EXPERIMENT_TITLE: GSM3741971: Hi-C_Pancreatic Progenitor_4bp; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Hi-C libraries were created using HindIII 6bp restriction enzyme based on Dixon et al., 2015 protocol or using DpnII 4bp restriction enzyme based on Rao et al., 2014 in-situ Hi-C protocol Final libraries were sequenced by Hudosn Alpha Sequencing facility on Illumina-HiSeq 2500
STUDY_DESCRIPTOR_STUDY_ABSTRACT: This study demonstrates the relationship between replication timing, transcription and chromatin compartments in human stem cell differenatiation to endoderm lineage (Hi-C). Overall design: Measuring replication timing, transcription and chromatin organization using Hi-C at different time points during human stem cell differentiation to endoderm lineage.
SAMPLE_TITLE: Hi-C_Pancreatic Progenitor_4bp
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "human ESC (H9)"}, {"TAG": "differentiation state", "VALUE": "Pancreatic Projenitor"}, {"TAG": "replicate", "VALUE": "1"}]
Pool_Member_@attributes_sample_title: Hi-C_Pancreatic Progenitor_4bp
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Hi-C_Pancreatic Progenitor_4bp
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR8994266.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-16/SRR008/994/SRR8994266.sralite.1", "size": "10601688265", "date": "2020-06-20 03:17:51", "md5": "66894b987fa4c516e381b6f88965302e", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR8994266", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR8994266/SRR8994266", "size": "12465033329", "date": "2019-05-01 12:05:23", "md5": "1d116c70f0d696b8fa0ed6e1f4cd7911", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Hi-C_Pancreatic_Progenitor_4bp_Read2.fastq.gz", "size": "10939163845", "date": "2020-01-18 12:36:03", "md5": "d55434f38e0cba1d6c6ceaf409a94ac5", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Hi-C_Pancreatic_Progenitor_4bp_Read1.fastq.gz", "size": "10796417798", "date": "2020-01-18 13:27:38", "md5": "29c383710031a854388d1b6a563751f7", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]