023-03-27 +phs002752.v1.p1,c1,Clinical-trial of COVID-19 Convalescent Plasma in Outpatients,2023-03-27 \ No newline at end of file From 8853b15adddad32451e139277c086f4580ed5264 Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 11:26:35 -0400 Subject: [PATCH 2/8] Improved error reporting and catching. --- bin/get_dbgap_data_dicts.py | 14 ++++++++++++-- 1 file changed, 12 insertions(+), 2 deletions(-) diff --git a/bin/get_dbgap_data_dicts.py b/bin/get_dbgap_data_dicts.py index f252c784..42f12d0b 100644 --- a/bin/get_dbgap_data_dicts.py +++ b/bin/get_dbgap_data_dicts.py @@ -10,6 +10,7 @@ from ftplib import FTP, error_perm import csv import click +import socket # Default to logging at the INFO level. logging.basicConfig(level=logging.DEBUG) @@ -45,7 +46,7 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): try: files_in_dir = ftp.nlst(study_id_path) except: - logging.error(f"dbGaP study accession identifier not found in dbGaP data: {dbgap_accession_id}") + logging.error(f"dbGaP study accession identifier not found on dbGaP server: {study_id_path}") return 0 logging.warning(f"No data dictionaries available for study {dbgap_accession_id}: {files_in_dir}") @@ -55,7 +56,16 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): for ftp_filename in ftp_filelist: if 'data_dict' in ftp_filename: with open(f"{local_path}/{ftp_filename}", "wb") as data_dict_file: - ftp.retrbinary(f"RETR {ftp_filename}", data_dict_file.write) + logging.debug(f"Downloading {ftp_filename} to {local_path}/{ftp_filename}") + try: + ftp.retrbinary(f"RETR {ftp_filename}", data_dict_file.write) + except error_perm as e: + logging.error(f"FTP error, skipping file {ftp_filename}:", e) + continue + except socket.error as e: + logging.error(f"Socket error, skipping file {ftp_filename}:", e) + continue + logging.debug(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") count_downloaded_vars += 1 From 2f32660b78adc2a534548ff7960e41881af2e91f Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 11:29:27 -0400 Subject: [PATCH 3/8] Improved logging. --- bin/get_dbgap_data_dicts.py | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/bin/get_dbgap_data_dicts.py b/bin/get_dbgap_data_dicts.py index 42f12d0b..bb18ca78 100644 --- a/bin/get_dbgap_data_dicts.py +++ b/bin/get_dbgap_data_dicts.py @@ -13,7 +13,7 @@ import socket # Default to logging at the INFO level. -logging.basicConfig(level=logging.DEBUG) +# logging.basicConfig(level=logging.DEBUG) # Helper function def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): @@ -40,13 +40,14 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): # Step 1: First we try and get all the data_dict files try: ftp.cwd(f"{study_id_path}/pheno_variable_summaries") - except error_perm: + except error_perm as e1: + logging.warning(f"Exception {e1} thrown when trying to access {study_id_path}/pheno_variable_summaries on the dbGaP FTP server.") # Delete subdirectory so we don't think it's full shutil.rmtree(local_path) try: files_in_dir = ftp.nlst(study_id_path) - except: - logging.error(f"dbGaP study accession identifier not found on dbGaP server: {study_id_path}") + except error_perm as e2: + logging.error(f"dbGaP study accession identifier not found on dbGaP server ({e2}): {study_id_path}") return 0 logging.warning(f"No data dictionaries available for study {dbgap_accession_id}: {files_in_dir}") From d1f7adf5e02ce2e752b76f082ec2ebfc77a8edf1 Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 11:34:06 -0400 Subject: [PATCH 4/8] Improved error output. --- bin/get_dbgap_data_dicts.py | 6 +++--- data/bdc_dbgap_download.sh | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/bin/get_dbgap_data_dicts.py b/bin/get_dbgap_data_dicts.py index bb18ca78..f9e78394 100644 --- a/bin/get_dbgap_data_dicts.py +++ b/bin/get_dbgap_data_dicts.py @@ -13,7 +13,7 @@ import socket # Default to logging at the INFO level. -# logging.basicConfig(level=logging.DEBUG) +logging.basicConfig(level=logging.INFO) # Helper function def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): @@ -67,7 +67,7 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): logging.error(f"Socket error, skipping file {ftp_filename}:", e) continue - logging.debug(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") + logging.info(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") count_downloaded_vars += 1 # Step 2: Check to see if there's a GapExchange file in the parent folder @@ -78,7 +78,7 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): if 'GapExchange' in ftp_filename: with open(f"{local_path}/{ftp_filename}", "wb") as data_dict_file: ftp.retrbinary(f"RETR {ftp_filename}", data_dict_file.write) - logging.debug(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") + logging.info(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") ftp.quit() return count_downloaded_vars diff --git a/data/bdc_dbgap_download.sh b/data/bdc_dbgap_download.sh index 466213f4..740d36d9 100644 --- a/data/bdc_dbgap_download.sh +++ b/data/bdc_dbgap_download.sh @@ -9,4 +9,4 @@ OUTPUT_DIR=bdc_dbgap_data_dicts SCRIPT=../bin/get_dbgap_data_dicts.py mkdir -p $OUTPUT_DIR -python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR +python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR 2> $OUTPUT_DIR/errors.txt From 8a2cfdbe30036d685b16a22018a08270a8da5e10 Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 17:35:45 -0400 Subject: [PATCH 5/8] Removed error logging. --- data/bdc_dbgap_download.