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TranscriptomicsNetwork-based analysis of carbohydrate-active gene transcription in Aspergillus niger
Transcriptomics was performed on batch cultivations of A. niger grown on three monosaccharides and three complex carbohydrates with defined compositions as to allow the detection of cross-induction if present, and for demonstration of how enzyme interaction graphics can be used to visualize the glob...
ORGANISM(S): Aspergillus niger 
2012-03-28 | E-GEOD-11930 | biostudies-arrayexpress
TranscriptomicsStudy of the response of Aspergillus niger to three levels of ambient pH
The multiple modes of response to ambient pH were explored and new regulatory structures determined. Biological triplicates from the mid-exponential growth phase of controlled bioreactor batch-cultivations of A. niger.
ORGANISM(S): Aspergillus niger 
2009-05-18 | E-GEOD-11725 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of yeast under conditions of ammonium, L-alanine or L-glutamine limitation
Response of Saccharomyces cerevisiae to Ammonium, L-alanine, or L-glutamine Limitation. The protrotophic laboratory strain CEN.PK113-7D (MAT a) was grown in laboratory fermentors with a working volume of 1 litre at dilution rate (D) of 0.20 per hour (in triplicate for each nitrogen limited condition...
ORGANISM(S): Saccharomyces cerevisiae 
2006-06-13 | E-MEXP-724 | biostudies-arrayexpress
MetabolomicsProteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation

Saccharomyces cerevisiae is a widely used cell factory; therefore, it is important to understand how it organizes key functional parts when cultured under different conditions. Here, we perform a multiomics analysis of S. cerevisiae by culturing the strain with a wide range of s...

2022-08-31 | MTBLS697 | MetaboLights
ProteomicsAbsolute quantification of yeast proteome
Protein synthesis is the most energy consuming process in a proliferating cell, and understanding what controls protein abundances and how this impacts changes in metabolic fluxes is a key question in biology. We quantified mRNA and protein levels in Saccharomyces cerevisiae under ten environmental ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2017-03-07 | PXD005041 | Pride
Osmolarity Chemostats Temperature Stress response Ethanol Protein turnover Integrative data analysis Saccaromyces cerevisiae Absolute quantification 
ProteomicsLabel-Free Quantification of Yeast Cellular Proteome
Precursor ion intensity quantification and intensity-based absolute quantity estimation (IBAQ) was used to on the mixture of yeast cell lysates in order to estimate the absolute concentrations of the proteins.
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-06 | PXD012803 | Pride
Lc-ms Intensity-based absolute quantification Saccharomyces cerevisiae Label-free quantification 
ProteomicsTMT-based proteome analysis of three Saccharomyces cerevisiae strains with different protein productivity
Tandem mass tag (TMT)-based relative quantification was used to study yeast protein secretory pathway under chemostat cultures
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-10-27 | PXD018116 | Pride
Yeast Lc-ms/ms 
ProteomicsProteome re-allocation in amino acid supplemented S. cerevisiae using TMT-based quantitative proteomics
In recent years, more attention in systems biology has been given to the concept of protein constraints and the cell’s necessity to allocate its proteome between important processes. From this point of view, attempts to elucidate cellular maximum capacity of growth as a function of protein availabil...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-08-05 | PXD018361 | Pride
Metabolism Yeast Oxygen Tmt Saccharomyces cerevisiae Glucose Tandem mass tag Amino acid Orbitrap fusion 
ProteomicsYeast cell cycle proteome and phosphoproteome (LC-MSMS)
Multi-omic absolute quantitative analysis of the yeast (Saccharomyces cerevisiae) mitotic cell cycle. Transcriptomics (RNA-Seq), proteomics (SILAC/ iBAQ), phosphoproteomics (SILAC/ iBAQ, enrichment with TiO2), and untargeted metabolomics (Metabolon, Inc.) were performed, all in biological triplicate...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-26 | PXD016519 | Pride
Lc-msms Budding yeast Multi-omics Mitosis Respiration Fermentation Ibaq Cell cycle Silca 
ProteomicsTMT and Label-Free Quantification of Yeast Mitochondrial and Cellular Proteome During Different Stages of Growth
Tandem mass tag (TMT)-based relative quantification was used in combination with the intensity-based absolute quantity estimation (IBAQ) to study of both yeast cells and isolated yeast mitochondria during fermentative growth, diauxic shift, respiratory growth.
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-06 | PXD012802 | Pride
Lc-ms Intensity-based absolute quantification Saccharomyces cerevisiae Label-free quantification Tandem mass tag Diauxic shift 
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