|
Status |
Public on Jan 12, 2022 |
Title |
120_Blood-Cau_III |
Sample type |
SRA |
|
|
Source name |
fungal cells & whole blood
|
Organisms |
Homo sapiens; Candidozyma auris |
Characteristics |
tissue: fungal cells & whole blood fungal train: B8441 sex (h. sapiens): male time: 120 min donor: C
|
Treatment protocol |
1000000/ml of Candida auris were used for infection of freshly drawn human whole blood
|
Growth protocol |
Candida auris preculture was prepared by growth over night in YPD at 30°C
|
Extracted molecule |
total RNA |
Extraction protocol |
human RNA was isolated with PAXgene Blood RNA kit, fungal RNA was isolated with RiboPure RNA isolation kit yeast After poly(A) filtering, mRNA was fragmented, and cDNA libraries were generated for each sample. 50 bp single sequence reads were produced using the Illumina HiSeq 2500 platform.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
C_auris_in_human-whole-blood_120min_donorC
|
Data processing |
quality controlled with FastQC (v0.11.8) quality trimming of raw reads with Trimmomatic (v0.39) rRNA depleted with SortMeRNA (v2.1b) read alignment with HiSat2 (v2.1.0) against concatenated genomes read counting with featureCounts (v1.34.0) Genome_build: C. auris B8441 (s01-m01-r05) Genome_build: H. sapiens genome GRCh38.p13 release 100.38 Supplementary_files_format_and_content: tab delimited text file with unnormalised C. auris read counts Supplementary_files_format_and_content: tab delimited text file with unnormalised H. sapiens read counts Supplementary_files_format_and_content: tab delimited text file with MRN normalised C. auris read counts Supplementary_files_format_and_content: tab delimited text file with MRN normalised H. sapiens read counts
|
|
|
Submission date |
Jun 27, 2021 |
Last update date |
Jan 12, 2022 |
Contact name |
Sascha Schäuble |
E-mail(s) |
sascha.schaeuble@leibniz-hki.de
|
Organization name |
Leibniz Institute for Natural Product Research and Infection Biology
|
Street address |
Beutenbergstraße 11a
|
City |
Jena |
ZIP/Postal code |
07745 |
Country |
Germany |
|
|
Platform ID |
GPL30319 |
Series (1) |
GSE179000 |
Candida auris infection of human whole blood |
|
Relations |
BioSample |
SAMN19907176 |
SRA |
SRX11239193 |