{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,30]],"date-time":"2026-05-30T00:57:14Z","timestamp":1780102634774,"version":"3.54.0"},"reference-count":25,"publisher":"Oxford University Press (OUP)","issue":"15","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2006,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Comparing two or more complex protein mixtures using liquid chromatography mass spectrometry (LC-MS) requires multiple analysis steps to locate and quantitate natural peptides within a single experiment and to align and normalize findings across multiple experiments.<\/jats:p>\n               <jats:p>Results: We describe msInspect, an open-source application comprising algorithms and visualization tools for the analysis of multiple LC-MS experimental measurements. The platform integrates novel algorithms for detecting signatures of natural peptides within a single LC-MS measurement and combines multiple experimental measurements into a peptide array, which may then be mined using analysis tools traditionally applied to genomic array analysis. The platform supports quantitation by both label-free and isotopic labeling approaches. The software implementation has been designed so that many key components may be easily replaced, making it useful as a workbench for integrating other novel algorithms developed by a growing research community.<\/jats:p>\n               <jats:p>Availability: The msInspect software is distributed freely under an Apache 2.0 license. The software as well as a Zip file with all peptide feature files and scripts needed to generate the tables and figures in this article are available at<\/jats:p>\n               <jats:p>Contact: \u00a0mmcintos@fhcrc.org<\/jats:p>\n               <jats:p>Supplementary Information: Supplementary materials are available at (select \u2018Published Experiments\u2019 from the list of Projects and then \u2018msInspect Paper\u2019).<\/jats:p>","DOI":"10.1093\/bioinformatics\/btl276","type":"journal-article","created":{"date-parts":[[2006,6,10]],"date-time":"2006-06-10T00:49:11Z","timestamp":1149900551000},"page":"1902-1909","source":"Crossref","is-referenced-by-count":217,"title":["A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS"],"prefix":"10.1093","volume":"22","author":[{"given":"Matthew","family":"Bellew","sequence":"first","affiliation":[{"name":"LabKey Software, Seattle, WA 1 \u00a0 1 \u00a0 \u00a0 98109, 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