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/data/bdc_dbgap_download.sh b/data/bdc_dbgap_download.sh index 740d36d9..466213f4 100644 --- a/data/bdc_dbgap_download.sh +++ b/data/bdc_dbgap_download.sh @@ -9,4 +9,4 @@ OUTPUT_DIR=bdc_dbgap_data_dicts SCRIPT=../bin/get_dbgap_data_dicts.py mkdir -p $OUTPUT_DIR -python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR 2> $OUTPUT_DIR/errors.txt +python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR From 870b52f6aeec46452b44e2e7098ebad692c4297e Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 17:43:00 -0400 Subject: [PATCH 6/8] Replaced FTP download with HTTPS download. --- bin/get_dbgap_data_dicts.py | 18 ++++++++++-------- 1 file changed, 10 insertions(+), 8 deletions(-) diff --git a/bin/get_dbgap_data_dicts.py b/bin/get_dbgap_data_dicts.py index f9e78394..536644ed 100644 --- a/bin/get_dbgap_data_dicts.py +++ b/bin/get_dbgap_data_dicts.py @@ -10,7 +10,8 @@ from ftplib import FTP, error_perm import csv import click -import socket +import requests +from urllib.parse import urljoin # Default to logging at the INFO level. logging.basicConfig(level=logging.INFO) @@ -58,15 +59,16 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): if 'data_dict' in ftp_filename: with open(f"{local_path}/{ftp_filename}", "wb") as data_dict_file: logging.debug(f"Downloading {ftp_filename} to {local_path}/{ftp_filename}") - try: - ftp.retrbinary(f"RETR {ftp_filename}", data_dict_file.write) - except error_perm as e: - logging.error(f"FTP error, skipping file {ftp_filename}:", e) - continue - except socket.error as e: - logging.error(f"Socket error, skipping file {ftp_filename}:", e) + + # ftp.retrbinary() seems to cause this program to crash. + # Luckily, dbGaP is also available on HTTP! + filename_url = urljoin("https://ftp.ncbi.nlm.nih.gov/", ftp_filename) + response = requests.get(filename_url) + if not response.ok: + logging.error(f"Could not download {filename_url}: {response}") continue + data_dict_file.write(response.content) logging.info(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") count_downloaded_vars += 1 From 948220ac10e76d5a6bf912a2f48f48102709625c Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 17:51:46 -0400 Subject: [PATCH 7/8] Fixed some downloading issues. --- bin/get_dbgap_data_dicts.py | 6 +++--- data/bdc_dbgap_download.sh | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/bin/get_dbgap_data_dicts.py b/bin/get_dbgap_data_dicts.py index 536644ed..00b42cb5 100644 --- a/bin/get_dbgap_data_dicts.py +++ b/bin/get_dbgap_data_dicts.py @@ -62,14 +62,14 @@ def download_dbgap_study(dbgap_accession_id, dbgap_output_dir): # ftp.retrbinary() seems to cause this program to crash. # Luckily, dbGaP is also available on HTTP! - filename_url = urljoin("https://ftp.ncbi.nlm.nih.gov/", ftp_filename) + filename_url = f"https://ftp.ncbi.nlm.nih.gov/{study_id_path}/pheno_variable_summaries/{ftp_filename}" response = requests.get(filename_url) if not response.ok: logging.error(f"Could not download {filename_url}: {response}") continue data_dict_file.write(response.content) - logging.info(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename}") + logging.info(f"Downloaded {ftp_filename} to {local_path}/{ftp_filename} in {response.elapsed.microseconds} microseconds.") count_downloaded_vars += 1 # Step 2: Check to see if there's a GapExchange file in the parent folder @@ -164,7 +164,7 @@ def get_dbgap_data_dicts(input_file, format, field, outdir, group_by, skip): # TODO: this skip logic was added to deal with phs000285.v3.p2 and phs000007.v32.p13, which doesn't work # for some reason. if dbgap_id in dbgap_ids_to_skip: - logging.info(f"Skipping dbGaP ID {dbgap_id}") + logging.info(f"Skipping dbGaP accession {dbgap_id}") continue dbgap_dir = os.path.join(output_dir_for_row, dbgap_id) diff --git a/data/bdc_dbgap_download.sh b/data/bdc_dbgap_download.sh index 466213f4..68f9d6cf 100644 --- a/data/bdc_dbgap_download.sh +++ b/data/bdc_dbgap_download.sh @@ -9,4 +9,4 @@ OUTPUT_DIR=bdc_dbgap_data_dicts SCRIPT=../bin/get_dbgap_data_dicts.py mkdir -p $OUTPUT_DIR -python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR +python $SCRIPT $CSV_FILE --format CSV --field Accession --outdir $OUTPUT_DIR --skip phs000571.v6.p2 From 83441068e2f1bd97fc9c54e91670f28784c30009 Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Fri, 5 May 2023 17:58:19 -0400 Subject: [PATCH 8/8] Some studies need to be referred to by other studies. --- data/bdc_dbgap_ids.csv | 308 ++++++++++++++++++++--------------------- 1 file changed, 154 insertions(+), 154 deletions(-) diff --git a/data/bdc_dbgap_ids.csv b/data/bdc_dbgap_ids.csv index 25de120d..d8b1fa34 100644 --- a/data/bdc_dbgap_ids.csv +++ b/data/bdc_dbgap_ids.csv @@ -1,154 +1,154 @@ -Accession,Consent,Study Name,Last modified -phs000007.v31.p12,c1,Framingham Cohort,2023-03-27 -phs000007.v31.p12,c2,Framingham Cohort,2023-03-27 -phs000166.v2.p1,c1,"National Heart, Lung, and Blood Institute SNP Health Association Asthma Resource Project (SHARP)",2023-03-27 -phs000179.v6.p2,c1,"Genetic Epidemiology of COPD (COPDGene) Funded by the National Heart, Lung, and Blood Institute",2023-03-27 -phs000179.v6.p2,c2,"Genetic Epidemiology of COPD (COPDGene) Funded by the National Heart, Lung, and Blood Institute",2023-03-27 -phs000200.v12.p3,c1,Women's Health Initiative Clinical Trial and Observational Study,2023-03-27 -phs000200.v12.p3,c2,Women's Health Initiative Clinical Trial and Observational Study,2023-03-27 -phs000209.v13.p3,c1,Multi-Ethnic Study of Atherosclerosis (MESA) Cohort,2023-03-27 -phs000209.v13.p3,c2,Multi-Ethnic Study of Atherosclerosis (MESA) Cohort,2023-03-27 -phs000284.v2.p1,c1,NHLBI Cleveland Family Study (CFS) Candidate Gene Association Resource (CARe),2023-03-27 -phs000285.v3.p2,c1,Coronary Artery Risk Development in Young Adults (CARDIA) Study - Cohort,2023-03-27 -phs000285.v3.p2,c2,Coronary Artery Risk Development in Young Adults (CARDIA) Study - Cohort,2023-03-27 -phs000286.v6.p2,c1,Jackson Heart Study (JHS) Cohort,2023-03-27 -phs000286.v6.p2,c2,Jackson Heart Study (JHS) Cohort,2023-03-27 -phs000286.v6.p2,c3,Jackson Heart Study (JHS) Cohort,2023-03-27 -phs000286.v6.p2,c4,Jackson Heart Study (JHS) Cohort,2023-03-27 -phs000287.v7.p1,c1,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 -phs000287.v7.p1,c2,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 -phs000287.v7.p1,c3,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 -phs000287.v7.p1,c4,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27 -phs000289.v2.p1,c1,National Human Genome Research Institute (NHGRI) GENEVA Genome-Wide Association Study of Venous Thrombosis (GWAS of VTE),2023-03-27 -phs000422.v1.p1,c1,NHLBI GO-ESP: Lung Cohorts Exome Sequencing Project (Asthma): Genetic variants affecting susceptibility and severity,2023-03-27 -phs000571.v6.p2,c1,Congenital Heart Disease Genetic Network Study,2023-03-27 -phs000703.v1.p1,c1,CATHeterization GENetics (CATHGEN),2023-03-27 -phs000784.v3.p1,c1,Genetic Epidemiology Network of Salt Sensitivity (GenSalt),2023-03-27 -phs000810.v1.p1,c1,Hispanic Community Health Study /Study of Latinos (HCHS/SOL),2023-03-27 -phs000810.v1.p1,c2,Hispanic Community Health Study /Study of Latinos (HCHS/SOL),2023-03-27 -phs000820.v1.p1,c1,The Cleveland Clinic Foundation's Lone Atrial Fibrillation GWAS Study,2023-03-27 -phs000914.v1.p1,c1,Genome-Wide Association Study of Adiposity in Samoans,2023-03-27 -phs000920.v4.p2,c2,NHLBI TOPMed - NHGRI CCDG: Genes-Environments and Admixture in Latino Asthmatics (GALA II),2023-03-27 -phs000921.v4.p1,c2,"NHLBI TOPMed: Study of African Americans, Asthma, Genes and Environment (SAGE)",2023-03-27 -phs000946.v4.p1,c1,NHLBI TOPMed: Boston Early-Onset COPD Study,2023-03-27 -phs000951.v4.p4,c1,NHLBI TOPMed: Genetic Epidemiology of COPD (COPDGene),2023-03-27 -phs000951.v4.p4,c2,NHLBI TOPMed: Genetic Epidemiology of COPD (COPDGene),2023-03-27 -phs000954.v3.p2,c1,NHLBI TOPMed: The Cleveland Family Study (CFS),2023-03-27 -phs000956.v4.p1,c2,NHLBI TOPMed: Genetics of Cardiometabolic Health in the Amish,2023-03-27 -phs000964.v4.p1,c1,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 -phs000964.v4.p1,c2,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 -phs000964.v4.p1,c3,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 -phs000964.v4.p1,c4,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27 -phs000972.v4.p1,c1,NHLBI TOPMed: Genome-Wide Association Study of Adiposity in Samoans,2023-03-27 -phs000974.v4.p3,c1,NHLBI TOPMed: Genomic Activities such as Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study,2023-03-27 -phs000974.v4.p3,c2,NHLBI TOPMed: Genomic Activities such as Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study,2023-03-27 -phs000988.v4.p1,c1,NHLBI TOPMed: The Genetic Epidemiology of Asthma in Costa Rica,2023-03-27 -phs000993.v4.p2,c1,NHLBI TOPMed: Heart and Vascular Health Study (HVH),2023-03-27 -phs000993.v4.p2,c2,NHLBI TOPMed: Heart and Vascular Health Study (HVH),2023-03-27 -phs000997.v4.p2,c1,NHLBI TOPMed - NHGRI CCDG: The Vanderbilt AF Ablation Registry,2023-03-27 -phs001001.v1.p1,c1,Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 -phs001001.v1.p1,c2,Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 -phs001012.v1.p1,c1,The Diabetes Heart Study (DHS),2023-03-27 -phs001013.v3.p2,c1,Heart and Vascular Health Study (HVH),2023-03-27 -phs001013.v3.p2,c2,Heart and Vascular Health Study (HVH),2023-03-27 -phs001024.v4.p1,c1,NHLBI TOPMed: Partners HealthCare Biobank,2023-03-27 -phs001032.v5.p2,c1,NHLBI TOPMed: The Vanderbilt Atrial Fibrillation Registry (VU_AF),2023-03-27 -phs001040.v4.p1,c1,NHLBI TOPMed: Novel Risk Factors for the Development of Atrial Fibrillation in Women,2023-03-27 -phs001062.v4.p2,c1,NHLBI TOPMed - NHGRI CCDG: Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 -phs001062.v4.p2,c2,NHLBI TOPMed - NHGRI CCDG: Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27 -phs001074.v1.p1,c2,GeneSTAR (Genetic Study of Atherosclerosis Risk) NextGen Consortium: Functional Genomics of Platelet Aggregation Using iPS and Derived Megakaryocytes,2023-03-27 -phs001143.v3.p1,c1,NHLBI TOPMed: The Genetics and Epidemiology of Asthma in Barbados,2023-03-27 -phs001180.v2.p1,c2,Genes-Environments and Admixture in Latino Asthmatics (GALA