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Sample GSM4057611

Query DataSets for GSM4057611

Status

Public on Sep 04, 2019

Title

fluconazole sensitive Candida auris strain_2

Sample type

SRA

Source name

candida auris

Organism

Candidozyma 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-2
DESeq_WT_B1.txt

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

E-mail(s)

bingj@fudan.edu.cn

Organization name

Fudan University

Department

School of Life Sciences