|
| Status |
Public on Aug 06, 2018 |
| Title |
treeShrew_muscle_RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
muscle
|
| Organism |
Tupaia belangeri |
| Characteristics |
tissue: muscle
developmental stage: adult
gender: male
genotype: wild type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA of the tissues was extracted using the Trizol method and analyzed by an Agilent 2100 bio-analyzer (Agilent Technologies).
Strand-specific polyA+ RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
RNA-seq reads were filtered by inhouse scripts to get high quality reads.
High-quality reads were aligned to the corresponding genome using TopHat (v2.1.1).
Genome_build: human: hg19, monkey: rheMac2, tree shrew: tupBel1, mouse: mm9, pig: susScr3
Supplementary_files_format_and_content: bigWig files were generated using wiggles (v1.2.0); scores represented read coverage.
|
| |
|
| Submission date |
Nov 06, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yumei Li |
| E-mail(s) |
yumeil1@uci.edu
|
| Organization name |
University of California, Irvine
|
| Department |
Department of Biological Chemistry
|
| Street address |
825 Health Sciences Road
|
| City |
Irvine |
| State/province |
CA |
| ZIP/Postal code |
92697 |
| Country |
USA |
| |
|
| Platform ID |
GPL24233 |
| Series (2) |
| GSE106577 |
Nucleosome profiles for mammalian tissues [RNA-Seq] |
| GSE106580 |
Nucleosome profiles for mammalian tissues |
|
| Relations |
| BioSample |
SAMN07981768 |
| SRA |
SRX3367376 |
