|
| Status |
Public on Aug 11, 2017 |
| Title |
SX3024_OrV_1 |
| Sample type |
SRA |
| |
|
| Source name |
whole animal,mixed population
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: SX3024
infection: OrV
|
| Growth protocol |
All strains were grown on NGM plates seeded with HB101 E coli
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Animals were crack frozen in liquid nitrogen and RNA was extracted with Trisure
Libraries were prepared with the NEBNext Poly(A) mRNA magnetic isolation module followed by the NEBNext Ultra RNA library Prep Kit for Illumina
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Alignments were to the C elegans WS236 coding sequences downloaded from wormbase using bowtie2 (version 2.1.0)
Counts were obtained from alignment files using Bedtools version 2.21.0
Normalized counts were obtained using DESeq running through R version 3.1.1
Genome_build: WS236
Supplementary_files_format_and_content: tab-delimited text files include normalised count numbers for each sample
|
| |
|
| Submission date |
Feb 22, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Eric Alexander Miska |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Cambridge
|
| Department |
Gurdon Institute
|
| Street address |
Tennis Court Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 1QN |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL18730 |
| Series (2) |
| GSE95229 |
Role of STA-1 and SID-3 upon Orsay virus infection in C. elegans (RNA-Seq) |
| GSE95230 |
Role of STA-1 and SID-3 upon Orsay virus infection in C. elegans |
|
| Relations |
| BioSample |
SAMN06392933 |
| SRA |
SRX2582970 |
