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Sample GSM2174920 Query DataSets for GSM2174920
Status Public on Oct 23, 2018
Title SNB19_BS
Sample type SRA
 
Source name normal human SNB19 cells - bisulfite-treated mRNAs
Organism Homo sapiens
Characteristics cell line: SNB19
cell type: Glioma
Extracted molecule total RNA
Extraction protocol mRNAs of of human and mouse cell lines were purified using oligo (dT)-conjugated magnetic beads followed by RiboMinus treatement.
Bisulfite treated mRNAs were reverse transcribed to cDNA using ACT random hexamer primers. The cDNAs were subjected to libraries construction using KAPA Stranded mRNA-Seq Kit (KAPA)
 
Library strategy OTHER
Library source transcriptomic
Library selection other
Instrument model Illumina HiSeq 2000
 
Description bisulfite treated mRNA
Human Glioma
Data processing Raw reads for each sample were stripped of adaptor sequences and low quality bases were removed using Trimmomatic. Filtered paired-end reads were mapped against human (hg19) or mouse (mm10) reference genome by Bismark.
The methylated sites were called by Bismark (http://www.bioinformatics.babraham.ac.uk/projects/bismark/).
Genome_build: hg19 or mm10
Supplementary_files_format_and_content: supplementary file includes the methylated sites
 
Submission date May 23, 2016
Last update date May 15, 2019
Contact name Bao-Fa Sun
E-mail(s) sunbf@big.ac.cn
Organization name Beijing Institute of Genomics (BIG) of Chinese Academy of Sciences (CAS)
Street address Da-Tun Road
City Beijing
ZIP/Postal code 100101
Country China
 
Platform ID GPL11154
Series (1)
GSE74771 Single-base resolution methylome of 5-methylcytosine in mammalian transcriptome
Relations
BioSample SAMN05163473
SRA SRX1792777

Supplementary file Size Download File type/resource
GSM2174920_SNB19_BS.txt.gz 102.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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