II) Study,2023-03-27 -phs001189.v3.p1,c1,NHLBI TOPMed: Cleveland Clinic Atrial Fibrillation (CCAF) Study,2023-03-27 -phs001194.v2.p2,c1,"National Heart, Lung, and Blood Institute (NHLBI) Bench to Bassinet Program: The Pediatric Cardiac Genetics Consortium (PCGC) Study",2023-03-27 -phs001194.v2.p2,c2,"National Heart, Lung, and Blood Institute (NHLBI) Bench to Bassinet Program: The Pediatric Cardiac Genetics Consortium (PCGC) Study",2023-03-27 -phs001207.v2.p1,c1,NHLBI TOPMed: African American Sarcoidosis Genetics Resource,2023-03-27 -phs001211.v3.p2,c1,NHLBI TOPMed - NHGRI CCDG: Atherosclerosis Risk in Communities (ARIC),2023-03-27 -phs001211.v3.p2,c2,NHLBI TOPMed - NHGRI CCDG: Atherosclerosis Risk in Communities (ARIC),2023-03-27 -phs001215.v3.p2,c1,NHLBI TOPMed: San Antonio Family Heart Study (SAFHS),2023-03-27 -phs001217.v2.p1,c1,NHLBI TOPMed: Genetic Epidemiology Network of Salt Sensitivity (GenSalt),2023-03-27 -phs001218.v2.p1,c2,NHLBI TOPMed: Genetic Study of Atherosclerosis Risk (GeneSTAR),2023-03-27 -phs001237.v2.p1,c1,NHLBI TOPMed: Women's Health Initiative (WHI),2023-03-27 -phs001237.v2.p1,c2,NHLBI TOPMed: Women's Health Initiative (WHI),2023-03-27 -phs001238.v2.p1,c1,Genetic Epidemiology Network of Arteriopathy (GENOA),2023-03-27 -phs001252.v1.p1,c1,Evaluation of COPD Longitudinally to Identify Predictive Surrogate Endpoints (ECLIPSE),2023-03-27 -phs001293.v2.p1,c1,NHLBI TOPMed: HyperGEN - Genetics of Left Ventricular (LV) Hypertrophy,2023-03-27 -phs001293.v2.p1,c2,NHLBI TOPMed: HyperGEN - Genetics of Left Ventricular (LV) Hypertrophy,2023-03-27 -phs001345.v2.p1,c1,NHLBI TOPMed: Genetic Epidemiology Network of Arteriopathy (GENOA),2023-03-27 -phs001359.v2.p1,c1,NHLBI TOPMed: GOLDN Epigenetic Determinants of Lipid Response to Dietary Fat and Fenofibrate,2023-03-27 -phs001368.v2.p2,c1,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27 -phs001368.v2.p2,c2,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27 -phs001368.v2.p2,c4,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27 -phs001387.v2.p1,c3,NHLBI TOPMed: Rare Variants for Hypertension in Taiwan Chinese (THRV),2023-03-27 -phs001395.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Hispanic Community Health Study/Study of Latinos (HCHS/SOL),2023-03-27 -phs001395.v1.p1,c2,NHLBI TOPMed - NHGRI CCDG: Hispanic Community Health Study/Study of Latinos (HCHS/SOL),2023-03-27 -phs001402.v2.p1,c1,NHLBI TOPMed: Whole Genome Sequencing of Venous Thromboembolism (WGS of VTE),2023-03-27 -phs001412.v2.p1,c1,NHLBI TOPMed: Diabetes Heart Study (DHS) African American Coronary Artery Calcification (AA CAC),2023-03-27 -phs001412.v2.p1,c2,NHLBI TOPMed: Diabetes Heart Study (DHS) African American Coronary Artery Calcification (AA CAC),2023-03-27 -phs001416.v2.p1,c1,NHLBI TOPMed: MESA and MESA Family AA-CAC,2023-03-27 -phs001416.v2.p1,c2,NHLBI TOPMed: MESA and MESA Family AA-CAC,2023-03-27 -phs001434.v1.p1,c1,NHLBI TOPMed: Defining the time-dependent genetic and transcriptomic responses to cardiac injury among patients with arrhythmias,2023-03-27 -phs001435.v1.p1,c1,NHLBI TOPMed: Australian Familial Atrial Fibrillation Study,2023-03-27 -phs001466.v1.p1,c1,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27 -phs001466.v1.p1,c2,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27 -phs001466.v1.p1,c3,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27 -phs001467.v1.p1,c1,NHLBI TOPMed: Study of Asthma Phenotypes and Pharmacogenomic Interactions by Race-Ethnicity (SAPPHIRE),2023-03-27 -phs001468.v2.p1,c1,NHLBI TOPMed: REDS-III Brazil Sickle Cell Disease Cohort (REDS-BSCDC),2023-03-27 -phs001472.v1.p1,c1,NHLBI TOPMed: Evaluation of COPD Longitudinally to Identify Predictive Surrogate Endpoints (ECLIPSE),2023-03-27 -phs001514.v1.p1,c1,NHLBI TOPMed: Walk-PHaSST Sickle Cell Disease (SCD),2023-03-27 -phs001514.v1.p1,c2,NHLBI TOPMed: Walk-PHaSST Sickle Cell Disease (SCD),2023-03-27 -phs001515.v1.p1,c1,NHLBI TOPMed: MyLifeOurFuture (MLOF) Research Repository of patients with hemophilia A (factor VIII deficiency) or hemophilia B (factor IX deficiency),2023-03-27 -phs001542.v1.p1,c2,NHLBI TOPMed: Genetics of Asthma in Latino Americans (GALA),2023-03-27 -phs001543.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: AF Biobank LMU in the context of the MED Biobank LMU,2023-03-27 -phs001544.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Malmo Preventive Project (MPP),2023-03-27 -phs001545.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Intermountain INSPIRE Registry,2023-03-27 -phs001546.v1.p1,c1,NHLBI TOPMed: Determining the association of chromosomal variants with non-PV triggers and ablation-outcome in AF (DECAF),2023-03-27 -phs001547.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The GENetics in Atrial Fibrillation (GENAF) Study,2023-03-27 -phs001598.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The Johns Hopkins University School of Medicine Atrial Fibrillation Genetics Study,2023-03-27 -phs001599.v1.p1,c1,NHLBI TOPMed: Boston-Brazil Sickle Cell Disease (SCD) Cohort,2023-03-27 -phs001600.v2.p2,c1,NHLBI TOPMed - NHGRI CCDG: Early-onset Atrial Fibrillation in the CATHeterization GENetics (CATHGEN) Cohort,2023-03-27 -phs001601.