|
| Status |
Public on Sep 04, 2023 |
| Title |
WT_7AM_biol rep 4 |
| Sample type |
SRA |
| |
|
| Source name |
Whole body
|
| Organism |
Aedes aegypti |
| Characteristics |
tissue: Whole body
Sex: female
genotype: Wildtype
zitgeber time_point: ZT1
treatment: NA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from each sample using miRNeasy (Qiagen) columns using the protocol provided by Qiagen.
Messenger RNA was enriched from about 1 μg of total RNA using the Poly-A enrichment method and cDNA libraries were prepared using an Illumina TruSeq RNA Library kit (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The resulting sequences were evaluated for quality using FastQC (version 0.11.9.). Paired end adaptors were trimmed using TrimGalore v.0.6.6.
The Ae. aegypti genome sequence (version: AaegL5_2) from Vectorbase was used for mapping and alignments by HISAT2 (version 2.2.1). Raw read indexing and sorting alignments were performed using SAMtools (version 1.11) and count files were generated using HTseq (version 0.11.3).
Assembly: The Ae. aegypti genome sequence (version: AaegL5_2) from Vectorbase was used for mapping and alignments by HISAT2 (version 2.2.1).
Supplementary files format and content: Raw read indexing and sorting alignments were performed using SAMtools (version 1.11) and count files were generated using HTseq (version 0.11.3).
Supplementary files format and content: count files were generated using HTseq (version 0.11.3).
|
| |
|
| Submission date |
Aug 30, 2023 |
| Last update date |
Sep 04, 2023 |
| Contact name |
Vinaya Shetty |
| E-mail(s) |
[email protected]
|
| Phone |
9492328363
|
| Organization name |
Texas A&M University
|
| Department |
Entomology
|
| Lab |
Zach Adelman
|
| Street address |
Heep Center, 2475 TAMU, 370 Olsen Blvd
|
| City |
College Statioon |
| State/province |
TX |
| ZIP/Postal code |
77843 |
| Country |
USA |
| |
|
| Platform ID |
GPL28657 |
| Series (1) |
| GSE241953 |
Differential gene expression analysis of cycle gene knockout Aedes aegypti mosquito |
|
| Relations |
| BioSample |
SAMN37200543 |
| SRA |
SRX21537623 |
