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Status |
Public on Mar 22, 2023 |
Title |
ISO-H3K27me3 |
Sample type |
SRA |
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Source name |
Human hepatoblastoma
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Organism |
Homo sapiens |
Characteristics |
tissue: Human hepatoblastoma cell line: HepG2 cell type: Human hepatoblastoma genotype: WT treatment: ISO chip antibody: H3K27me3, CST , 9733, 19
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Extracted molecule |
genomic DNA |
Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were constructed by VATHS Universal DNA Library Prep Kit for Illumina (Vazyme ND604).
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Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 2000 |
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Data processing |
All ChIP-seq raw fastq data was cleaned by removing adaptor sequence. Cleaned reads were aligned to human reference genome (hg19) using Bowtie2 (-q --phred33 --end-to-end --sensitive -k 1 -p 5 --fr --no-mixed --no-discordant -X 1000) Peaks calling was finished by MACS2 (v 2.1.1) with the parameters --nomodel --keep-dup all -p 1E-10 --broad --broad-cutoff 1E-10 --extsize 147. Assembly: hg38 Supplementary files format and content: bigWig files were generated from bam files; Scores represent the RPM value
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Submission date |
May 10, 2022 |
Last update date |
Mar 22, 2023 |
Contact name |
Jie Yao |
E-mail(s) |
yaojie@whu.edu.cn
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Phone |
18771075190
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Organization name |
wuhan university
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Street address |
wuhan hubei province
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City |
wuhan |
State/province |
湖北 |
ZIP/Postal code |
430072 |
Country |
China |
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Platform ID |
GPL11154 |
Series (2) |
GSE188535 |
Isoginkgetin induces autophagic cell death in hepatocellular carcinoma |
GSE202612 |
Isoginkgetin induces autophagic cell death in hepatocellular carcinoma [ChIP-seq 2] |
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Relations |
BioSample |
SAMN28173670 |
SRA |
SRX15220806 |
Supplementary file |
Size |
Download |
File type/resource |
GSM6125713_Isoginkgetin-h3k27me3.bw |
652.0 Mb |
(ftp)(http) |
BW |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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