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Penn Medicine BioBank Early Onset Atrial Fibrillation Study,2023-03-27 -phs001602.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Integrative Genetic Approaches to Gene-Air Pollution Interactions in Asthma (GAP),2023-03-27 -phs001603.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Integrative Genomics and Environmental Research of Asthma (IGERA),2023-03-27 -phs001604.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Effects of Air Pollution on the Development of Obesity in Children (Meta-AIR),2023-03-27 -phs001605.v1.p1,c2,NHLBI TOPMed: Chicago Initiative to Raise Asthma Health Equity (CHIRAH),2023-03-27 -phs001606.v1.p1,c1,NHLBI TOPMed: Early-onset Atrial Fibrillation in the Estonian Biobank,2023-03-27 -phs001607.v2.p2,c1,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 -phs001607.v2.p2,c2,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 -phs001607.v2.p2,c3,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 -phs001607.v2.p2,c4,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 -phs001607.v2.p2,c5,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27 -phs001608.v1.p1,c1,NHLBI TOPMed: Outcome Modifying Genes in Sickle Cell Disease (OMG),2023-03-27 -phs001612.v1.p1,c1,NHLBI TOPMed: Coronary Artery Risk Development in Young Adults (CARDIA),2023-03-27 -phs001612.v1.p1,c2,NHLBI TOPMed: Coronary Artery Risk Development in Young Adults (CARDIA),2023-03-27 -phs001624.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The Vanderbilt University BioVU Atrial Fibrillation Genetics Study,2023-03-27 -phs001644.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The BioMe Biobank at Mount Sinai,2023-03-27 -phs001661.v2.p1,c1,NHLBI TOPMed: Genetic Causes of Complex Pediatric Disorders - Asthma (GCPD-A),2023-03-27 -phs001662.v1.p1,c2,NHLBI TOPMed: Lung Tissue Research Consortium (LTRC),2023-03-27 -phs001682.v1.p1,c1,NHLBI TOPMed: Pulmonary Hypertension and the Hypoxic Response in SCD (PUSH),2023-03-27 -phs001725.v1.p1,c1,NHLBI TOPMed CCDG: Groningen Genetics of Atrial Fibrillation (GGAF) Study,2023-03-27 -phs001726.v1.p1,c1,NHLBI TOPMed: Childhood Asthma Management Program (CAMP),2023-03-27 -phs001727.v1.p1,c2,NHLBI TOPMed: Pathways to Immunologically Mediated Asthma (PIMA),2023-03-27 -phs001728.v1.p1,c2,NHLBI TOPMed: Best ADd-on Therapy Giving Effective Response (BADGER),2023-03-27 -phs001729.v1.p1,c2,NHLBI TOPMed: Characterizing the Response to a Leukotriene Receptor Antagonist and an Inhaled Corticosteroid (CLIC),2023-03-27 -phs001730.v1.p1,c2,NHLBI TOPMed: Pediatric Asthma Controller Trial (PACT),2023-03-27 -phs001732.v1.p1,c2,NHLBI TOPMed: TReating Children to Prevent EXacerbations of Asthma (TREXA),2023-03-27 -phs001735.v2.p1,c1,NHLBI TOPMed: Pediatric Cardiac Genomics Consortium (PCGC)'s Congenital Heart Disease Biobank,2023-03-27 -phs001735.v2.p1,c2,NHLBI TOPMed: Pediatric Cardiac Genomics Consortium (PCGC)'s Congenital Heart Disease Biobank,2023-03-27 -phs001843.v1.p2,c1,Pediatric Cardiac Genomics Consortium (PCGC) Study - Centers for Mendelian Genomics Collaboration,2023-03-27 -phs001927.v1.p1,c1,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 -phs001927.v1.p1,c2,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 -phs001927.v1.p1,c3,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 -phs001927.v1.p1,c4,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27 -phs002348.v1.p1,c1,Multicenter Study of Hydroxyurea (MSH),2023-03-27 -phs002362.v1.p1,c1,Cooperative Study of Sickle Cell Disease (CSSCD),2023-03-27 -phs002383.v1.p1,c1,Treatment of Pulmonary Hypertension and Sickle Cell Disease With Sildenafil Therapy (walk-PHaSST),2023-03-27 -phs002385.v1.p1,c1,Hematopoietic Cell Transplant for Sickle Cell Disease (HCT for SCD),2023-03-27 -phs002386.v1.p1,c1,Optimizing Primary Stroke Prevention in Children with Sickle Cell Anemia (STOP II),2023-03-27 -phs002415.v1.p1,c1,Hydroxyurea to Prevent Organ Damage in Children with Sickle Cell Anemia (BABY HUG),2023-03-27 -phs002715.v1.p1,c1,Cleveland Family Study,2023-03-27 -phs002299.v1.p1,c1,PETAL Network: Outcomes Related to COVID-19 Treated With Hydroxychloroquine Among Inpatients With Symptomatic Disease (ORCHID) Trial,2023-03-27 -phs002363.v1.p1,c1,PETAL - Repository of Electronic Data COVID-19 Observational Study,2023-03-27 -phs002694.v1.p1,c1,Accelerating COVID-19 Therapeutic Interventions and Vaccines 4 ACUTE (ACTIV-4A),2023-03-27 -phs002710.v1.p1,c1,COVID-19 Positive Outpatient Thrombosis Prevention in Adults Aged 40-80,2023-03-27 -phs002752.v1.p1,c1,Clinical-trial of COVID-19 Convalescent Plasma in Outpatients,2023-03-27 \ No newline at end of file +Accession,Consent,Study Name,Last modified,Notes, +phs000007.v31.p12,c1,Framingham Cohort,2023-03-27, +phs000007.v31.p12,c2,Framingham Cohort,2023-03-27, +phs000166.v2.p1,c1,"National Heart, Lung, and Blood Institute SNP Health Association Asthma Resource Project (SHARP)",2023-03-27, +phs000179.v6.p2,c1,"Genetic Epidemiology of COPD (COPDGene) Funded by the National Heart, Lung, and Blood Institute",2023-03-27, +phs000179.v6.p2,c2,"Genetic Epidemiology of COPD (COPDGene) Funded by the National Heart, Lung, and Blood Institute",2023-03-27, +phs000200.v12.p3,c1,Women's Health Initiative Clinical Trial and Observational