|
| Status |
Public on Dec 14, 2011 |
| Title |
Acar_38S |
| Sample type |
SRA |
| |
|
| Source name |
Anolis carolinensis whole embryo, 38 somite pairs
|
| Organism |
Anolis carolinensis |
| Characteristics |
tissue: whole embryo
developmental stage: 38 somite stage embryo
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the total RNA component of the mirVana (Ambion) kit. RNA-Seq library prep was carried out using the NuGEN Ovation RNA-Seq kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Anolis carolinensis embryo with 38 somite pairs.
|
| Data processing |
genes_38S.expr.txt; genome build: Anocarol2.0.61
transcripts_38S.expr.txt; genome build: Anocarol2.0.61
Raw reads from Illumina Hi-Seq 2000 were aligned to the Anolis carolinensis genome build (Anocar2.0.61) using tophat under default conditions. Cufflinks was run using the .bam files from tophat under default conditions and giving it the Anocarol2.0.61 gtf file for gene annotations. The Cufflinks output files (genes_*.expr, transcripts_*.expr) contain the RNA-seq data aligned to the Anolis carolinesis genome build 2.0.61.
|
| |
|
| Submission date |
Dec 13, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Kenro Kusumi |
| E-mail(s) |
kenro.kusumi@asu.edu, weckalba@asu.edu
|
| Phone |
480-727-8993
|
| Fax |
480-965-6899
|
| URL |
http://anolisgenome.org
|
| Organization name |
Arizona State University
|
| Department |
School of Life Sciences
|
| Street address |
427 E Tyler Mall
|
| City |
Tempe |
| ZIP/Postal code |
85287 |
| Country |
USA |
| |
|
| Platform ID |
GPL15001 |
| Series (1) |
| GSE34415 |
The transcriptome of embryos of the green anole, Anolis carolinensis, at 28 and 38 somite pair stages |
|
| Relations |
| SRA |
SRX111310 |
| BioSample |
SAMN00765432 |
