|
| Status |
Public on Mar 21, 2022 |
| Title |
ASM33_2 |
| Sample type |
SRA |
| |
|
| Source name |
Candida albicans clinical isolate P57055
|
| Organism |
Candida albicans |
| Characteristics |
genotype: hgc1 mutant P57055
culture condition: RPMI +10% SERUM, 37°C-4HRS
|
| Growth protocol |
C. albicans cells were culturered in RPMI+%10 SERUM at 37°C for 4 hours
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using a Qiagen RNeasy mini kit (Cat#74104) following manufacturer's instructions.
Library was constructed using NEBNext Ultra RNA Library Prep Kit for Illumina (NEB, USA), following manufacturer's instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
The clustering of the index-coded samples was performed on a cBot Cluster Generation System using PE Cluster Kit cBot-HS (Illumina)
Library preparations were sequenced on an Illumina platform and 125 bp/150 bp paired-end reads were generated.
Paired-end clean reads were aligned to the reference genome using HISAT2.
FeatureCounts v1.5.0-p3 was used to count the reads numbers mapped to each gene.
Differential expression analysis between two conditions/groups (two biological replicates per condition) was performed using the DESeq2 R package (1.14.1)
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
Supplementary files format and content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Mar 14, 2022 |
| Last update date |
Mar 21, 2022 |
| Contact name |
Aaron P Mitchell |
| E-mail(s) |
aaron.mitchell@uga.edu
|
| Organization name |
University of Georgia
|
| Department |
Microbiology
|
| Lab |
Dr Aaron P Mitchell
|
| Street address |
120 EAST GREEN STREET
|
| City |
ATHENS |
| State/province |
GA |
| ZIP/Postal code |
30602 |
| Country |
USA |
| |
|
| Platform ID |
GPL22403 |
| Series (1) |
| GSE198594 |
Natural variation in phenotypic impact of Candida albicans cyclin gene HGC1 |
|
| Relations |
| BioSample |
SAMN26657569 |
| SRA |
SRX14462256 |
