BioNet: Peptide Mass-Spectrum Prediction
نویسندگان
چکیده
منابع مشابه
Mass Analysis Peptide Sequence Prediction (MAPSP)
UNLABELLED The software tool MAPSP allows the combinatorial prediction of novel short peptides such as hormones with common sequence features. In addition, it assists in de novo sequencing in general. The tool was designed for use in conjunction with the analytical identification method of mass spectrometry (MS) and it can considerably speed-up the analysis of unknowns. AVAILABILITY The web i...
متن کاملPeptide Retention Time Prediction Yields Improved Tandem Mass Spectrum Identification for Diverse Chromatography Conditions
Most tandem mass spectrum identification algorithms use information only from the final spectrum, ignoring precursor information such as peptide retention time (RT). Efforts to exploit peptide RT for peptide identification can be frustrated by its variability across liquid chromatography analyses. We show that peptide RT can be reliably predicted by training a support vector regressor on a sing...
متن کاملImproving tandem mass spectrum identification using peptide retention time prediction across diverse chromatography conditions.
Most algorithms for identifying peptides from tandem mass spectra use information only from the final spectrum, ignoring non-mass-based information acquired routinely in liquid chromatography tandem mass spectrometry analyses. One physiochemical property that is always obtained but rarely exploited is peptide chromatographic retention time. Efforts to use chromatographic retention time to impro...
متن کاملBioNet Tutorial
The first part of this tutorial exemplifies how an integrated network analysis can be conducted using the BioNet package. Here we will integrate gene expression data from different lymphoma subtypes and clinical survival data with a comprehensive protein-protein interaction (PPI) network based on HPRD. This is shown first in a quick start and later in a more detailed analysis. The second part w...
متن کاملOn the accuracy and limits of peptide fragmentation spectrum prediction.
We estimated the reproducibility of tandem mass spectra for the widely used collision-induced dissociation (CID) of peptide ions. Using the Pearson correlation coefficient as a measure of spectral similarity, we found that the within-experiment reproducibility of fragment ion intensities is very high (about 0.85). However, across different experiments and instrument types/setups, the correlatio...
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ژورنال
عنوان ژورنال: Vestnik NSU. Series: Information Technologies
سال: 2020
ISSN: 1818-7900,2410-0420
DOI: 10.25205/1818-7900-2020-18-2-31-42