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

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

ABSTRACT: 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.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Irene Stefanini

PROVIDER: E-SYBR-12 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

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

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

Whole genome sequence for S. cerevisiae strains.

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

2016-04-30 | E-SYBR-10 | 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

Gene expression profile in yeast under physiological changes of stress adaptation and stress recovery

Project description:The data provide information expression profile in yeast for 5 different physioloigcal conditions during stress adpatation and stress recovery (normal growth, during stress adaptation, after stress adaptation, under stress recovery, after stress recovery) in yeast. The purpose of the study is to understand how histone acetyltransferase HATs (Gcn5) apply it is function in gene regulation by changing global or local histone acetylation level under different physiological conditions. Gene expression levels measured for at 5 different time points of physiological changes under stress adaptation and stress recovery.

2013-07-22 | E-GEOD-36599 | biostudies-arrayexpress

RNA-Seq of Aspergillus fumigatus mutants resistant to itraconazole, SYBARIS project.

Project description:Two mutant strains of Aspergillus fumigatus derived from strain A1160, HapB and 29.9, display resistance to the antifungal drug itraconazole. To understand what underlying transcriptional processes contribute to this resistance, A1160, HapB and 29.9 were cultured either in the presence or absence of itraconazole. RNA-sequencing was used to compare transcription profiles of each mutant strain with or without the drug, to A1160 with or without drug.

2016-04-30 | E-SYBR-5 | biostudies-arrayexpress

Yeast under physiological changes of stress adaptation and stress recovery

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

2013-07-22 | E-GEOD-36601 | biostudies-arrayexpress

Genome-wide enrichment of Gcn5 and H3K18/H4K16 acetylation under physiological change of stress adaptation and stress recovery

Project description:The data provide information of Gcn5 enrichment, H3K18 and H4K16 acetylation level and Histone H3 density for 5 different physioloigcal conditions during stress adpatation and stress recovery (normal growth, during stress adaptation, after stress adaptation, under stress recovery, after stress recovery) in yeast. The purpose of the study is to understand how histone acetyltransferase HATs (Gcn5) apply it is function in gene regulation by changing global or local histone acetylation level under different physiological conditions. Gcn5 enrichment, H3K18 and H4K16 acetylation level and Histone H3 density are mearured and compared to input signal for 5 different physioloigcal conditions (normal growth, during stress adaptation, after stress adaptation, under stress recovery, after stress recovery). Replicates are used.

2013-07-22 | E-GEOD-36600 | biostudies-arrayexpress

Barcode sequencing of Saccharomyces cerevisiae deletion libraries, SYBARIS project

Project description:A systematic approach allowing the identification of the molecular way-of-action of novel potential drugs represents the golden-tool for drug-discovery. While high-throughput screening technologies of large libraries is now well established, the assessment of the drug targets and mechanism of action is still under development. Taking advantage of the yeast model Saccharomyces cerevisiae, we herein applied BarSeq, a Next Generation Sequencing-based method to the analysis of both haploinsufficiency and homozygous fitness effects of a novel antifungal drug ('089') compared to the well-known antifungal ketoconazole. '089' was a novel compound identified in during a screen for antifungal drugs, as it was showing fungicidal effects, and able to affect the yeast fitness at the mitochondrial level (Stefanini et al., 2010. (Dissection of the Effects of Small Bicyclic Peptidomimetics on a Panel of Saccharomyces cerevisiae Mutants;.J Biol Chem, 285: 23477-23485.) Integrative bioinformatic analysis of BarSeq, whole genome expression analysis and classical biological assays identified the target and cell pathways affected by the novel antifungal. Confirmation of the effects observed in the yeast model and in pathogenic fungi further demonstrated the reliability of the multi-sided approach and the novelty of the targets and way-of-action of the new class of molecules studied representing a valuable source of novel antifungals.

2016-04-30 | E-SYBR-6 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data