|
| Status |
Public on May 04, 2021 |
| Title |
∆wee1control_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
whole cell extract
|
| Organism |
Schizosaccharomyces pombe |
| Characteristics |
cell type: unicellular, eukaryote
genotype: h- wee1::ura4+ leu-32 ura4-D18
treatment: untreated
|
| Treatment protocol |
Mid-log phase cells were treated with 20mM H2O2 for 15mins, keeping untreated control separately
|
| Growth protocol |
Cells were grown to mid-log phase at 300C in yeast extract with supplements (YES) medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol ™ Reagent (Invitrogen) was used for RNA isolation and RNA was thereafter precipitated from the aqueous layer with isopropanol
TruSeq stranded mRNA sample preparation protocol was used
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
MC
|
| Data processing |
Raw FASTQ Adapter Trimming and Quality filtering were performed using cutadapt
Mapping was done to the reference genome(downloaded from ensemblgenomes)using Hisat2 to evaluate sample quality
Differential expression analysis was done using Cuffdiff
Gene Ontology Annotations were assigned using Uniprot
|
| |
|
| Submission date |
May 03, 2021 |
| Last update date |
May 04, 2021 |
| Contact name |
Geetanjali Sundaram |
| E-mail(s) |
geetanjali.sundaram@gmail.com
|
| Organization name |
University of Calcutta
|
| Department |
Biochemistry
|
| Street address |
35 Ballugunje circular road
|
| City |
Kolkata |
| ZIP/Postal code |
700019 |
| Country |
India |
| |
|
| Platform ID |
GPL30067 |
| Series (1) |
| GSE173744 |
Investigation of alteration in gene expression during oxidative stress in ∆wee1S. pombe cells |
|
| Relations |
| BioSample |
SAMN18980902 |
| SRA |
SRX10759319 |
