|
Status |
Public on Oct 19, 2021 |
Title |
NU_FSU_N1_all_RNAseq |
Sample type |
SRA |
|
|
Source name |
N2_6 hours_Rotenone 100 nM
|
Organism |
Caenorhabditis elegans |
Characteristics |
strain: N2 tissue: whole worm age: 6 hours Sex: hermaphrodite perturbation: Rotenone 100 nM
|
Extracted molecule |
total RNA |
Extraction protocol |
Extraction was done as described in Baumgart et al. 2012. (PMID:22487494) Library preparation was done using Illumina's TruSeq RNA Library Preparation Kit v2 following the manufacturer's instruction.
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|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
N1_CGATGT_L002
|
Data processing |
Sequence information was extracted in FastQ format using bcl2fastq software 1.8.4 data processing step. Reads were mapped using STAR (2.4.1d). Reads per gene were counted using featureCounts (1.4.6-p4). Counts were normalized to RPKM values as described in Mortazavi et al. (2008). Genome_build: genome: WBcel235, and respective gene annotation (WBcel235.84) Supplementary_files_format_and_content: The Excel files include raw counts (sample_counts.xls) and RPKM values (sample_rpkms.xls) of all genes for each sample.
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|
|
Submission date |
Feb 20, 2018 |
Last update date |
Oct 19, 2021 |
Contact name |
JenAge Project |
E-mail(s) |
geo-data@jenage.de
|
Organization name |
Leibniz Institute for Age Research - Fritz Lipmann Institute
|
Street address |
Beutenbergstr. 11
|
City |
Jena |
ZIP/Postal code |
D-07745 |
Country |
Germany |
|
|
Platform ID |
GPL18245 |
Series (1) |
GSE110834 |
Sequencing of Caenorhabditis elegans at 5 different time point after Rotenone and DMSO treatment (mRNA) |
|
Relations |
BioSample |
SAMN08567598 |
SRA |
SRX3723314 |