Niederberger, Theresa, Failmezger, Henrik, Uskat, Diana, Poron, Don, Glauche, Ingmar, Scherf, Nico ORCID: 0000-0003-4003-9121, Roeder, Ingo, Schroeder, Timm ORCID: 0000-0001-9320-0252 and Tresch, Achim (2015). Factor graph analysis of live cell-imaging data reveals mechanisms of cell fate decisions. Bioinformatics, 31 (11). S. 1816 - 1824. OXFORD: OXFORD UNIV PRESS. ISSN 1460-2059

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Abstract

Motivation: Cell fate decisions have a strong stochastic component. The identification of the underlying mechanisms therefore requires a rigorous statistical analysis of large ensembles of single cells that were tracked and phenotyped over time. Results: We introduce a probabilistic framework for testing elementary hypotheses on dynamic cell behavior using time-lapse cell-imaging data. Factor graphs, probabilistic graphical models, are used to properly account for cell lineage and cell phenotype information. Our model is applied to time-lapse movies of murine granulocyte-macrophage progenitor (GMP) cells. It decides between competing hypotheses on the mechanisms of their differentiation. Our results theoretically substantiate previous experimental observations that lineage instruction, not selection is the cause for the differentiation of GMP cells into mature monocytes or neutrophil granulocytes.

Item Type: Journal Article
Creators:
CreatorsEmailORCIDORCID Put Code
Niederberger, TheresaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Failmezger, HenrikUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Uskat, DianaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Poron, DonUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Glauche, IngmarUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Scherf, NicoUNSPECIFIEDorcid.org/0000-0003-4003-9121UNSPECIFIED
Roeder, IngoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Schroeder, TimmUNSPECIFIEDorcid.org/0000-0001-9320-0252UNSPECIFIED
Tresch, AchimUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
URN: urn:nbn:de:hbz:38-402518
DOI: 10.1093/bioinformatics/btv040
Journal or Publication Title: Bioinformatics
Volume: 31
Number: 11
Page Range: S. 1816 - 1824
Date: 2015
Publisher: OXFORD UNIV PRESS
Place of Publication: OXFORD
ISSN: 1460-2059
Language: English
Faculty: Unspecified
Divisions: Unspecified
Subjects: no entry
Uncontrolled Keywords:
KeywordsLanguage
HIGH-THROUGHPUT MICROSCOPY; TIME-LAPSE MICROSCOPY; LINEAGE CHOICE; HEMATOPOIETIC CYTOKINES; STEM-CELLS; RNAI; ORGANIZATION; INSTRUCTION; PLASTICITY; PHENOTYPESMultiple languages
Biochemical Research Methods; Biotechnology & Applied Microbiology; Computer Science, Interdisciplinary Applications; Mathematical & Computational Biology; Statistics & ProbabilityMultiple languages
URI: http://kups.ub.uni-koeln.de/id/eprint/40251

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