|
Status |
Public on Sep 10, 2009 |
Title |
smallRNA-K.polysporus-WT |
Sample type |
SRA |
|
|
Source name |
log-phase liquid culture, WT
|
Organism |
Vanderwaltozyma polyspora |
Characteristics |
strain: KpolWT
|
Growth protocol |
Liquid cultures were grown at 25ºC (S. castellii and K. polysporus) or 30ºC (S. bayanus, S. cerevisiae and C. albicans) to log-phase.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated using hot phenol from log-phase YPD cultures. Small-RNA cDNA libraries were prepared as described in Grimson et al. (2008).
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
Illumina Genome Analyzer |
|
|
Description |
Small RNA sequencing, 18-30 nt size selection.
|
Data processing |
After removing the adaptor sequences, reads representing the small RNAs were collapsed to a non-redundant set, and 14–30-nt sequences were mapped to the appropriate genome, allowing no mismatches and recovering all hits. The processed files are collapsed to unique sequences (1 line per sequence); the second (numeric) value in each column is the number of times each unique sequence was sequenced.
|
|
|
Submission date |
Sep 01, 2009 |
Last update date |
May 15, 2019 |
Contact name |
David Eric Weinberg |
E-mail(s) |
david.weinberg@ucsf.edu
|
Phone |
415-514-9723
|
Organization name |
University of California, San Francisco
|
Lab |
Weinberg
|
Street address |
600 16th Street, GH S572F
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94158 |
Country |
USA |
|
|
Platform ID |
GPL9132 |
Series (2) |
|
Relations |
SRA |
SRX012937 |
BioSample |
SAMN00005080 |