ArticleProteomics2009
MassMatrix: a database search program for rapid characterization of proteins and peptides from tandem mass spectrometry data.
Article in Proteomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 128 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
128 citing papers in PubMed.
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- Exploration of Resveratrol as a Potent Modulator of α-Synuclein Fibril Formation.ACS chemical neuroscience · 2024Article
- Intact mass spectrometry screening to optimize hydroxyl radical dose for protein footprinting.Biochemical and biophysical research communications · 2023Article
- Oxidative modification of LHC II associated with photosystem II and PS I-LHC I-LHC II membranes.Photosynthesis research · 2022Article
- Cryo-EM analysis of Ebola virus nucleocapsid-like assembly.STAR protocols · 2022Article
- Mass Spectrometric Identification of a Novel Factor XIIIa Cross-Linking Site in Fibrinogen.Proteomes · 2021Article
- Proteomics support the threespine stickleback egg coat as a protective oocyte envelope.Molecular reproduction and development · 2021Article
- Candida albicans and Candida glabrata triosephosphate isomerase - a moonlighting protein that can be exposed on the candidal cell surface and bind to human extracellular matrix proteins.BMC microbiology · 2021Article
- Pulsed Hydrogen-Deuterium Exchange Reveals Altered Structures and Mechanisms in the Aggregation of Familial Alzheimer's Disease Mutants.ACS chemical neuroscience · 2021Article
- WNKs are potassium-sensitive kinases.American journal of physiology. Cell physiology · 2021Article
- Clamping, bending, and twisting inter-domain motions in the misfold-recognizing portion of UDP-glucose: Glycoprotein glucosyltransferase.Structure (London, England : 1993) · 2021Article
- Tocopherol controls D1 amino acid oxidation by oxygen radicals in Photosystem II.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Novel Tyrosine Kinase-Mediated Phosphorylation With Dual Specificity Plays a Key Role in the Modulation ofFrontiers in microbiology · 2021Article
- Hydrogen-deuterium exchange mass spectrometry identifies spatially distinct antibody epitopes on domain III of the Zika virus envelope protein.Journal of mass spectrometry : JMS · 2021Article
- Structural Insights into the Interactions of Candidal Enolase with Human Vitronectin, Fibronectin and Plasminogen.International journal of molecular sciences · 2020Article
- Calcium Binding to the Innate Immune Protein Human Calprotectin Revealed by Integrated Mass Spectrometry.Journal of the American Chemical Society · 2020Article
- A Steric "Ball-and-Chain" Mechanism for pH-Mediated Regulation of Gap Junction Channels.Cell reports · 2020Article
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68 more citing papers are in PubMed but not listed here.
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Authors and funding
2 authors.
Funding
Abstract
MassMatrix is a program that matches tandem mass spectra with theoretical peptide sequences derived from a protein database. The program uses a mass accuracy sensitive probabilistic score model to rank peptide matches. The MS/MS search software was evaluated by use of a high mass accuracy dataset and its results compared with those from MASCOT, SEQUEST, X!Tandem, and OMSSA. For the high mass accuracy data, MassMatrix provided better sensitivity than MASCOT, SEQUEST, X!Tandem, and OMSSA for a given specificity and the percentage of false positives was 2%. More importantly all manually validated true positives corresponded to a unique peptide/spectrum match. The presence of decoy sequence and additional variable PTMs did not significantly affect the results from the high mass accuracy search. MassMatrix performs well when compared with MASCOT, SEQUEST, X!Tandem, and OMSSA with regard to search time. MassMatrix was also run on a distributed memory clusters and achieved search speeds of approximately 100,000 spectra per hour when searching against a complete human database with eight variable modifications. The algorithm is available for public searches at (http://www.massmatrix.net).
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.