Study,2023-03-27, +phs000200.v12.p3,c2,Women's Health Initiative Clinical Trial and Observational Study,2023-03-27, +phs000209.v13.p3,c1,Multi-Ethnic Study of Atherosclerosis (MESA) Cohort,2023-03-27, +phs000209.v13.p3,c2,Multi-Ethnic Study of Atherosclerosis (MESA) Cohort,2023-03-27, +phs000284.v2.p1,c1,NHLBI Cleveland Family Study (CFS) Candidate Gene Association Resource (CARe),2023-03-27, +phs000285.v3.p2,c1,Coronary Artery Risk Development in Young Adults (CARDIA) Study - Cohort,2023-03-27, +phs000285.v3.p2,c2,Coronary Artery Risk Development in Young Adults (CARDIA) Study - Cohort,2023-03-27, +phs000286.v6.p2,c1,Jackson Heart Study (JHS) Cohort,2023-03-27, +phs000286.v6.p2,c2,Jackson Heart Study (JHS) Cohort,2023-03-27, +phs000286.v6.p2,c3,Jackson Heart Study (JHS) Cohort,2023-03-27, +phs000286.v6.p2,c4,Jackson Heart Study (JHS) Cohort,2023-03-27, +phs000287.v7.p1,c1,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27, +phs000287.v7.p1,c2,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27, +phs000287.v7.p1,c3,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27, +phs000287.v7.p1,c4,Cardiovascular Health Study (CHS) Cohort: an NHLBI-funded observational study of risk factors for cardiovascular disease in adults 65 years or older,2023-03-27, +phs000289.v2.p1,c1,National Human Genome Research Institute (NHGRI) GENEVA Genome-Wide Association Study of Venous Thrombosis (GWAS of VTE),2023-03-27, +phs000422.v1.p1,c1,NHLBI GO-ESP: Lung Cohorts Exome Sequencing Project (Asthma): Genetic variants affecting susceptibility and severity,2023-03-27, +phs001194.v3.p2,c1,Congenital Heart Disease Genetic Network Study,2023-03-27,"Listed on BDC as phs000571.v6.p2, but as per https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000571.v6.p2 the data for this study is collected as a substudy of phs001194.v3.p2, so that's where we get the variables for this study." +phs000703.v1.p1,c1,CATHeterization GENetics (CATHGEN),2023-03-27, +phs000784.v3.p1,c1,Genetic Epidemiology Network of Salt Sensitivity (GenSalt),2023-03-27, +phs000810.v1.p1,c1,Hispanic Community Health Study /Study of Latinos (HCHS/SOL),2023-03-27, +phs000810.v1.p1,c2,Hispanic Community Health Study /Study of Latinos (HCHS/SOL),2023-03-27, +phs000820.v1.p1,c1,The Cleveland Clinic Foundation's Lone Atrial Fibrillation GWAS Study,2023-03-27, +phs000914.v1.p1,c1,Genome-Wide Association Study of Adiposity in Samoans,2023-03-27, +phs000920.v4.p2,c2,NHLBI TOPMed - NHGRI CCDG: Genes-Environments and Admixture in Latino Asthmatics (GALA II),2023-03-27, +phs000921.v4.p1,c2,"NHLBI TOPMed: Study of African Americans, Asthma, Genes and Environment (SAGE)",2023-03-27, +phs000946.v4.p1,c1,NHLBI TOPMed: Boston Early-Onset COPD Study,2023-03-27, +phs000951.v4.p4,c1,NHLBI TOPMed: Genetic Epidemiology of COPD (COPDGene),2023-03-27, +phs000951.v4.p4,c2,NHLBI TOPMed: Genetic Epidemiology of COPD (COPDGene),2023-03-27, +phs000954.v3.p2,c1,NHLBI TOPMed: The Cleveland Family Study (CFS),2023-03-27, +phs000956.v4.p1,c2,NHLBI TOPMed: Genetics of Cardiometabolic Health in the Amish,2023-03-27, +phs000964.v4.p1,c1,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27, +phs000964.v4.p1,c2,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27, +phs000964.v4.p1,c3,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27, +phs000964.v4.p1,c4,NHLBI TOPMed: The Jackson Heart Study (JHS),2023-03-27, +phs000972.v4.p1,c1,NHLBI TOPMed: Genome-Wide Association Study of Adiposity in Samoans,2023-03-27, +phs000974.v4.p3,c1,NHLBI TOPMed: Genomic Activities such as Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study,2023-03-27, +phs000974.v4.p3,c2,NHLBI TOPMed: Genomic Activities such as Whole Genome Sequencing and Related Phenotypes in the Framingham Heart Study,2023-03-27, +phs000988.v4.p1,c1,NHLBI TOPMed: The Genetic Epidemiology of Asthma in Costa Rica,2023-03-27, +phs000993.v4.p2,c1,NHLBI TOPMed: Heart and Vascular Health Study (HVH),2023-03-27, +phs000993.v4.p2,c2,NHLBI TOPMed: Heart and Vascular Health Study (HVH),2023-03-27, +phs000997.v4.p2,c1,NHLBI TOPMed - NHGRI CCDG: The Vanderbilt AF Ablation Registry,2023-03-27, +phs001001.v1.p1,c1,Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27, +phs001001.v1.p1,c2,Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27, +phs001012.v1.p1,c1,The Diabetes Heart Study (DHS),2023-03-27, +phs001013.v3.p2,c1,Heart and Vascular Health Study (HVH),2023-03-27, +phs001013.v3.p2,c2,Heart and Vascular Health Study (HVH),2023-03-27, +phs001024.v4.p1,c1,NHLBI TOPMed: Partners HealthCare Biobank,2023-03-27, +phs001032.v5.p2,c1,NHLBI TOPMed: The Vanderbilt Atrial Fibrillation Registry (VU_AF),2023-03-27, +phs001040.v4.p1,c1,NHLBI TOPMed: Novel Risk Factors for the Development of Atrial Fibrillation in Women,2023-03-27, +phs001062.v4.p2,c1,NHLBI TOPMed - NHGRI CCDG: Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27, +phs001062.v4.p2,c2,NHLBI TOPMed - NHGRI CCDG: Massachusetts General Hospital (MGH) Atrial Fibrillation Study,2023-03-27, +phs001074.v1.p1,c2,GeneSTAR (Genetic Study of Atherosclerosis Risk) NextGen Consortium: Functional Genomics of Platelet Aggregation Using iPS and Derived Megakaryocytes,2023-03-27, +phs001143.v3.p1,c1,NHLBI TOPMed: The Genetics and