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MetabolomicsComparison of popular enrichment methods for untargeted in vitro metabolomics.

Introduction

Untargeted metabolomics is a popular method by which researchers measure a large portion of the metabolites present in a biological system at once. This approach usually results in complex data sets containing tens to hundreds of thousands of observations whi...

2025-08-11 | MTBLS12332 | MetaboLights
MetabolomicsMultiomic Approach to Analyze Infant Gut Microbiota: Experimental and Analytical Method Optimization

BACKGROUND: The human intestinal microbiome plays a central role in overall health status, especially in early life stages. 16S rRNA amplicon sequencing is used to profile its taxonomic composition; however, multiomic approaches have been proposed as the most accurate methods for...

2021-08-18 | MTBLS2942 | MetaboLights
MetabolomicsMetabolic response of Brevibacterium epidermidis TRM83610 to NaCl stress and ectoine fermentation optimization

To elucidate the metabolic response of Brevibacterium epidermidis TRM83610 to NaCl stress and facilitate its industrial application, this study employed metabolomics techniques to analyze changes in intracellular metabolites, particularly compatible solutes, under NaCl concentrations of 0, 5%, 10...

2025-06-21 | MTBLS12624 | MetaboLights
MetabolomicsMetabolic Profiling of Escherichia coli-Based Cell-Free Expression Systems for Process Optimization
Biotechnology has transformed the production of various chemicals and pharmaceuticals due to its efficient and selective processes, but it is inherently limited by its use of live cells as 'biocatalysts.' Cell-free expression (CFE) systems, which use a protein lysate isolated from whole cells, have ...
2020-06-02 | MTBLS1079 | MetaboLights
MetabolomicsMetabolic response of Brevibacterium epidermidis TRM83610 to NaCl stress and ectoine fermentation optimization

To elucidate the metabolic response of Brevibacterium epidermidis TRM83610 to NaCl stress and facilitate its industrial application, this study employed metabolomics techniques to analyze changes in intracellular metabolites, particularly compatible solutes, under NaCl concentrations of 0, 5%, 10...

2025-06-25 | MTBLS12638 | MetaboLights
ProteomicsOptimization of statistical methods impact on quantitative proteomics data
As tools for quantitative label-free mass spectrometry (MS) rapidly develop a consensus about the best practices is not apparent. In the work described here we compared five popular statistical methods for detecting differential protein expression from quantitative MS data using both controlled expe...
ORGANISM(S): Candida albicans (Yeast) 
2020-01-13 | PXD002099 | Pride
Reproducibility Statistical methods Proteomics Quantitative analysis Rots Label-free mass spectrometry 
ProteomicsMulti-parameter optimization of two common proteomics quantification methods for quantifying low-abundance proteins
To improve the sensitivity and accuracy of label-free quantification and tandem mass tags (TMT) labeling in quantifying low-abundance proteins, multi-parameter optimization was carried out using a complex 2-proteome artificial sample mixture for a series of steps from sample preparation to data anal...
ORGANISM(S): Homo Sapiens Mus Musculus 
2018-11-02 | PXD011574 |
ProteomicsShotgun Proteomics of Tomato Fruits: Evaluation and Optimization of Sample Preparation Methods and Mass Spectrometric Parameters
Optimization of sample preparation protocols and mass spectrometric parameters is essential for adequate proteome coverage. Though several protocols are available for 2D electrophoresis-based proteome profiling, very few protocols exist for sample preparation for shotgun proteomics and optimization ...
ORGANISM(S): Solanum lycopersicum 
2016-06-30 | PXD003920 | Pride
Shotgun proteomics Proteome coverage Label free quantification Fractionation Sample preparation Spectral counting Tomato fruit 
GenomicsATAC-seq Optimization for Cancer Cells
ATAC-seq Optimization for Cancer Cells
PRJNA837267 | ENA
TranscriptomicsComparison of genomic DNA amplification methods
Hybridization of amplified genomic DNA against unamplified genomic DNA using three different amplification methods to assess the bias introduced by amplification alone. Keywords: genomic DNA Three different amplification methods were assessed and total genomic DNA hybridized against equal amounts of...
ORGANISM(S): Homo sapiens 
2010-05-17 | E-GEOD-8449 | biostudies-arrayexpress
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