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Sample GSM4460606 Query DataSets for GSM4460606
Status Public on Oct 06, 2020
Title ITC + LPV sample 1
Sample type SRA
Source name whole cell
Organism [Candida] auris
Characteristics drug treatment: lopinavir+itraconazole
Treatment protocol Exponential-phase cultures of C. auris AR0390 were treated with either DMSO (1%), lopinavir (10 µg/ml), itraconazole (1 µg/ml), or a combination of both drugs.
Growth protocol Candida aurus (AR0390) cells
Extracted molecule total RNA
Extraction protocol Ambion Ribopure yeast kit
Illumina TruSeq kit
2x150 on a NovaSeq 6000
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Data processing fastp was used to observe read quality
fastp was used to trim data
HISAT2  (v2.1) to align reads to the reference genome
FeatureCounts  (v2.1) was used to count reads mapping to genes
edgeR Bioconductor package (v3.16.5) to identify differentially expressed genes
Genome_build: Candida auris NCBI reference genome version B11221
Supplementary_files_format_and_content: counts
Submission date Apr 08, 2020
Last update date Oct 06, 2020
Contact name Nadia Marie Atallah
Organization name Purdue University
Department Center for Cancer Research
Street address 201 S. University St
City West Lafayette
State/province IN
ZIP/Postal code 47907
Country USA
Platform ID GPL28368
Series (1)
GSE148341 Potent synergistic interactions between lopinavir and azole antifungal drugs against emerging multidrug-resistant Candida auris
BioSample SAMN14560800
SRA SRX8083234

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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