EXPERIMENT_TITLE: GSM3909726: R3: released 4.5 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 4.5 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 4.5 hours
RUN_SET_RUN_Pool_Member_@attributes_sample_title: R3: released 4.5 hours
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR9609699", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR9609699/SRR9609699", "size": "3881132952", "date": "2019-06-28 01:24:19", "md5": "ea41933c57262ef8f265734f0900fbcf", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR9609699.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-14/SRR009/609/SRR9609699.sralite.1", "size": "2695941272", "date": "2020-06-22 08:51:12", "md5": "78eb823d3e7e5c441f529ae498f3ac73", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "TB-HiC-Dpn-R3-T45-R3-T1_S21_L007_R2_001.fastq.gz", "size": "3393919134", "date": "2019-06-28 01:20:42", "md5": "8e17ac6e042d12077a88c255c5253618", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "TB-HiC-Dpn-R3-T45-R3-T1_S21_L007_R1_001.fastq.gz", "size": "3244308282", "date": "2019-06-28 01:22:07", "md5": "9f22b4ec3a68f8f83790a50fbfdc1874", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]