EXPERIMENT_TITLE: GSM3909723: R2: asynchronous control; 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: R2: asynchronous control
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: R2: asynchronous control
RUN_SET_RUN_Pool_Member_@attributes_sample_title: R2: asynchronous control
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR9609696", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR9609696/SRR9609696", "size": "3159626002", "date": "2019-06-28 01:19:59", "md5": "37ec22e7a0dd07a329d8422d50d38791", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR9609696.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-16/SRR009/609/SRR9609696.sralite.1", "size": "2062934058", "date": "2020-06-22 09:03:27", "md5": "604b07dac3f9411c168ba94387a80bff", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "TB-HiC-Dpn-Tasyn_S1_L001_R2_001.fastq.gz", "size": "2832518305", "date": "2019-06-28 01:15:24", "md5": "d5e527bebd7646e6116aedad30ca1b81", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "TB-HiC-Dpn-Tasyn_S1_L001_R1_001.fastq.gz", "size": "2544577277", "date": "2019-06-28 01:17:05", "md5": "25ddc675c4d30e40e66f7fe19499bd9c", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]