Epidemiology of Asthma in Barbados,2023-03-27, +phs001180.v2.p1,c2,Genes-Environments and Admixture in Latino Asthmatics (GALA II) Study,2023-03-27, +phs001189.v3.p1,c1,NHLBI TOPMed: Cleveland Clinic Atrial Fibrillation (CCAF) Study,2023-03-27, +phs001194.v2.p2,c1,"National Heart, Lung, and Blood Institute (NHLBI) Bench to Bassinet Program: The Pediatric Cardiac Genetics Consortium (PCGC) Study",2023-03-27, +phs001194.v2.p2,c2,"National Heart, Lung, and Blood Institute (NHLBI) Bench to Bassinet Program: The Pediatric Cardiac Genetics Consortium (PCGC) Study",2023-03-27, +phs001207.v2.p1,c1,NHLBI TOPMed: African American Sarcoidosis Genetics Resource,2023-03-27, +phs001211.v3.p2,c1,NHLBI TOPMed - NHGRI CCDG: Atherosclerosis Risk in Communities (ARIC),2023-03-27, +phs001211.v3.p2,c2,NHLBI TOPMed - NHGRI CCDG: Atherosclerosis Risk in Communities (ARIC),2023-03-27, +phs001215.v3.p2,c1,NHLBI TOPMed: San Antonio Family Heart Study (SAFHS),2023-03-27, +phs001217.v2.p1,c1,NHLBI TOPMed: Genetic Epidemiology Network of Salt Sensitivity (GenSalt),2023-03-27, +phs001218.v2.p1,c2,NHLBI TOPMed: Genetic Study of Atherosclerosis Risk (GeneSTAR),2023-03-27, +phs001237.v2.p1,c1,NHLBI TOPMed: Women's Health Initiative (WHI),2023-03-27, +phs001237.v2.p1,c2,NHLBI TOPMed: Women's Health Initiative (WHI),2023-03-27, +phs001238.v2.p1,c1,Genetic Epidemiology Network of Arteriopathy (GENOA),2023-03-27, +phs001252.v1.p1,c1,Evaluation of COPD Longitudinally to Identify Predictive Surrogate Endpoints (ECLIPSE),2023-03-27, +phs001293.v2.p1,c1,NHLBI TOPMed: HyperGEN - Genetics of Left Ventricular (LV) Hypertrophy,2023-03-27, +phs001293.v2.p1,c2,NHLBI TOPMed: HyperGEN - Genetics of Left Ventricular (LV) Hypertrophy,2023-03-27, +phs001345.v2.p1,c1,NHLBI TOPMed: Genetic Epidemiology Network of Arteriopathy (GENOA),2023-03-27, +phs001359.v2.p1,c1,NHLBI TOPMed: GOLDN Epigenetic Determinants of Lipid Response to Dietary Fat and Fenofibrate,2023-03-27, +phs001368.v2.p2,c1,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27, +phs001368.v2.p2,c2,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27, +phs001368.v2.p2,c4,NHLBI TOPMed: Trans-Omics for Precision Medicine (TOPMed) Whole Genome Sequencing Project: Cardiovascular Health Study,2023-03-27, +phs001387.v2.p1,c3,NHLBI TOPMed: Rare Variants for Hypertension in Taiwan Chinese (THRV),2023-03-27, +phs001395.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Hispanic Community Health Study/Study of Latinos (HCHS/SOL),2023-03-27, +phs001395.v1.p1,c2,NHLBI TOPMed - NHGRI CCDG: Hispanic Community Health Study/Study of Latinos (HCHS/SOL),2023-03-27, +phs001402.v2.p1,c1,NHLBI TOPMed: Whole Genome Sequencing of Venous Thromboembolism (WGS of VTE),2023-03-27, +phs001412.v2.p1,c1,NHLBI TOPMed: Diabetes Heart Study (DHS) African American Coronary Artery Calcification (AA CAC),2023-03-27, +phs001412.v2.p1,c2,NHLBI TOPMed: Diabetes Heart Study (DHS) African American Coronary Artery Calcification (AA CAC),2023-03-27, +phs001416.v2.p1,c1,NHLBI TOPMed: MESA and MESA Family AA-CAC,2023-03-27, +phs001416.v2.p1,c2,NHLBI TOPMed: MESA and MESA Family AA-CAC,2023-03-27, +phs001434.v1.p1,c1,NHLBI TOPMed: Defining the time-dependent genetic and transcriptomic responses to cardiac injury among patients with arrhythmias,2023-03-27, +phs001435.v1.p1,c1,NHLBI TOPMed: Australian Familial Atrial Fibrillation Study,2023-03-27, +phs001466.v1.p1,c1,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27, +phs001466.v1.p1,c2,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27, +phs001466.v1.p1,c3,NHLBI TOPMed: Pharmacogenomics of Hydroxyurea in Sickle Cell Disease (PharmHU),2023-03-27, +phs001467.v1.p1,c1,NHLBI TOPMed: Study of Asthma Phenotypes and Pharmacogenomic Interactions by Race-Ethnicity (SAPPHIRE),2023-03-27, +phs001468.v2.p1,c1,NHLBI TOPMed: REDS-III Brazil Sickle Cell Disease Cohort (REDS-BSCDC),2023-03-27, +phs001472.v1.p1,c1,NHLBI TOPMed: Evaluation of COPD Longitudinally to Identify Predictive Surrogate Endpoints (ECLIPSE),2023-03-27, +phs001514.v1.p1,c1,NHLBI TOPMed: Walk-PHaSST Sickle Cell Disease (SCD),2023-03-27, +phs001514.v1.p1,c2,NHLBI TOPMed: Walk-PHaSST Sickle Cell Disease (SCD),2023-03-27, +phs001515.v1.p1,c1,NHLBI TOPMed: MyLifeOurFuture (MLOF) Research Repository of patients with hemophilia A (factor VIII deficiency) or hemophilia B (factor IX deficiency),2023-03-27, +phs001542.v1.p1,c2,NHLBI TOPMed: Genetics of Asthma in Latino Americans (GALA),2023-03-27, +phs001543.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: AF Biobank LMU in the context of the MED Biobank LMU,2023-03-27, +phs001544.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Malmo Preventive Project (MPP),2023-03-27, +phs001545.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Intermountain INSPIRE Registry,2023-03-27, +phs001546.v1.p1,c1,NHLBI TOPMed: Determining the association of chromosomal variants with non-PV triggers and ablation-outcome in AF (DECAF),2023-03-27, +phs001547.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The GENetics in Atrial Fibrillation (GENAF) Study,2023-03-27, +phs001598.