DNA damage-induced transcriptome changes in budding yeasts Saccharomyces cerevisiae and Candida glabrata

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UID: 10810

Author(s): Shor, Erika, Perlin, David S.

Description: Summary from the GEO: "This study compared the transcriptional response to DNA damage in two closely related yeasts, S. cerevisiae and C. glabrata."

Overall design from the GEO: "We cultured S. cerevisiae and C. glabrata in YPD containing 0.1% methyl methanesulfonate (MMS) for 1 hour, harvested the cells, isolated total RNA using the Qiagen Rneasy kit, and sent the RNA to Genewiz for RNAseq. Untreated cells were used as controls. 3 biological replicates for every condition were collected, except the S. cerevisiae no MMS condition, which had 2 biological replicates."

Subject of Study

Subject(s)

Access via GEO
Plain Text files Expression profiling by high throughput sequencing, XLSX processed data
Accession #: GSE155701

Access via SRA
RNA sequencing of 11 samples.
Accession #: SRP275841

Access via BioProject
Additional information about the overall inititative.
Accession #: PRJNA655241
Access Restrictions: Free to All
Access Instructions: The NCBI Gene Expression Omnibus, SRA, and BioProject databases provide open access to these files. The SRA Run Selector link at the bottom of the page is a processing tool for raw data.
Associated Publications: Shor E, Garcia-Rubio R, DeGregorio L, Perlin DS. A Noncanonical DNA Damage Checkpoint Response in a Major Fungal Pathogen. mBio. 2020;11(6):e03044-20. Published 2020 Dec 15.
Data Type: Genomic
Equipment Used: Illumina HiSeq 4000
High throughput gene sequencing system
Software Used: SRA Toolkit
The NCBI SRA Toolkit enables reading ("dumping") of sequencing files from the SRA database and writing ("loading") files into the .sra format.
Dataset Format(s): Plain Text, XLSX
Data Tool(s): RNA Seq
Dataset Size: 2.3 MB

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