EXPERIMENT_TITLE: GSM4712760: GSC1517_Control_KD_rep2_Hi-C; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: BL-Hi-C library construction were performed as described previously (Liang et al., 2017). PCR products between 300–700 bp were purified as BL-Hi-C library using Ampure XP beads and subjected to Illumina HiSeq X10 for paired end 150 bp sequencing.
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Bridge Linker-Hi-C (BL-Hi-C) analysis after YY1 knockdown in glioblastoma stem cells Overall design: Bridge Linker-Hi-C (BL-Hi-C) analysis of chromatin interactions after YY1 knockdown in one glioblastoma stem cell (GSC1517)
SAMPLE_TITLE: GSC1517_Control_KD_rep2_Hi-C
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "patient-derived cells"}, {"TAG": "tissue", "VALUE": "glioblastoma stem cells"}, {"TAG": "cell type", "VALUE": "GSC1517"}, {"TAG": "treatment", "VALUE": "shCONT"}]
Pool_Member_@attributes_sample_title: GSC1517_Control_KD_rep2_Hi-C
RUN_SET_RUN_Pool_Member_@attributes_sample_title: GSC1517_Control_KD_rep2_Hi-C
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Control_KD_rep2_R1.fq.gz", "size": "9474110935", "date": "2020-08-06 17:25:05", "md5": "e554c925bedecd9bee4b41a639492491", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Control_KD_rep2_R2.fq.gz", "size": "10569341614", "date": "2020-08-06 17:29:37", "md5": "ff71c92c2ce7cd9f4e82643fe2db8fda", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR12403818", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR12403818/SRR12403818", "size": "13332734834", "date": "2020-08-06 17:38:37", "md5": "527b699bd6dea7f1c5e5fff940dc1a33", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR12403818.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-18/SRR012/12403/SRR12403818/SRR12403818.lite.1", "size": "8985755862", "date": "2022-07-27 07:18:13", "md5": "cf27572457886a1cb220d54b7ffcc5e5", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]