title: Inferring transient particle transport dynamics in live cells.
abstract: Live-cell imaging and particle tracking provide rich information on mechanisms of intracellular transport. However, trajectory analysis procedures to infer complex transport dynamics involving stochastic switching between active transport and diffusive motion are lacking. We applied Bayesian model selection to hidden Markov modeling to infer transient transport states from trajectories of mRNA-protein complexes in live mouse hippocampal neurons and metaphase kinetochores in dividing human cells. The software is available at http://hmm-bayes.org/.
authors.affiliation: Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Nilah
authors.initials: N
authors.lastname: Monnier
authors.affiliation: Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Zachary
authors.initials: Z
authors.lastname: Barry
authors.affiliation: Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, Bronx, New York, USA.|Gruss-Lipper Biophotonics Center, Albert Einstein College of Medicine, Bronx, New York, USA.|Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia, USA.
authors.forename: Hye Yoon
authors.initials: HY
authors.lastname: Park
authors.affiliation: Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.|Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Kuan-Chung
authors.initials: KC
authors.lastname: Su
authors.affiliation: Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, Bronx, New York, USA.
authors.forename: Zachary
authors.initials: Z
authors.lastname: Katz
authors.affiliation: Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia, USA.
authors.forename: Brian P
authors.initials: BP
authors.lastname: English
authors.affiliation: Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Arkajit
authors.initials: A
authors.lastname: Dey
authors.affiliation: Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Keyao
authors.initials: K
authors.lastname: Pan
authors.affiliation: Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.|Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Iain M
authors.initials: IM
authors.lastname: Cheeseman
authors.affiliation: Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, Bronx, New York, USA.|Gruss-Lipper Biophotonics Center, Albert Einstein College of Medicine, Bronx, New York, USA.|Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, Virginia, USA.
authors.forename: Robert H
authors.initials: RH
authors.lastname: Singer
authors.affiliation: Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Mark
authors.initials: M
authors.lastname: Bathe
mesh_terms: D000199:Actins / Q000378:metabolism*; D000818:Animals; D001499:Bayes Theorem; D002478:Cells, Cultured; D003198:Computer Simulation; D005260:Female; D006367:HeLa Cells; D006624:Hippocampus / Q000166:cytology / Q000378:metabolism*; D006801:Humans; D008390:Markov Chains; D051379:Mice; D035683:MicroRNAs / Q000378:metabolism; D008856:Microscopy, Fluorescence / Q000379:methods; D008954:Models, Biological; D015233:Models, Statistical; D057054:Molecular Imaging / Q000379:methods*; D009474:Neurons / Q000166:cytology* / Q000378:metabolism*; D010363:Pattern Recognition, Automated / Q000379:methods; D021381:Protein Transport / Q000502:physiology; D012984:Software
chemical_list: D000199:Actins; D035683:MicroRNAs