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Sample GSM4057612 Query DataSets for GSM4057612
Status Public on Sep 04, 2019
Title fluconazole sensitive Candida auris strain_3
Sample type SRA
Source name candida auris
Organism [Candida] auris
Characteristics phenotype: fluconazole sensitive
Extracted molecule total RNA
Extraction protocol Cells were lysed by Mini-beadbeater and total RNA was harvested using GeneJET RNA Purification Kit (Thermo Scientific #K0731, #K0732)
RNA libraries were prepared for sequencing using standard Illumina protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description WT-3
Data processing Illumina OLB_1.9.4 were used for basecalling
Filter dirty raw reads by removing reads with adaptors and low quality, the obtained clean reads were mapped to reference sequences using SOAPaligner/soap2 according to Li et al., Bioinformatics, 2009. Mismatches no more than 2 bases were allowed in the alignment.
FPKM method is used in calculated expression level, the formula is shown as follows, and the formula is shown as follows: FPKM=106C/(NL/103). Given to be the expression of gene A , C to be number of fragments that are uniquely aligned to gene A , N to be total number of fragments that are uniquely aligned to all genes, and L to be number of bases on gene A.
Genome_build: Candida auris B8441 genome (GCA_002759435.2)
Supplementary_files_format_and_content: text files containing FPKM values for each Sample
Submission date Sep 03, 2019
Last update date Sep 04, 2019
Contact name Jian Bing
Organization name Fudan University
Department School of Life Sciences
Street address Songhu Road, Yangpu District
City Shanghai
ZIP/Postal code 200438
Country China
Platform ID GPL27415
Series (1)
GSE136768 Experimental evolution identifies adaptive aneuploidy as a mechanism of fluconazole resistance in Candida auris
BioSample SAMN12684299
SRA SRX6793585

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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