Appendix 1: BioData Catalyst Identifiers - dbGaP, TOPMed, and PIC-SURE
Table of BioData Catalyst dbGAP/TOPMed Identifiers
Patient ID | This is the HPDS Patient num. This is PIC-SURE HPDS’s internal Identifier. |
Topmed / Parent Study Accession with Subject ID |
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DBGAP_SUBJECT_ID |
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SUBJECT_ID |
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SHARE_ID |
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SOURCE_SUBJECT_ID |
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SAMPLE_ID |
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Table of PIC-SURE Identifiers
\_Topmed Study Accession with Subject ID\ | Generated identifier for TOPMed Studies. These identifiers are a concatenation using the accession name and “SUBJECT_ID” from a study’s subject multi file.
<STUDY_ACCESSION_NUMBER>.<VERSION>_<SUBJECT_ID> Eg: phs000974.v3_XXXXXXX |
\_Parent Study Accession with Subject ID\ | Generated identifier for PARENT Studies. In most studies this follows the same pattern as the TOPMed Study Accession with Subject id.
However, Framingham’s parent study phs000007 does not contain SUBJECT_ID column which is replaced using the SHAREID column.
Eg: phs000007.v3_XXXXXXX |
\_VCF Sample Id\ | This variable is stored in the sample multi file in each dbGaP study.
This is the TOPMed DNA sample identifier. This is used to give each sample/sequence a unique identifier across TOPMed studies.
Eg: NWD123456 |
Patient ID (not a concept path but exists in data exports) | This is PIC-SURE’s internal Identifier. It is commonly referred to as HPDS Patient num.
This identifier is generated and assigned to subjects when they are loaded. It is not meant for data correlation between different data sources. |
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