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The objective of this study was to use longitudinal cerebrospinal fluid (CSF) samples to identify biomarkers that distinguish fast progression (FP) from slow progression (SP) and assess their temporal response.<\/jats:p><\/jats:sec><jats:sec><jats:title>Methods<\/jats:title><jats:p>We utilized mass spectrometry (MS)\u2010based proteomics to identify candidate biomarkers using longitudinal CSF from a discovery cohort of SP and FP ALS patients. Immunoassays were used to quantify and validate levels of the top biomarkers. A state\u2010transition mathematical model was created using the longitudinal MS data that also predicted FP versus SP.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>We identified a total of 1148 proteins in the CSF of all ALS patients. Pathway analysis determined enrichment of pathways related to complement and coagulation cascades in FPs and synaptogenesis and glucose metabolism in SPs. Longitudinal analysis revealed a panel of 59 candidate markers that could segregate FP and SP ALS. Based on multivariate analysis, we identified three biomarkers (F12, RBP4, and SERPINA4) as top candidates that segregate ALS based on rate of disease progression. These proteins were validated in the discovery and a separate validation cohort. Our state\u2010transition model determined that the overall variance of the proteome over time was predictive of the disease progression rate.<\/jats:p><\/jats:sec><jats:sec><jats:title>Interpretation<\/jats:title><jats:p>We identified pathways and protein biomarkers that distinguish rate of ALS disease progression. A mathematical model of the CSF proteome determined that the change in entropy of the proteome over time was predictive of FP versus SP.<\/jats:p><\/jats:sec>","DOI":"10.1002\/acn3.51890","type":"journal-article","created":{"date-parts":[[2023,8,30]],"date-time":"2023-08-30T08:26:41Z","timestamp":1693384001000},"page":"2025-2042","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":28,"title":["Proteomics and mathematical modeling of longitudinal <scp>CSF<\/scp> differentiates fast versus slow <scp>ALS<\/scp> progression"],"prefix":"10.1002","volume":"10","author":[{"given":"Lucas","family":"Vu","sequence":"first","affiliation":[{"name":"Department of Translational Neuroscience Barrow Neurological Institute  Phoenix Arizona 85013 USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Krystine","family":"Garcia\u2010Mansfield","sequence":"additional","affiliation":[{"name":"Cancer &amp; Cell Biology Division 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