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Sample GSM5618469

Query DataSets for GSM5618469

Status

Public on Jan 07, 2022

Title

YPDA-PINK3

Sample type

SRA

Source name

pink cells

Organism

[Candida] haemuloni

Characteristics

genotype: WT

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

The library products were sequenced using an Illumina NovaSeq platform.
The clean reads were aligned to the reference sequence (C.haemulonii genomic sequence data from the NCBI database, GCA_002926055.1) via the sofeware HiSat2 v2.0.5 with default parameters.
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: C.haemulonii genomic sequence data from the NCBI database, GCA_002926055.1
Supplementary_files_format_and_content: text files containing FPKM values for each Sample

Submission date

Oct 08, 2021

Last update date

Jan 07, 2022

Contact name

LI TAO

E-mail(s)

taoli@fudan.edu.cn

Phone

+862131246551

Organization name

Fudan University