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Untargeted metabolomics strategies—challenges and emerging directions
AC Schrimpe-Rutledge, SG Codreanu… - Journal of the …, 2016 - ACS Publications
Metabolites are building blocks of cellular function. These species are involved in enzyme-
catalyzed chemical reactions and are essential for cellular function. Upstream biological …
catalyzed chemical reactions and are essential for cellular function. Upstream biological …
Quality assurance procedures for mass spectrometry untargeted metabolomics. a review
Untargeted metabolomics, as a global approach, has already proven its great potential and
capabilities for the investigation of health and disease, as well as the wide applicability for …
capabilities for the investigation of health and disease, as well as the wide applicability for …
dia-PASEF data analysis using FragPipe and DIA-NN for deep proteomics of low sample amounts
The dia-PASEF technology uses ion mobility separation to reduce signal interferences and
increase sensitivity in proteomic experiments. Here we present a two-dimensional peak …
increase sensitivity in proteomic experiments. Here we present a two-dimensional peak …
MSBooster: improving peptide identification rates using deep learning-based features
Peptide identification in liquid chromatography-tandem mass spectrometry (LC-MS/MS)
experiments relies on computational algorithms for matching acquired MS/MS spectra …
experiments relies on computational algorithms for matching acquired MS/MS spectra …
A comprehensive subcellular atlas of the Toxoplasma proteome via hyperLOPIT provides spatial context for protein functions
Apicomplexan parasites cause major human disease and food insecurity. They owe their
considerable success to highly specialized cell compartments and structures. These …
considerable success to highly specialized cell compartments and structures. These …
Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry
Quantitative proteomics employing mass spectrometry is an indispensable tool in life
science research. Targeted proteomics has emerged as a powerful approach for …
science research. Targeted proteomics has emerged as a powerful approach for …
Deep learning using tumor HLA peptide mass spectrometry datasets improves neoantigen identification
Neoantigens, which are expressed on tumor cells, are one of the main targets of an effective
antitumor T-cell response. Cancer immunotherapies to target neoantigens are of growing …
antitumor T-cell response. Cancer immunotherapies to target neoantigens are of growing …
FDR-controlled metabolite annotation for high-resolution imaging mass spectrometry
High-mass-resolution imaging mass spectrometry promises to localize hundreds of
metabolites in tissues, cell cultures, and agar plates with cellular resolution, but it is …
metabolites in tissues, cell cultures, and agar plates with cellular resolution, but it is …
Protein analysis by shotgun/bottom-up proteomics
According to Genome Sequencing Project statistics (http://www. ncbi. nlm. nih.
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …
gov/genomes/static/gpstat. html), as of February 16, 2012, complete gene sequences have …
Metabolite discovery through global annotation of untargeted metabolomics data
Liquid chromatography–high-resolution mass spectrometry (LC-MS)-based metabolomics
aims to identify and quantify all metabolites, but most LC-MS peaks remain unidentified …
aims to identify and quantify all metabolites, but most LC-MS peaks remain unidentified …