|
| Status |
Public on Jan 31, 2019 |
| Title |
CAY7058gray-2 |
| Sample type |
SRA |
| |
|
| Source name |
Candida albicans intermediate cells
|
| Organism |
Candida albicans |
| Characteristics |
strain background: SC5314
cell state: intermediate
|
| Growth protocol |
Cells were grown in SCD overnight, diluted in fresh SCD to an OD600 of 0.1 and harvested in exponential growth at an OD600 of 1.0
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The MasterPure Yeast RNA Purification Kit (Epicentre) was used to purify RNA. RNA was treated with Turbo DNaseI (Ambion).
PolyA RNA was isolated and used to construct strand-specific libraries using the dUTP second strand marking method using the Illumina TruSeq Stranded library preparation kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
cell at OD=1 in log-phase
|
| Data processing |
Reads were aligned to the C. albicans SC5314 A21 genome and assigned to individual A21 genome features (http://candidagenome.org/download/gff) using STAR v2.5
Transcript abundance measurements were calculated using HTseq (version 0.8.0) as transcripts per million (TPM)
Genome_build: SC5314 A21 genome
|
| |
|
| Submission date |
Oct 20, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Richard Bennett |
| E-mail(s) |
[email protected]
|
| Organization name |
Brown University
|
| Department |
Molecular Microbiology and Immunology
|
| Lab |
Bennett
|
| Street address |
171 Meeting St
|
| City |
Providence |
| State/province |
RI |
| ZIP/Postal code |
02912 |
| Country |
USA |
| |
|
| Platform ID |
GPL19036 |
| Series (1) |
| GSE105399 |
Analysis of Transcript Abundance in white, intermediate, and opaque cell states from WT and EFG1 heterozygotes in Candida albicans |
|
| Relations |
| BioSample |
SAMN07816373 |
| SRA |
SRX3304727 |
