EXPERIMENT_TITLE: GSM3741972: Hi-C_Poly_hormonal_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_Poly_hormonal_4bp
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "human ESC (H9)"}, {"TAG": "differentiation state", "VALUE": "Poly_hormonal"}, {"TAG": "replicate", "VALUE": "1"}]
Pool_Member_@attributes_sample_title: Hi-C_Poly_hormonal_4bp
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Hi-C_Poly_hormonal_4bp
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR8994267.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-24/SRR008/8994/SRR8994267/SRR8994267.lite.1", "size": "14679003302", "date": "2022-08-01 13:57:31", "md5": "5084524d972fc18ea550a9360a885a20", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR8994267", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR8994267/SRR8994267", "size": "17298897730", "date": "2019-05-01 13:20:26", "md5": "2c6aa770dec027567e490d28eae2db41", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Hi-C_Poly_hormonal_4bp_Read2.fastq.gz", "size": "15108085241", "date": "2020-01-18 12:33:22", "md5": "ef639ebebde092a6a9af919349f9ac6a", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Hi-C_Poly_hormonal_4bp_Read1.fastq.gz", "size": "14942009637", "date": "2020-01-18 12:42:53", "md5": "cd7b5f8b48864e3303356908af58dc07", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]