|
Status |
Public on Apr 07, 2020 |
Title |
RNAseq of pir2-1 cells |
Sample type |
SRA |
|
|
Source name |
log. growing cells
|
Organism |
Schizosaccharomyces pombe |
Characteristics |
growth stage: log. growing cells genotype: pir2-1 mutant
|
Treatment protocol |
Temperature sensitive mutation of Pir2.
|
Growth protocol |
Standard conditions were used for logarithmically growing cultures in rich media (YEA). Cultures were grown at 26C overnight and then shifted to 33C for 5hrs.
|
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 4200 TapeStation system (Agilent) and sequenced on the Illumina MiSEQ system.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina MiSeq |
|
|
Description |
pir2-1-RNAseq
|
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 |
Jul 31, 2019 |
Last update date |
Apr 07, 2020 |
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 |
GPL16192 |
Series (2) |
GSE135159 |
Cryptic introns in lncRNAs recruit conserved Pir2/ARS2 protein to promote gene repression [RNA-Seq] |
GSE135161 |
Cryptic introns in lncRNAs recruit conserved Pir2/ARS2 protein to promote gene repression |
|
Relations |
BioSample |
SAMN12404868 |
SRA |
SRX6619816 |