|
Status |
Public on Apr 07, 2021 |
Title |
YJM1389 Rep3 |
Sample type |
SRA |
|
|
Source name |
YJM1389
|
Organism |
Saccharomyces cerevisiae |
Characteristics |
strain/isolate: YJM1389 genetic lineage: Asian/Sake media: YPD
|
Growth protocol |
All strains were grown in YPD for at least 3 generations to an OD600 ~0.5
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted with hot phenol protocol; RNA was rRNA-depleted with Illumina's Ribo-Zero (Yeast) rRNA Removal Kit cDNA library was prepared with Illumina's TruSeq Total RNA Stranded Kit
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
YJM1389_Rep3_GAGATTCC-TATAGCCT
|
Data processing |
Reads trimmed w/ Trimmomatic-0.30 Read alignment done w/ BWA mem Version: 0.7.12-r1039 Read sorting and indexing w/ Samtools 1.2 (htslib 1.2.1) Gene counts generated w/ HTSeq version 0.6.0 Genome_build: SGD S288C R64-1-1 Supplementary_files_format_and_content: HTSeq count tables w/ gene counts for each sample
|
|
|
Submission date |
Apr 06, 2021 |
Last update date |
Apr 07, 2021 |
Contact name |
Audrey Gasch |
E-mail(s) |
agasch@wisc.edu
|
Organization name |
University of Wisconsin
|
Department |
Genetics
|
Street address |
425G Henry mall
|
City |
Madison |
State/province |
WI |
ZIP/Postal code |
53706 |
Country |
USA |
|
|
Platform ID |
GPL17342 |
Series (2) |
GSE171585 |
Natural Variation in the Fitness Consequences of Gene Amplification in Wild Saccharomyces cerevisiae Isolates [RNA-seq] |
GSE171587 |
Natural Variation in the Fitness Consequences of Gene Amplification in Wild Saccharomyces cerevisiae Isolates |
|
Relations |
BioSample |
SAMN18640490 |
SRA |
SRX10525305 |