EXPERIMENT_TITLE: Illumina HiSeq 2500 paired end sequencing
STUDY_DESCRIPTOR_STUDY_ABSTRACT: HIC sequencing data has been generated for 1KG trios and the reads are mapped to grch38. Interaction matrices are calculated for each chromosome which lets us view the chromatin interactions inside the organisms. Hi-C data was generated for the thousand genomes project SV group by the laboratory of Bing Ren. under an embargo and cannot be used in independent publications until February 1, 2017. Please direct correspondence to the UCSD PIs Bing Ren (biren@ucsd.edu) and Jonathan Sebat
SAMPLE_TITLE: Coriell HG00732
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "DNA-ID", "VALUE": "HG00732"}, {"TAG": "population", "VALUE": "PUR"}, {"TAG": "Super Population Code", "VALUE": "AMR"}, {"TAG": "Coriell panel", "VALUE": "MGP00004"}, {"TAG": "Population Description", "VALUE": "Puerto Rican in Puerto Rico"}, {"TAG": "sex", "VALUE": "female"}, {"TAG": "Super Population Description", "VALUE": "Ad Mixed American"}, {"TAG": "culture_collection", "VALUE": "CORIELL:HG00732"}, {"TAG": "Relationship", "VALUE": "mother"}, {"TAG": "family_id", "VALUE": "PR05"}]
Pool_Member_@attributes_sample_title: Coriell HG00732
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Coriell HG00732
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HG00732_Hi-C_biorep2_seq2_read1.fastq.bz2", "url": "http://ftp.sra.ebi.ac.uk/vol1/run/ERR122/ERR1224338/HG00732_Hi-C_biorep2_seq2_read1.fastq.bz2", "size": "5169239300", "date": "2019-09-06 15:35:08", "md5": "b8bc48a921dd57949b4e382562285be1", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HG00732_Hi-C_biorep2_seq2_read2.fastq.bz2", "url": "http://ftp.sra.ebi.ac.uk/vol1/run/ERR122/ERR1224338/HG00732_Hi-C_biorep2_seq2_read2.fastq.bz2", "size": "5275224225", "date": "2019-09-06 15:35:08", "md5": "d0fd69f8bdce8f6671c56806523148b8", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "ERR1224338", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/ERR1224338/ERR1224338", "size": "10079487412", "date": "2016-01-26 20:48:40", "md5": "e7812101fbd6d6ceba9cbc2db97d5f5f", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "ERR1224338.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/ERR001/224/ERR1224338/ERR1224338.sralite.1", "size": "6569738828", "date": "2021-06-15 09:16:56", "md5": "4a0537e45848960b38d855cd90d5be98", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]