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- Bartoszek, KrzysztofLinköpings universitet,Statistik och maskininlärning,Filosofiska fakulteten,Uppsala Univ, Sweden (author)
Predicting pathogenicity behavior in Escherichia coli population through a state dependent model and TRS profiling
- Article/chapterEnglish2018
Publisher, publication year, extent ...
- 2018-01-31
- PUBLIC LIBRARY SCIENCE,2018
- electronicrdacarrier
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- LIBRIS-ID:oai:DiVA.org:liu-145810
- https://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-145810URI
- https://doi.org/10.1371/journal.pcbi.1005931DOI
- https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-341023URI
Supplementary language notes
- Language:English
- Summary in:English
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Notes
- Funding Agencies|IMB PAS as part of the statutory research; Knut and Alice Wallenberg Foundation
- The Binary State Speciation and Extinction (BiSSE) model is a branching process based model that allows the diversification rates to be controlled by a binary trait. We develop a general approach, based on the BiSSE model, for predicting pathogenicity in bacterial populations from microsatellites profiling data. A comprehensive approach for predicting pathogenicity in E. coli populations is proposed using the state-dependent branching process model combined with microsatellites TRS-PCR profiling. Additionally, we have evaluated the possibility of using the BiSSE model for estimating parameters from genetic data. We analyzed a real dataset (from 251 E. coli strains) and confirmed previous biological observations demonstrating a prevalence of some virulence traits in specific bacterial sub-groups. The method may be used to predict pathogenicity of other bacterial taxa.
Subject headings and genre
- NATURVETENSKAP Data- och informationsvetenskap Bioinformatik hsv//swe
- NATURAL SCIENCES Computer and Information Sciences Bioinformatics hsv//eng
- NATURVETENSKAP Biologi Bioinformatik och systembiologi hsv//swe
- NATURAL SCIENCES Biological Sciences Bioinformatics and Systems Biology hsv//eng
- NATURVETENSKAP Matematik Sannolikhetsteori och statistik hsv//swe
- NATURAL SCIENCES Mathematics Probability Theory and Statistics hsv//eng
Added entries (persons, corporate bodies, meetings, titles ...)
- Majchrzak, MartaPolish Acad Sci, Poland (author)
- Sakowski, SebastianUniv Lodz, Poland (author)
- Kubiak-Szeligowska, Anna B.Polish Acad Sci, Poland (author)
- Kaj, Ingemar,1957-Uppsala universitet,Analys och sannolikhetsteori,Analysis and Probability,Uppsala Univ, Sweden(Swepub:uu)ingekaj (author)
- Parniewski, PawelPolish Acad Sci, Poland (author)
- Linköpings universitetStatistik och maskininlärning (creator_code:org_t)
Related titles
- In:PloS Computational Biology: PUBLIC LIBRARY SCIENCE14:11553-734X1553-7358
Internet link
- https://liu.diva-portal.org/smash/get/diva2:1192180/FULLTEXT01.pdffulltext:print
- https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005931&type=printable
- https://doi.org/10.1371/journal.pcbi.1005931Fulltext
- https://uu.diva-portal.org/smash/get/diva2:1180606/FULLTEXT01.pdffulltext:print
- https://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-145810
- https://doi.org/10.1371/journal.pcbi.1005931
- https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-341023
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