|
| Status |
Public on Dec 16, 2011 |
| Title |
0-2 hr embryo |
| Sample type |
SRA |
| |
|
| Source name |
embryo, Liverpool strain
|
| Organism |
Aedes aegypti |
| Characteristics |
strain: Liverpool
tissue: embryo
developmental stage: 0-2 hr embryo
|
| Treatment protocol |
Female mosquitoes were both blood fed or nonbloodfed depending on the sample
|
| Growth protocol |
Mosquitoes were reared in a 28 degree C incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA-Seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
sam01_fa_bowtie.bed; genome build: AaegL1
a. NGS transcriptome raw data were alinged to the Ae. aegypti supercontigs genome (AaegL1 by http://www.vectorbase.org) using Bowtie (Ver. 0.12.7 - http://bowtie-bio.sourceforge.net) alignment program. Options: default quality policy (-n 2 -l 28 -e 70) with --best option. See the Bowtie manual at http://bowtie-bio.sourceforge.net/manual.shtml b. Bowtie outputs (.map) were converted to the SAM format by SAMtools (http://samtools.sourceforge.net/). c. SAM files were converted to the BAM binary format by SAMtools. d. BAM binary format were converted to the BED format by bedtools (http://code.google.com/p/bedtools/).
|
| |
|
| Submission date |
Dec 09, 2011 |
| Last update date |
Jun 11, 2013 |
| Contact name |
Zhijian Tu |
| E-mail(s) |
[email protected]
|
| Phone |
(540) 231-8062
|
| URL |
http://www.biochem.vt.edu/faculty.php?lname=Tu&view=yes
|
| Organization name |
Virginia Tech
|
| Department |
Biochemistry
|
| Lab |
Tu Lab
|
| Street address |
309 Engel Hall
|
| City |
Blacksburg |
| State/province |
VA |
| ZIP/Postal code |
24061 |
| Country |
USA |
| |
|
| Platform ID |
GPL11087 |
| Series (2) |
| GSE34319 |
Transcriptome Sequencing of Life Stages and Tissues of the Yellow Fever Mosquito Ae. aegypti |
| GSE34480 |
Aedes aegypti embryos |
|
| Relations |
| BioSample |
SAMN02197684 |