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The Johns Hopkins University School of Medicine Atrial Fibrillation Genetics Study,2023-03-27, +phs001599.v1.p1,c1,NHLBI TOPMed: Boston-Brazil Sickle Cell Disease (SCD) Cohort,2023-03-27, +phs001600.v2.p2,c1,NHLBI TOPMed - NHGRI CCDG: Early-onset Atrial Fibrillation in the CATHeterization GENetics (CATHGEN) Cohort,2023-03-27, +phs001601.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: Penn Medicine BioBank Early Onset Atrial Fibrillation Study,2023-03-27, +phs001602.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Integrative Genetic Approaches to Gene-Air Pollution Interactions in Asthma (GAP),2023-03-27, +phs001603.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Integrative Genomics and Environmental Research of Asthma (IGERA),2023-03-27, +phs001604.v1.p1,c1,NHLBI TOPMed: Children's Health Study (CHS) Effects of Air Pollution on the Development of Obesity in Children (Meta-AIR),2023-03-27, +phs001605.v1.p1,c2,NHLBI TOPMed: Chicago Initiative to Raise Asthma Health Equity (CHIRAH),2023-03-27, +phs001606.v1.p1,c1,NHLBI TOPMed: Early-onset Atrial Fibrillation in the Estonian Biobank,2023-03-27, +phs001607.v2.p2,c1,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27, +phs001607.v2.p2,c2,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27, +phs001607.v2.p2,c3,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27, +phs001607.v2.p2,c4,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27, +phs001607.v2.p2,c5,NHLBI TOPMed: Pulmonary Fibrosis Whole Genome Sequencing,2023-03-27, +phs001608.v1.p1,c1,NHLBI TOPMed: Outcome Modifying Genes in Sickle Cell Disease (OMG),2023-03-27, +phs001612.v1.p1,c1,NHLBI TOPMed: Coronary Artery Risk Development in Young Adults (CARDIA),2023-03-27, +phs001612.v1.p1,c2,NHLBI TOPMed: Coronary Artery Risk Development in Young Adults (CARDIA),2023-03-27, +phs001624.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The Vanderbilt University BioVU Atrial Fibrillation Genetics Study,2023-03-27, +phs001644.v1.p1,c1,NHLBI TOPMed - NHGRI CCDG: The BioMe Biobank at Mount Sinai,2023-03-27, +phs001661.v2.p1,c1,NHLBI TOPMed: Genetic Causes of Complex Pediatric Disorders - Asthma (GCPD-A),2023-03-27, +phs001662.v1.p1,c2,NHLBI TOPMed: Lung Tissue Research Consortium (LTRC),2023-03-27, +phs001682.v1.p1,c1,NHLBI TOPMed: Pulmonary Hypertension and the Hypoxic Response in SCD (PUSH),2023-03-27, +phs001725.v1.p1,c1,NHLBI TOPMed CCDG: Groningen Genetics of Atrial Fibrillation (GGAF) Study,2023-03-27, +phs001726.v1.p1,c1,NHLBI TOPMed: Childhood Asthma Management Program (CAMP),2023-03-27, +phs001727.v1.p1,c2,NHLBI TOPMed: Pathways to Immunologically Mediated Asthma (PIMA),2023-03-27, +phs001728.v1.p1,c2,NHLBI TOPMed: Best ADd-on Therapy Giving Effective Response (BADGER),2023-03-27, +phs001729.v1.p1,c2,NHLBI TOPMed: Characterizing the Response to a Leukotriene Receptor Antagonist and an Inhaled Corticosteroid (CLIC),2023-03-27, +phs001730.v1.p1,c2,NHLBI TOPMed: Pediatric Asthma Controller Trial (PACT),2023-03-27, +phs001732.v1.p1,c2,NHLBI TOPMed: TReating Children to Prevent EXacerbations of Asthma (TREXA),2023-03-27, +phs001735.v2.p1,c1,NHLBI TOPMed: Pediatric Cardiac Genomics Consortium (PCGC)'s Congenital Heart Disease Biobank,2023-03-27, +phs001735.v2.p1,c2,NHLBI TOPMed: Pediatric Cardiac Genomics Consortium (PCGC)'s Congenital Heart Disease Biobank,2023-03-27, +phs001194.v3.p2,c1,Pediatric Cardiac Genomics Consortium (PCGC) Study - Centers for Mendelian Genomics Collaboration,2023-03-27,"Listed on BDC as phs001843.v1.p2, but as per https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001843.v1.p2 the data for this study is collected as a substudy of phs001194.v3.p2, so that's where we get the variables for this study." +phs001927.v1.p1,c1,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27, +phs001927.v1.p1,c2,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27, +phs001927.v1.p1,c3,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27, +phs001927.v1.p1,c4,NHLBI TOPMed: SubPopulations and InteRmediate Outcome Measures In COPD Study (SPIROMICS),2023-03-27, +phs002348.v1.p1,c1,Multicenter Study of Hydroxyurea (MSH),2023-03-27, +phs002362.v1.p1,c1,Cooperative Study of Sickle Cell Disease (CSSCD),2023-03-27, +phs002383.v1.p1,c1,Treatment of Pulmonary Hypertension and Sickle Cell Disease With Sildenafil Therapy (walk-PHaSST),2023-03-27, +phs002385.v1.p1,c1,Hematopoietic Cell Transplant for Sickle Cell Disease (HCT for SCD),2023-03-27, +phs002386.v1.p1,c1,Optimizing Primary Stroke Prevention in Children with Sickle Cell Anemia (STOP II),2023-03-27, +phs002415.v1.p1,c1,Hydroxyurea to Prevent Organ Damage in Children with Sickle Cell Anemia (BABY HUG),2023-03-27, +phs002715.v1.p1,c1,Cleveland Family Study,2023-03-27, +phs002299.v1.p1,c1,PETAL Network: Outcomes Related to COVID-19 Treated With Hydroxychloroquine Among Inpatients With Symptomatic Disease (ORCHID) Trial,2023-03-27, +phs002363.v1.p1,c1,PETAL - Repository of Electronic Data COVID-19 Observational Study,2023-03-27, +phs002694.v1.p1,c1,Accelerating COVID-19 Therapeutic Interventions and Vaccines 4 ACUTE (ACTIV-4A),2023-03-27, +phs002710.v1.p1,c1,COVID-19 Positive Outpatient Thrombosis Prevention in Adults Aged 40-80,2023-03-27, +phs002752.v1.p1,c1,Clinical-trial of COVID-19 Convalescent Plasma in Outpatients,2023-03-27, \ No newline at end of file