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Sample GSM1932919 Query DataSets for GSM1932919
Status Public on Oct 23, 2018
Title siCTRL_HeLa_rep2BS
Sample type SRA
 
Source name Human HeLa cells
Organism Homo sapiens
Characteristics cell line: HeLa
transfection: siCTRL
tissue: carcinoma cervical
Extracted molecule polyA RNA
Extraction protocol mRNAs of siCTRL HeLa cells 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) and performed sequencing on HiSeq2000 (Illumina) in pair-end mode, creating reads with a length of 101 bp.
 
Library strategy OTHER
Library source transcriptomic
Library selection other
Instrument model Illumina HiSeq 2000
 
Description mRNA m5C profiles in normal HeLa cells rep2
Data processing Raw Reads were stripped of adaptor sequences and low quality bases were removed using Trimmomatic. Filtered paired-end RNA-BisSeq reads were mapped against human (hg19) reference genome by Bismark (version 0.13.0). The m5C sites calling was performed using Bismark (version 0.13.0).
Genome_build: hg19
Supplementary_files_format_and_content: txt format. Information of m5C positions and modified gene types (hg19).
 
Submission date Nov 06, 2015
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 SAMN04247333
SRA SRX1422955

Supplementary file Size Download File type/resource
GSM1932919_siCTRL_HeLa_rep2BS.txt.gz 47.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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