Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

11 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling by array of an amylolytic yeast

ABSTRACT: The amylolytic S. cerevisiae strain WTPB-G and the wild-type strain (control) from a genetic background of FY23 were used to elucidate the effect brought about to a wild-type strain by the presence of an extrachoromosomal self-replicating element in the form of a recombinant multicopy plasmid. Strains were cultivated in YPD medium in fully controlled 2 L B-Braun Biostat B Plus fermenters, with a working volume of 1.5 L under aerated and micro-aerated conditions. Samples for transcriptional profiling were collected at the mid-exponential phase of growth at an OD range of 0.7-0.9, immediately frozen in liquid nitrogen and stored at -80C until RNA isolation. All experiments were carried out in duplicates.

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Ceyda Kasavi

PROVIDER: E-MTAB-3545 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of young and old yeast cells grown in pH controlled and uncontrolled media.

Project description:A 2 x 2 factorial design was used to elucidate the genome-wide transcriptional responses of old and young cells to the medium pH control. ?HO strain (BY4742 background) was cultivated batch-wise in SDC media and in fully controlled fermenters. pH was maintained at 4.5 via automatic NaOH addition for pH controlled case while this control was turned off for the unbuffered experiments. Samples of the young and old cells, collected at the 3rd and 7th day of the experiment respectively, were transferred to stimulating media containing fresh SDC medium prior to sample collection for transcriptional profiling.

2014-01-12 | E-MEXP-3972 | biostudies-arrayexpress

Transcriptomic response of genes involved in cell cycle regulation are effected by the deletion of ATX1 encoding the copper chaperone

Project description:In this study, genome-wide effect of the absence of ATX1 gene was investigated under copper deficient and high copper (0.5 mM) conditions in comparsion to the reference strain (data for the reference strain is derived from E-MTAB_. For this purpose, ATX1 deleted cells were cultivated in fully controlled fermenters in duplicates in glucose-rich defined medium containing either 0.5 mM of CuSO4.7H2O or excluding the CuSO4.7H2O from the defined medium.

2016-06-10 | E-MTAB-4230 | biostudies-arrayexpress

TRANSCRIPTIONAL REMODELLING IN RESPONSE TO CHANGING COPPER LEVELS IN WILSON DISEASE MODEL OF SACCHAROMYCES CEREVISIAE

Project description:A 3 x 2 factorial design was used to elucidate the genome-wide transcriptional response to the deletion of yeast ortholog of Wilson and Menkes disease causing gene; CCC2, at changing copper levels. Homozygous deletion mutant of CCC2, which encodes Cu+2 transporting P-type ATPase required to export copper from the cytosol into the extracytosolic compartment, and the reference strain were cultivated in fully controlled fermenters in duplicates in glucose-rich defined medium containing three different levels of copper. The three different copper concentrations were selected such that; copper deficient condition, which was prepared by excluding the CuSO4.7H2O from the defined medium, low copper or adequate copper concentration, which is the standard amount of copper in defined medium (0.04 ?M) and high copper concentration (0.5 mM), which was able to restore respiration deficiency in ccc2?/ccc2? strain.

2013-09-02 | E-MEXP-3927 | biostudies-arrayexpress

Schladebeck_Whi3_Ploidy

Project description:We analyzed and classified Whi3-regulated and ploidy-regulated genes in haploid and diploid strains of the Sigma1278b genetic background under vegetative growth conditions.<br><br>For this purpose, we measured transcriptional profiles of two different haploid MATa and one diploid MATa/a yeast strains of the following genotypes: WHI3 strain (SS_YHUM468=YHUM0468), whi3 strain (SS_ySS137=YHUM1920) and whi3-delta/whi3-delta strain (SS_ySS137dipl=YHUM2152). All three strains were grown in duplicate in YNB medium supplemented with tryptophan and uracil at 30 degrees C to an optical density of 1.0 before extraction of total RNA and transcriptional profiling<br><br>

2013-06-19 | E-MEXP-3610 | biostudies-arrayexpress

Transcriptomic impact of the Rex deletion in Streptococcus agalactiae NEM 316 strain

Project description:Transcritpomic analysis of rex mutant (gbs1167) in NEM316 S. agalactiae strain in static and aerated growth condition

2020-04-10 | E-MTAB-8970 | biostudies-arrayexpress

Transcription profiling by array of Streptococcus agalactiae wild type and nucA mutant strains under aerated growth

Project description:Comparaison of gene expression profile in the nucA mutant compared to the wild-type under aerated growth.

2014-05-25 | E-MEXP-2734 | biostudies-arrayexpress

Transcription profiling by array of yeast haploid Sigma1278b strains to detect Yak1-regulated genes

Project description:We determined and classified Yak1-regulated genes in haploid strains of the Sigma1278b genetic background under vegetative growth conditions. For this purpose, we measured transcriptional profiles of different haploid MATa yeast strains of the following genotypes:YAK1 (468=YHUM0468), yak1 (1313=YHUM1313), strain YHUM1313 (yak1) carrying a high copy plasmid with YAK1 (1313Yhc) and strain YHUM1313 (yak1) carrying a high copy plasmid with YAK1 K398R (1313KDhc). All strains were grown in duplicate in YNB medium supplemented with tryptophan at 30 degrees Celsius to an optical density of 1.0 before extraction of total RNA and transcriptional profiling.

2011-08-23 | E-MEXP-2885 | biostudies-arrayexpress

Transcriptome of wild type and Shh limb buds at E10.5

Project description:The transcriptome of mouse limb buds of Shh mutant embryos was compared to the transcriptome of limb buds of wild type embryos at embryonic day E10.5

2011-05-01 | E-MEXP-3142 | biostudies-arrayexpress

Transcription profiling of Candida albicans after induction of tet-OP4 promoter-EFG1 fusion under normoxia

Project description:Transformants either containing pCS1 (strain CCS1) or pNIM as control (strain CCS2) were induced by doxycycline (40 ï¾µg/ml) for the indicated times (T0-T10, 0 to 10 min) in aerated hypha-inducing medium (10 % serum, 37 ï¾°C). For each time point, cDNA of CCS1 and CCS2 were co-hybridised to microarrays and ratios of expression were calculated for each gene. Each gene is represented by duplicate spots on the DNA microarrays.

2009-04-07 | E-MEXP-2117 | biostudies-arrayexpress

GLI3 Controls the Proliferative Expansion of Digit Progenitors and Exit toward Chondrogenesis to Constrain the Autopod to Pentadactyly

Project description:The transcriptome of the anterior handplates of mouse limb buds of Gli3 constitutive and Hoxa13-Cre Gli3 conditional mutant embryos was compared to the transcriptome of limb buds of wild type and Gli3 heterozygote embryos at embryonic day E11.75. All samples carried one copy of the Hoxa13-Cre allele.

2012-03-01 | E-MEXP-3495 | 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