|
| Status |
Public on Oct 14, 2016 |
| Title |
R1_IP |
| Sample type |
SRA |
| |
|
| Source name |
LCL
|
| Organism |
Macaca mulatta |
| Characteristics |
cell line: lymphoblastoid cell line (LCL)
ip antibody: m6A specific antibody (SYSY, CAT#202003, LOT#42)
|
| Treatment protocol |
mRNA was fragmented to ~100nt, and enriched by m6A specific antibody
|
| Growth protocol |
LCLs were cultured in RPMI1640 media with 15% FBS and Penicillin-Streptomycin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Regular RNA isolation
Illumina TruSeq stranded total RNA protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
library strategy: m6A-seq
Base calling was performed using CASAVA 1.3
Alignment was done by TopHat v2.0.14
Peak calling was done by customized algorithm
Genome_build: hg38; panTro4; rheMac2(Mmul_051212)
Supplementary_files_format_and_content: Peaks were generated by customized algorithm, enrichment score of each peak file represented the ratio of reads between m6A-enriched mRNA and intact mRNA.
|
| |
|
| Submission date |
Jun 26, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Kevin P. White |
| E-mail(s) |
kpwhite@uchicago.edu
|
| Organization name |
University of Chicago
|
| Department |
Institute for Genomics and Systems Biology
|
| Street address |
900 E. 57th STR. 10th FL.
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60615 |
| Country |
USA |
| |
|
| Platform ID |
GPL19129 |
| Series (1) |
| GSE70299 |
The evolution of N6-methyladenosine in primates |
|
| Relations |
| BioSample |
SAMN03797551 |
| SRA |
SRX1074166 |
