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Sample GSM4495545

Query DataSets for GSM4495545

Status

Public on Sep 13, 2020

Title

B724-1

Sample type

SRA

Source name

Candida auris

Organism

Candidozyma auris

Characteristics

genotype: Diploid

Growth protocol

YPD medium and cultured at 30 oC for 12h.

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 NovaSeq 6000

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.
The gene expression level is calculated by using FPKM method (Reads Per kb per Million reads) according to Mortazavi, et a., Nature Methods, 2008, and the formula is shown as follows: FPKM=106C/(NL/103). C is the number of reads that uniquely aligned to a gene, N is total number of reads that uniquely aligned to all genes, and L is the number of bases on a gene .
Genome_build: Candida auris genome
Supplementary_files_format_and_content: text files containing FPKM values for each Sample

Submission date

Apr 24, 2020

Last update date

Sep 13, 2020

Contact name

Jian Bing

E-mail(s)

bingj@fudan.edu.cn

Organization name

Fudan University

Department

School of Life Sciences