EXPERIMENT_TITLE: iPSC-CM Hi-C: Sample 227e4892-aea7-4509-a6d4-4937a4267237
STUDY_DESCRIPTOR_STUDY_ABSTRACT: The iPSCORE Resource of human induced pluripotent stem cells (hiPSCs) was created as part of the Next-Gen Consortium funded by the NHLBI. The overarching purpose of the iPSCORE Resource is to provide a large collection of hiPSCs for use in studying the impact of genetic variation on molecular and physiological phenotypes. This Resource is being used in a number of ongoing studies for which genomic data will be generated and deposited into public repositories and linked through dbGaP. A total of 273 individuals have participated in the study for which 222 have had hiPSCs generated from fibroblasts (available through WiCell (http://www.wicell.org/)). Of the 273 individuals, 181 are part of 55 families that include 24 monozygotic twin pairs and 5 dizygotic twin pairs, allowing for the incorporation of familial relationships into genetic analyses. Germline DNA has been sequenced from blood or fibroblast samples for all 273 individuals (see http://www.ncbi... (for more see dbGaP study page.)
SAMPLE_TITLE: Non-tumor DNA sample from a human female participant in the dbGaP study "NextGen Consortium: The iPSCORE (iPSC Collection for Omic Research) Resource for Studying the Impact of Genetic Variation on Molecular Phenotypes"
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "gap_accession", "VALUE": "phs000924"}, {"TAG": "submitter handle", "VALUE": "iPSCORE"}, {"TAG": "biospecimen repository", "VALUE": "iPSCORE"}, {"TAG": "study name", "VALUE": "NextGen Consortium: The iPSCORE (iPSC Collection for Omic Research) Resource for Studying the Impact of Genetic Variation on Molecular Phenotypes"}, {"TAG": "study design", "VALUE": "Control Set"}, {"TAG": "biospecimen repository sample id", "VALUE": "227e4892-aea7-4509-a6d4-4937a4267237"}, {"TAG": "submitted sample id", "VALUE": "227e4892-aea7-4509-a6d4-4937a4267237"}, {"TAG": "submitted subject id", "VALUE": "e932e556-59a6-4f70-9b4c-ef5f69dac3ce"}, {"TAG": "gap_sample_id", "VALUE": "3299733"}, {"TAG": "gap_subject_id", "VALUE": "2048578"}, {"TAG": "sex", "VALUE": "female"}, {"TAG": "histological type", "VALUE": "iPSC-CM"}, {"TAG": "analyte type", "VALUE": "DNA"}, {"TAG": "is tumor", "VALUE": "No"}, {"TAG": "gap_consent_code", "VALUE": "1"}, {"TAG": "gap_consent_short_name", "VALUE": "GRU"}]
Pool_Member_@attributes_sample_title: Non-tumor DNA sample from a human female participant in the dbGaP study "NextGen Consortium: The iPSCORE (iPSC Collection for Omic Research) Resource for Studying the Impact of Genetic Variation on Molecular Phenotypes"
RUN_SET_RUN: [{"IDENTIFIERS": {"PRIMARY_ID": "SRR8419736", "SUBMITTER_ID": "227e4892-aea7-4509-a6d4-4937a4267237_files"}, "EXPERIMENT_REF": {"IDENTIFIERS": {"SUBMITTER_ID": "227e4892-aea7-4509-a6d4-4937a4267237"}, "@attributes": {"accession": "SRX5228650"}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS4232425", "EXTERNAL_ID": ["SAMN10137508", "924-227e4892-aea7-4509-a6d4-4937a4267237", "227e4892-aea7-4509-a6d4-4937a4267237"]}, "@attributes": {"member_name": "", "accession": "SRS4232425", "sample_name": "227e4892-aea7-4509-a6d4-4937a4267237", "sample_title": "Non-tumor DNA sample from a human female participant in the dbGaP study \"NextGen Consortium: The iPSCORE (iPSC Collection for Omic Research) Resource for Studying the Impact of Genetic Variation on Molecular Phenotypes\"", "spots": "166068314", "bases": "24778116002", "tax_id": "9606", "organism": "Homo sapiens"}}}, "AlignInfo": {"Alignment": [null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null], "@attributes": {"cnt": "93"}}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": null, "@attributes": {"nreads": "1", "nspots": "166068314"}}, "Databases": {"Database": {"Table": [{"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "PRIMARY_ALIGNMENT"}}, {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "REFERENCE"}}, {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SECONDARY_ALIGNMENT"}}, {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}]}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "24778116002"}}, "@attributes": {"accession": "SRR8419736", "alias": "227e4892-aea7-4509-a6d4-4937a4267237_files", "total_spots": "166068314", "total_bases": "24778116002", "size": "7810422563", "load_done": "true", "published": "2019-03-06 18:55:18", "is_public": "true", "cluster_name": "dbgap", "has_taxanalysis": "1", "assembly": "hg19"}}, {"IDENTIFIERS": {"PRIMARY_ID": "SRR8539640", "SUBMITTER_ID": "227e4892-aea7-4509-a6d4-4937a4267237_files_reverse"}, "EXPERIMENT_REF": {"IDENTIFIERS": {"SUBMITTER_ID": "227e4892-aea7-4509-a6d4-4937a4267237"}, "@attributes": {"accession": "SRX5228650"}}, "Pool": {"Member": {"IDENTIFIERS": {"PRIMARY_ID": "SRS4232425", "EXTERNAL_ID": ["SAMN10137508", "924-227e4892-aea7-4509-a6d4-4937a4267237", "227e4892-aea7-4509-a6d4-4937a4267237"]}, "@attributes": {"member_name": "", "accession": "SRS4232425", "sample_name": "227e4892-aea7-4509-a6d4-4937a4267237", "sample_title": "Non-tumor DNA sample from a human female participant in the dbGaP study \"NextGen Consortium: The iPSCORE (iPSC Collection for Omic Research) Resource for Studying the Impact of Genetic Variation on Molecular Phenotypes\"", "spots": "166068314", "bases": "24775983934", "tax_id": "9606", "organism": "Homo sapiens"}}}, "AlignInfo": {"Alignment": [null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null, null], "@attributes": {"cnt": "93"}}, "CloudFiles": {"CloudFile": [null, null, null, null]}, "Statistics": {"Read": null, "@attributes": {"nreads": "1", "nspots": "166068314"}}, "Databases": {"Database": {"Table": [{"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "PRIMARY_ALIGNMENT"}}, {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "REFERENCE"}}, {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SECONDARY_ALIGNMENT"}}, {"Statistics": {"Rows": null, "Elements": null, "@attributes": {"source": "meta"}}, "@attributes": {"name": "SEQUENCE"}}]}}, "Bases": {"Base": [null, null, null, null, null], "@attributes": {"cs_native": "false", "count": "24775983934"}}, "@attributes": {"alias": "227e4892-aea7-4509-a6d4-4937a4267237_files_reverse", "accession": "SRR8539640", "total_spots": "166068314", "total_bases": "24775983934", "size": "9004826578", "load_done": "true", "published": "2019-03-06 18:55:18", "is_public": "true", "cluster_name": "dbgap", "has_taxanalysis": "1", "assembly": "hg19"}}]