Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Whole genome sequence for S. cerevisiae strains.

ABSTRACT: Aim of this project is to characterize colony morphology in the M28 strain, identifying the peculiar genomic traits determining the rough phenotype

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Shyamasree Saha

PROVIDER: E-SYBR-10 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Multiazole resistance in clinical and environmental fungal isolates

Project description:Whole genome sequencing of SYBARIS Aspergillus spp. known to be multi-drug resistant and difficult to treat. Aim of this experiment is to investigate the genetic basis of susceptibility to disease and elucidate molecular mechanisms of drug resistance in these strains.

2016-04-30 | E-SYBR-1 | biostudies-arrayexpress

Whole genome sequencing to study of pathogenic Candida strains

Project description:Aim of this project is to identify biomarkers associated with persistance of Candida strains in the host and with virulence/pathogenicity of the different strains

2016-04-30 | E-SYBR-9 | biostudies-arrayexpress

DNA-seq of budding yeast hybrid species isolated from the wild and from human-related environment to reconstruct the natural evolution of Saccharomyces spp. evolution, SYBARIS project

Project description:Genomic surveys of yeast hybrid species isolated from the wild and from human-related environment, aimed at the reconstruction of the natural evolution of Saccharomyces spp. evolution

2016-04-30 | E-SYBR-11 | biostudies-arrayexpress

DNA-seq of various fungi isolated from faecal materials and environmental samples for comparative genomic analyses, SYBARIS project

Project description:Aim of this project is to perform a comparative genomic study (including all S. cerevisiae sequenced and available) of the variability and evolutionary traits of yeast.

2016-04-30 | E-SYBR-12 | biostudies-arrayexpress

Whole genome sequence for S. cerevisiae isolates.

Project description:Aim of this project is to identify biomarkers associated with fungal persistence in the host and genomic variability among strains isolated from different environments.

2016-04-30 | E-SYBR-8 | biostudies-arrayexpress

RNA-Seq of Saccharomyces cerevisiae M28 strains with smooth and filigreed colony morphology, tissue invasiveness, differential immune recognition, resistant or sensitive to trifluoroleucine, SYBARIS project.

Project description:Saccharomyces cerevisiae M28 strain has been shown to form either smooth or filigreed colonies, and in some cases to exhibit resistance to trifluoroleucine. RNA-sequencing was used to analyse differences in the gene expression profiles of smooth or filigreed, resistant or sensitive colonies from three tetrads. Possibly the results should hint at the connection between these phenotypes and yeast strains pathogenicity.

2016-04-30 | E-SYBR-4 | biostudies-arrayexpress

Mistranslation accelerates the adaptation of Candida albicans to Fluconazole

Project description:The leucine CUG codon was reassigned to serine in the fungal pathogen Candida albicans. To clarify the biological role of this tuneable codon ambiguity on drug resistance, we evolved C. albicans strains that were engineered to mistranslate the CUG codon at constitutively elevated levels, in the presence and absence of the antifungal drug fluconazole. Elevated levels of mistranslation resulted in the rapid acquisition of resistance to fluconazole.

2016-10-27 | E-SYBR-13 | biostudies-arrayexpress

DNA-seq of Candida albians strains engineered with increasing levels of leucine mis-incorporation at CUG codon, SYBARIS project

Project description:The aim of this experiment is to test how atypical codon assignment (in our case Ser and Leu at CUG sites) flexibility can provide an effective mechanism to alter the genetic code. We have reengineered C. albicans strains to mis-incorporate increasing levels of Leu at protein CUG sites.

2016-04-30 | E-SYBR-7 | biostudies-arrayexpress

DNA methylation differences between human regulatory T cells and conventional T cells

Project description:Regulatory T cells (Treg) prevent the emergence of autoimmune disease. Prototypic natural Treg (nTreg) are programmed by Forkhead-box P3 (FOXP3) and can be reliably identified by demethylation at the FOXP3 locus. To explore the nTreg methylation landscape we performed genome-wide methylation studies on human naïve resting nTreg (rTreg) and conventional naïve CD4+ T cells (Naïve). We detected 2,315 differentially methylated CpGs between these two cell types, many of which clustered into 127 regions of differential methylation (RDMs). T cell activation induced changes in 466 individual CpGs and 18 RDMs in naïve CD4+ T cells, but did not alter DNA methylation in rTreg. Expression of mRNA for TIGIT, an immune suppressive receptor demethylated in rTreg, was upregulated in nTreg and reduced in peripheral blood mononuclear cells of individuals at risk for autoimmune (type 1) diabetes. Gene-set testing of the 127 RDMs revealed enrichment of common Treg signature genes, FOXP3 bound genes and genes directly upregulated by FOXP3, which was primarily driven by the subset of demethylated RDMs. A putative Forkhead-binding motif overrepresented in promoter-associated RDMs suggests methylation regulates gene expression by influencing FOXP3 binding. Our findings provide new insights into epigenetic regulation of human nTreg and the potential to exploit differential methylation as an immune biomarker in human diseases. Naïve and rTreg cells were sorted from buffy coats of 3 healthy male donors (M28, 29, 30) and then activated for 6 days with anti-CD3 and anti-CD28 antibodies, supplemented with IL-2 at day 4. DNA was harvested and bisulfite converted for methylation analysis on illumina HM450 array from 2-3 biological replicates of each cell type: rTreg (M28, M30), naïve (M28, M29, M30), Act-naïve (M28, M29, M30) and Act-rTreg (M29, M30).

2013-09-09 | E-GEOD-49667 | biostudies-arrayexpress

Genome-wide binding and mechanistic analyses of Smchd1 mediated epigenetic regulation

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-06-11 | E-GEOD-65749 | biostudies-arrayexpress