|
| Status |
Public on Jan 03, 2019 |
| Title |
RNA sequencing in erh1 deleted cells (REP 2) |
| Sample type |
SRA |
| |
|
| Source name |
log. growing cells
|
| Organism |
Schizosaccharomyces pombe |
| Characteristics |
genotype/variation: erh1 deletion
|
| Treatment protocol |
Genomic deletion of erh1 and mmi1. Genomic mutation of mmi1-W112A.
|
| Growth protocol |
Standard conditions were used to produce logarithmically growing cultures in rich media (YEA). Cultures were grown at 32˚C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using hot phenol method.
NEB Ultra Directional RNA Library Prep kit (NEB, E7420S) was used according to manufacturer's recommendation.
Libraries were analyzed using an Agilent 2100 BioAnalyzer (Agilent) and sequenced on the Illumina NextSeq 500 platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Alignment was done using Tophat.
FPKM values were calculated using cufflinks
Genome_build: asm294v2.28
Supplementary_files_format_and_content: Tab delimited text files, from cufflinks
|
| |
|
| Submission date |
Sep 06, 2018 |
| Last update date |
Jan 03, 2019 |
| Contact name |
Shiv Grewal |
| Phone |
2407607553
|
| Organization name |
NCI
|
| Department |
LBMB
|
| Lab |
Shiv Grewal
|
| Street address |
NCI bldg 37 Rm 6068 9000 Rockville Pike
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL20584 |
| Series (1) |
| GSE119605 |
Expression profilings of fission yeast strains |
|
| Relations |
| BioSample |
SAMN09986315 |
| SRA |
SRX4650538 |
