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Sample GSM4308220 Query DataSets for GSM4308220
Status Public on Dec 20, 2020
Title Ba/F3_Phf23-ChIP-1
Sample type SRA
 
Source name Ba/F3 cells
Organism Mus musculus
Characteristics tissue: Ba/F3 cells
plasmids: (MSCV-IRES-mCherry)pMIC-mPhf23-flag
replicates: Phf23_rep1
antibody: FLAG M2 agarose beads(Sigma, A2220)
Treatment protocol Ba/F3 cells were transducted with mCherry labelled and flag tagged mouse Phf23 (pMIC-mPhf23-flag) through retroviral infection. 48h after infection, the mCherry positive cells were sorted out by FACS AriaIII and cultured in vitro.
Growth protocol Ba/F3 cells were cultured in RPMI 1640 medium supplemented with 10% FBS, 1% Pen/Strep and 2ng/ml mouse IL3.
Extracted molecule genomic DNA
Extraction protocol The ChIP DNA was purified with Qiagen MinElute PCR Purification Kit
ChIP DNA was prepared according to the protocol provided in Methods.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NovaSeq 6000
 
Data processing ChIP-seq reads were aligned to the mm10 genome assembly using STAR_2.6.0a
Bam files were transformed to bigwig files by Deeptools
peaks were called using macs2 2.1.1
processed data files format and content: bigWig and peak files
 
Submission date Feb 12, 2020
Last update date Dec 20, 2020
Contact name Xaingyu Pan
E-mail(s) pangxueyu233@outlook.com
Organization name Sichuan University
Department State Key Laboratory of Biotherapy, West China Hospital, Sihcuan University.
Lab Chen & Liu Lab
Street address No.17 Renming road section3
City Chengdu, Cihna
State/province Sichuan
ZIP/Postal code 610041
Country China
 
Platform ID GPL24247
Series (1)
GSE145190 An epigenetic mechanism underlying chromosome 17p deletion-driven tumorigenesis
Relations
BioSample SAMN14088617
SRA SRX7713738

Supplementary file Size Download File type/resource
GSM4308220_Phf23_1.bw 118.3 Mb (ftp)(http) BW
GSM4308220_Phf23_1_peaks.narrowPeak.gz 214.7 Kb (ftp)(http) NARROWPEAK
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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