|
Status |
Public on Oct 19, 2017 |
Title |
WT rep2 (RNA-Seq) |
Sample type |
SRA |
|
|
Source name |
whole organism
|
Organism |
Caenorhabditis elegans |
Characteristics |
developmental stage: L4 genotype: wildtype N2 tissue: whole organism
|
Treatment protocol |
No special treatment
|
Growth protocol |
WT Caenorhabditis elegans (N2 Bristol) animals were cultured on OP50 bacteria at 25°C, and collected at the last larval stage (mid-L4 – 29 h time point). Standard worm synchronization methods were used.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted with Trizol and DNAse treated. These samples were prepared for sequencing by rRNA depletion with Ribo-Zero rRNA Removal Mix – Gold (Illumina), and the TruSeq Stranded Total RNA Library Prep Kit (Illumina) according to the Low Sample Protocol.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Read counts were quantified using kallisto. These were then aligned to C. elegans genome WS247. Genome_build: WS247 Supplementary_files_format_and_content: Csv; Contains tpm values for each replicate
|
|
|
Submission date |
Oct 02, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Amy Pasquinelli |
E-mail(s) |
apasquinelli@ucsd.edu
|
Organization name |
University of California, San Diego
|
Department |
Biological Sciences
|
Lab |
Pasquinelli Lab
|
Street address |
9500 Gilman Drive
|
City |
La Jolla |
State/province |
CA |
ZIP/Postal code |
92093 |
Country |
USA |
|
|
Platform ID |
GPL18245 |
Series (2) |
GSE104500 |
RNA-Seq of L4 C. elegans |
GSE104502 |
Short Poly(A) Tails are a Conserved Feature of Highly Expressed Genes |
|
Relations |
BioSample |
SAMN07730914 |
SRA |
SRX3237805 |