EXPERIMENT_TITLE: GSM7749627: Kidney Medulla-Hi-C-Donor5; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Approximately 0.5 cm3 of tissue was minced with a razor blade and fixed and nutated for 20 minutes in 10 mls of a 1:10 dilution of 10% neutral buffered formalin (Fisher). Following this, the formalin was quenched by direct addition of 0.1 g of glycine (Sigma) and nutation for another 15 minutes. The tissue fragments were submitted to Phase Genomics for Hi-C library preparation using their Human Hi-C Kit and sequencing on an Illumina HiSeq 4000.
STUDY_DESCRIPTOR_STUDY_ABSTRACT: We report chromatin conformation (Hi-C) maps from macro-dissected human kidney cortex and medulla from 1 individual Overall design: Hi-C on macro-dissected kidney cortex and medulla from 1 individual
SAMPLE_TITLE: Kidney Medulla-Hi-C-Donor5
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "Kidney Medulla"}, {"TAG": "tissue", "VALUE": "Kidney Medulla"}, {"TAG": "geo_loc_name", "VALUE": "missing"}, {"TAG": "collection_date", "VALUE": "missing"}]
Pool_Member_@attributes_sample_title: Kidney Medulla-Hi-C-Donor5
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Kidney Medulla-Hi-C-Donor5
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Kidney_Akilesh1_Donor5_medulla_R1.fastq.gz", "size": "53397297572", "date": "2023-09-01 15:30:15", "md5": "d9023ca4de09ac7e90606cd1055575f9", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Kidney_Akilesh1_Donor5_medulla_R2.fastq.gz", "size": "56599115507", "date": "2023-09-01 15:33:18", "md5": "7e33b5c20dba45220dcb77c0be8b418a", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR25869533", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR25869533/SRR25869533", "size": "73006735274", "date": "2023-09-01 15:42:01", "md5": "1ce8334f4039148dd46ed5202edfbdad", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR25869533.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-22/SRR025/25869/SRR25869533/SRR25869533.lite.1", "size": "49606861086", "date": "2023-09-06 17:14:23", "md5": "ae010386cdefbf12f6144d8c0e447c4e", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]