MealTime-MS: A Machine Learning-Guided Real-Time Mass Spectrometry Analysis for Protein Identification and Efficient Dynamic Exclusion.

Journal of the American Society for Mass Spectrometry
A. R. PelletierMathieu Lavallée-Adam

Abstract

Mass spectrometry-based proteomics technologies are prime methods for the high-throughput identification of proteins in complex biological samples. Nevertheless, there are still technical limitations that hinder the ability of mass spectrometry to identify low abundance proteins in complex samples. Characterizing such proteins is essential to provide a comprehensive understanding of the biological processes taking place in cells and tissues. Still today, most mass spectrometry-based proteomics approaches use a data-dependent acquisition strategy, which favors the collection of mass spectra from proteins of higher abundance. Since the computational identification of proteins from proteomics data is typically performed after mass spectrometry analysis, large numbers of mass spectra are typically redundantly acquired from the same abundant proteins, and little to no mass spectra are acquired for proteins of lower abundance. We therefore propose a novel supervised learning algorithm, MealTime-MS, that identifies proteins in real-time as mass spectrometry data are acquired and prevents further data collection from confidently identified proteins to ultimately free mass spectrometry resources to improve the identification sensitivity...Continue Reading

References

Nov 25, 2003·Analytical Chemistry·Alexey I NesvizhskiiRuedi Aebersold
Sep 24, 2004·Molecular & Cellular Proteomics : MCP·Philip L RossDarryl J Pappin
Apr 20, 2005·Journal of Mass Spectrometry : JMS·Qizhi HuR Graham Cooks
Mar 23, 2006·Journal of Experimental Botany·Matthias BergLennart Björkesten
Jul 9, 2008·Bioinformatics·Darren KessnerParag Mallick
Oct 16, 2008·Molecular Systems Biology·Vinzenz LangeRuedi Aebersold
Jul 10, 2009·Analytical Chemistry·Ying ZhangLaurence Florens
Aug 20, 2009·Analytical Chemistry·Tonya Pekar SecondVlad Zabrouskov
Dec 17, 2009·Methods in Molecular Biology·Patrick G A Pedrioli
Jul 19, 2008·Annual Review of Analytical Chemistry·Alan G Marshall, Christopher L Hendrickson
Aug 7, 2012·Molecular & Cellular Proteomics : MCP·Amelia C PetersonJoshua J Coon
Nov 14, 2012·Proteomics·Jimmy K EngMichael R Hoopmann
Dec 19, 2012·Analytical Chemistry·Alexandre A Shvartsburg, Richard D Smith
Jan 25, 2013·Journal of the American Society for Mass Spectrometry·Alexandre A ShvartsburgRichard D Smith
Mar 19, 2013·Journal of Proteomics·Kelly HodgeAngus I Lamond
Oct 22, 2013·Molecular & Cellular Proteomics : MCP·Alexander S HebertJoshua J Coon
Nov 10, 2013·Journal of Proteomics·Sebastien GallienBruno Domon
Nov 1, 1994·Journal of the American Society for Mass Spectrometry·J K EngJ R Yates
May 30, 2014·Nature·Min-Sik KimAkhilesh Pandey
May 30, 2014·Nature·Mathias WilhelmBernhard Kuster
Oct 29, 2014·Nucleic Acids Research·UNKNOWN UniProt Consortium
Aug 30, 2016·Journal of Proteome Research·Simion KreimerAlexander R Ivanov
Dec 8, 2016·Nucleic Acids Research·Eric W DeutschJuan Antonio Vizcaíno
Feb 12, 2017·Methods in Molecular Biology·Ravali Adusumilli, Parag Mallick
Dec 23, 2017·Analytical Chemistry·Alexander S HebertJoshua J Coon
Nov 6, 2018·Nucleic Acids Research·Yasset Perez-RiverolJuan Antonio Vizcaíno

❮ Previous
Next ❯

Citations

Jun 7, 2021·Mass Spectrometry Reviews·Xiaobo TianRainer Bischoff

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

© 2022 Meta ULC. All rights reserved