|
| Status |
Public on Oct 23, 2018 |
| Title |
ALYREF-IP_rep1BS |
| Sample type |
SRA |
| |
|
| Source name |
ALYREF-IP human HeLa cells - bisulfite-treated mRNAs
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
cell type: Carcinoma cervical
|
| 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 3000 |
| |
|
| Description |
bisulfite treated ALYREF-IP-mRNA
Human HeLa cells
|
| 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 |
GPL21290 |
| Series (1) |
| GSE74771 |
Single-base resolution methylome of 5-methylcytosine in mammalian transcriptome |
|
| Relations |
| BioSample |
SAMN05163476 |
| SRA |
SRX1792780 |
