ArticleBioinformatics (Oxford, England)2012
Speeding up tandem mass spectral identification using indexes.
Article in Bioinformatics (Oxford, England), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Top-down proteomics.Nature reviews. Methods primers · 2024Article
- Identification of Splice Variants and Isoforms in Transcriptomics and Proteomics.Annual review of biomedical data science · 2023Review
- Review
- A graph-based filtering method for top-down mass spectral identification.BMC genomics · 2018Article
- Systematic Evaluation of Protein Sequence Filtering Algorithms for Proteoform Identification Using Top-Down Mass Spectrometry.Proteomics · 2018Article
- A Spectrum Graph-Based Protein Sequence Filtering Algorithm for Proteoform Identification by Top-Down Mass Spectrometry.Proceedings. IEEE International Conference on Bioinformatics and Biomedicine · 2017Article
- TopPIC: a software tool for top-down mass spectrometry-based proteoform identification and characterization.Bioinformatics (Oxford, England) · 2016Article
- SpectroGene: A Tool for Proteogenomic Annotations Using Top-Down Spectra.Journal of proteome research · 2016Article
- Spectral probabilities of top-down tandem mass spectra.BMC genomics · 2014Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
motivationTandem mass spectrometry (MS/MS) has been routinely used in proteomics studies. Post-translational modification (PTM) identification is a challenging problem in tandem mass spectral analysis.
resultsIn this article, we define two scoring functions for identifying peptides/proteins with PTMs from MS/MS spectra: match scores and diagonal scores, as well as two spectral identification problems based on the two scores. We propose several index-based algorithms for the two problems. Both theoretical and experimental analyses show that the index-based algorithms significantly improve on speed when compared with existing algorithms.
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Registered trials
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