EXPERIMENT_TITLE: GSM3909734: R3: released 2 hours; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: For each Hi-C library, approximately 5 million cells were used as input. Cells were crosslinked for 10 minutes at room temperature in a final concentration of 1% formaldehyde. Glycine was added to quench crosslinking and pellets were frozen at -80C until Hi-C library generation Hi-C was performed according to published protocol (Belagzhal et al., 2017)
STUDY_DESCRIPTOR_STUDY_ABSTRACT: DpnII Hi-C libraries for samples synchronized to G2/M using single 24h thymidine, 3h release, and 12h nocodazole--these samples are then released for x amount of time Overall design: Hi-C
SAMPLE_TITLE: R3: released 2 hours
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "HeLa-S3 cells"}, {"TAG": "protocol", "VALUE": "Hi-C"}, {"TAG": "enzyme", "VALUE": "DpnII"}, {"TAG": "cell line", "VALUE": "Human adenocarcinoma cells"}]
Pool_Member_@attributes_sample_title: R3: released 2 hours
RUN_SET_RUN_Pool_Member_@attributes_sample_title: R3: released 2 hours
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR9609707", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR9609707/SRR9609707", "size": "4724920143", "date": "2019-06-28 01:42:13", "md5": "ceb836815e7a239e7965aff7bf0101b2", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR9609707.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-16/SRR009/609/SRR9609707.sralite.1", "size": "3169785603", "date": "2020-06-22 09:15:45", "md5": "2a00d6e0e28839e400ee20bc4ae5acae", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "TB-HiC-Dpn-R3-T2-R3-T1_S13_L004_R2_001.fastq.gz", "size": "4129051300", "date": "2019-06-28 01:37:43", "md5": "cb2aa75b5c21d042143a2cb3427af0ca", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "TB-HiC-Dpn-R3-T2-R3-T1_S13_L004_R1_001.fastq.gz", "size": "3900921826", "date": "2019-06-28 01:39:33", "md5": "4f770a346526d7e19d7e64569a45b39f", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]