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Sample GSM3423435 Query DataSets for GSM3423435
Status Public on Jul 16, 2019
Title Ash2l_WT_Rep1_AM_ChIPSeq
Sample type SRA
 
Source name dorsal cortex
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: dorsal cortex
age: E14.5
genotype: WT
chip antibody: Ash2l (Active Motif, 39099)
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei of E14.5 dorsal cortex and Ash2l/histone-DNA complexes were isolated with antibody.
Libraries were prepared according to Illumina's instructions
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
 
Data processing The 75-nt sequence reads generated by Illumina sequencing were mapped to the genome using the Burrows-Wheeler Aligner algorithm with default settings.Only reads that passed Illumina’s purity filter, aligned with no more than 2 mismatches, and mapped uniquely to the mouse genome (mm10) were used in the subsequent analysis
For identifying intervals over input control, the MACS cutoff for the false discovery rate after controlling for significance was P=1×10^ –7.
The two main peak callers used at this study are MACS (Zhang et al., Genome Biology 2008, 9:R137) and SICER (Zang et al., Bioinformatics 25, 1952-1958, 2009)
Genome_build: mm10
Supplementary_files_format_and_content: bigWig. Files with extension *.bw. Binary files that can be opened in or uploaded to genome browsers and show the fragment density for 32-nt bins along the genome (“signal map”)
 
Submission date Oct 09, 2018
Last update date Jul 17, 2019
Contact name Xiaozhong Peng
E-mail(s) pengxiaozhong@pumc.edu.cn
Phone 86 69156434
Organization name Chinese Academy of Medical Sciences, School of Basic Medicine Peking Union Medical College
Department Department of Biochemistry and Molecular Biology, Institute of Basic Medical Sciences
Lab Lab of Xiaozhong Peng
Street address No.5, Dongdan Santiao, Dongcheng District
City Beijing
ZIP/Postal code 100005
Country China
 
Platform ID GPL19057
Series (2)
GSE120987 COMPASS Family Histone Methyltransferase ASH2L Mediates Corticogenesis via Transcriptional Regulation of Wnt Signaling [ChIP-seq]
GSE120988 COMPASS Family Histone Methyltransferase ASH2L Mediates Corticogenesis via Transcriptional Regulation of Wnt Signaling
Relations
BioSample SAMN10220957
SRA SRX4816218

Supplementary file Size Download File type/resource
GSM3423435_3a_02ZF_00CJCAMS_E14.5-WT-cortex1_ASH2L_mm10_i79_uniqnorm_signal.bw 156.5 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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