|
| Status |
Public on Apr 19, 2017 |
| Title |
HeLa-siNSUN2-BS-rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Human HeLa cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
treatment: siNSUN2
age: P7
tissue: carcinoma cervical
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNAs of siCTRL, siNSUN2 and ALYREF-RIP HeLa cells, and multiple mouse tissues 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 2500 |
| |
|
| Description |
bisulfite treated mRNA
NSUN2 deficient HeLa cells rep1
Human_m5C_sites_information.xls
|
| Data processing |
Raw Reads were stripped of adaptor sequence and removed low quality bases using Trimmomatic, clean reads were aligned to the hg19 or mm10 genome assembly using bismark
The m5C sites were called by bismark.
Genome_build: hg19 or mm10
Supplementary_files_format_and_content: Human_m5C_sites_information.xls, m5C_sites_in_ALYREF-RIP.xls, Mouse_m5C_sites_information.xls
|
| |
|
| Submission date |
Jan 18, 2017 |
| 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 |
GPL16791 |
| Series (2) |
| GSE93749 |
Single-base resolution methylome of 5-Methylcytosine in human and mouse transcriptome |
| GSE93751 |
5-methylcytosine promotes mRNA export |
|
| Relations |
| BioSample |
SAMN06237535 |
| SRA |
SRX2499521 |
