|
| Status |
Public on Jul 08, 2021 |
| Title |
contr_3 |
| Sample type |
SRA |
| |
|
| Source name |
Candida albicans
|
| Organism |
Candida albicans |
| Characteristics |
treatment: C. albicans SC5314 cells without drug treatment
strain: SC5314
|
| Treatment protocol |
Overnight grown C. albicans SC5314 were diluted to 1E7 cells per milliliter RPMI1640 medium amd treated by 19ak (0.5 μg/mL or 2 μg/mL) for 6 h at 30℃.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using a RiboPure-Yeast kit (Ambion) according to the manufacturer’s instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Index of the reference genome was built using Hisat2 v2.0.5 and paired-end clean reads were aligned to the reference genome using Hisat2 v2.0.5. For the quantification of gene expression levels, we use feature Counts v1.5.0-p3 to count the reads numbers mapped to each gene. And then FPKM of each gene was calculated based on the length of the gene and reads count mapped to this gene. FPKM, expected number of Fragments Per Kilobase of transcript sequence per Millions base pairs sequenced, considers the effect of sequencing depth and gene length for the reads count at the same time.
Genome_build: GCF_000182965.3_ASM18296v3
|
| |
|
| Submission date |
Jul 06, 2021 |
| Last update date |
Jul 09, 2021 |
| Contact name |
Wenqiang Chang |
| E-mail(s) |
[email protected]
|
| Phone |
+8653188382162
|
| Organization name |
Shandong University
|
| Street address |
No. 44 West Wenhua Road
|
| City |
Jinan |
| State/province |
Shandong |
| ZIP/Postal code |
250012 |
| Country |
China |
| |
|
| Platform ID |
GPL27466 |
| Series (1) |
| GSE179537 |
Next generation sequencing facilitates quantitative analysis of transcriptional profiling of Candida albicans treated with thiosemicarbazone derivative 19ak. |
|
| Relations |
| BioSample |
SAMN20080264 |
| SRA |
SRX11361127 |
