|
| Status |
Public on Apr 07, 2021 |
| Title |
BC187 Rep3 |
| Sample type |
SRA |
| |
|
| Source name |
BC187
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain/isolate: BC187
genetic lineage: Wine/European
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 |
BC187_Rep3_ATTCAGAA-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 |
SAMN18640476 |
| SRA |
SRX10525275 |
