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Sample GSM6467251 Query DataSets for GSM6467251
Status Public on Feb 07, 2024
Title BrainC_Cattle
Sample type SRA
 
Source name brain
Organism Bos taurus
Characteristics tissue: brain
developmental stage: adult
Extracted molecule genomic DNA
Extraction protocol DNA was extracted according to the TIANamp Genomic DNA Kit protocol
DNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy Bisulfite-Seq
Library source genomic
Library selection RANDOM
Instrument model HiSeq X Ten
 
Data processing FastQC v 0.11.2 and Trim Galore v 0.4.0 was used to assess the quality of the sequence data and filter low-quality reads (q < 30), respectively. The cleaned data were then mapped to the sscrofa11.1 genomes using bowtie2 under the Bismark software (0.14.5) with default parameters
Duplicated reads were removed using deduplicate_bismark
symmetric-cpgs was employed to obtain methyl CpG site information using methpipe software
Assembly: ARS-UCD1.2, Oar_rambouillet_v1.0, ARS1
Supplementary files format and content: CpG report files
 
Submission date Aug 16, 2022
Last update date Feb 07, 2024
Contact name Siqian Chen
E-mail(s) siqianchen1994@gmail.com
Phone 15652765993
Organization name China Agricultural University
Department College of Animal Science and Technology
Lab National Engineering Laboratory for Animal Breeding
Street address 2rd, Yuanmingyuan West Road
City Beijing
ZIP/Postal code 100193
Country China
 
Platform ID GPL24230
Series (1)
GSE211353 Comparative epigenomic analyses of DNA methylomes and gene expression during ruminant evolution
Relations
BioSample SAMN30346393
SRA SRX17100914

Supplementary file Size Download File type/resource
GSM6467251_BrainC_Cattle_CpG.txt.gz 147.4 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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