|
| Status |
Public on Oct 14, 2011 |
| Title |
cyno_ileum |
| Sample type |
SRA |
| |
|
| Source name |
ileum
|
| Organism |
Macaca fascicularis |
| Characteristics |
species: crab-eating macaque
tissue: ileum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using TRIzol Reagent For RNA-seq, poly-A+ RNA was isolated with 30 oligo-dT-coupled beads from 20 μg total RNA of each sample. First strand cDNA synthesis was performed with random hexamers and Superscript II reverse transcriptase (Invitrogen). The second strand was synthesized with E. coli DNA PolI (Invitrogen). Double stranded cDNA was purified with Qiaquick PCR purification kit (Qiagen), and sheared with a nebulizer (Invitrogen) to 100-500 bp fragments. After end repair and addition of a 3â dA overhang the cDNA was ligated to Illumina PE adapter oligo mix, and size selected to 200±20 bp fragments by gel purification. After 15 cycles of PCR amplification the libraries were sequenced using a 1G Illumina Genome Analyzer and the paired-end sequencing module.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
Sequenced reads were generated from ileum in crab-eating macaque
|
| Data processing |
use rheMac2 and crab-eating macaque genome as reference, sequenced reads were aligned onto the corresponding reference using TopHat v1.0.11 with default parameters except -r 20 --mate-std-dev 20 --solexa1.3-quals
|
| |
|
| Submission date |
May 31, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
zhiyong huang |
| E-mail(s) |
huangzhiyong@genomics.org.cn
|
| Organization name |
BGI-Shenzhen, Shenzhen 518083, China
|
| Street address |
F5, Main Building, Beishan Industrial Zone, Beishan Road, Yantian District
|
| City |
shenzhen |
| State/province |
Guangdong |
| ZIP/Postal code |
518083 |
| Country |
China |
| |
|
| Platform ID |
GPL13663 |
| Series (1) |
| GSE29629 |
Transcriptome sequencing of two macaques, crab-eating macaque and Indian rhesus macaque |
|
| Relations |
| SRA |
SRX066567 |
| BioSample |
SAMN00622001 |
