Motion sensing superpixels (MOSES) is a systematic computational framework to quantify and discover cellular motion phenotypes

ELife
Felix Yuran ZhouXin Lu

Abstract

Correct cell/cell interactions and motion dynamics are fundamental in tissue homeostasis, and defects in these cellular processes cause diseases. Therefore, there is strong interest in identifying factors, including drug candidates that affect cell/cell interactions and motion dynamics. However, existing quantitative tools for systematically interrogating complex motion phenotypes in timelapse datasets are limited. We present Motion Sensing Superpixels (MOSES), a computational framework that measures and characterises biological motion with a unique superpixel 'mesh' formulation. Using published datasets, MOSES demonstrates single-cell tracking capability and more advanced population quantification than Particle Image Velocimetry approaches. From > 190 co-culture videos, MOSES motion-mapped the interactions between human esophageal squamous epithelial and columnar cells mimicking the esophageal squamous-columnar junction, a site where Barrett's esophagus and esophageal adenocarcinoma often arise clinically. MOSES is a powerful tool that will facilitate unbiased, systematic analysis of cellular dynamics from high-content time-lapse imaging screens with little prior knowledge and few assumptions.

References

Jan 1, 1996·International Review of Cytology·C J Schaffer, L B Nanney
Apr 22, 2006·Nature Methods·Beate NeumannJan Ellenberg
Oct 3, 2006·Developmental Dynamics : an Official Publication of the American Association of Anatomists·Robert J Major, Kenneth D Irvine
Feb 7, 2007·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·B SzabóTamás Vicsek
Jan 30, 2008·Proceedings of the National Academy of Sciences of the United States of America·M BalleriniV Zdravkovic
Nov 3, 2009·Current Biology : CB·Katharina P LandsbergChristian Dahmann
Jan 16, 2010·Journal of the National Cancer Institute·Jurjen J BoonstraWinand N M Dinjens
Mar 20, 2010·Biochemical Society Transactions·Rhonda F Souza
May 6, 2010·Biophysical Journal·L PetitjeanP Silberzan
Aug 10, 2010·Nature Methods·Michael HeldDaniel W Gerlich
Sep 25, 2010·Medical Image Analysis·Dirk PadfieldBadrinath Roysam
Nov 26, 2010·Analytica Chimica Acta·Jiangtao PengJie Tan
Dec 18, 2010·Nature Reviews. Genetics·Christian DahmannMichael Brand
Jan 24, 2012·Methods in Enzymology·Erik MeijeringIhor Smal
May 30, 2012·IEEE Transactions on Pattern Analysis and Machine Intelligence·Radhakrishna AchantaSabine Süsstrunk
Sep 13, 2012·PloS One·Assaf ZaritskyIlan Tsarfaty
Oct 11, 2012·Integrative Biology : Quantitative Biosciences From Nano to Macro·Florian MildePetros Koumoutsakos
Jul 16, 2013·Interface Focus·Fränze ProgatzkyCristina Lo Celso
Oct 16, 2013·The Journal of Cell Biology·Poh Hui ChiaKang Shen
Oct 18, 2013·BMC Bioinformatics·Gregoire PauWolfgang Huber
Jan 28, 2014·Nature Methods·Bo WangAnna Goldenberg
Feb 15, 2014·Bioinformatics·Martin MaškaCarlos Ortiz-de-Solorzano
May 16, 2014·Journal of the Royal Society, Interface·Lisa GoersKaren M Polizzi
Jul 25, 2014·PLoS Computational Biology·Assaf ZaritskyIlan Tsarfaty
Sep 13, 2014·Scientific Reports·Daigo ShishikaDerek A Paley
Oct 30, 2014·Nucleic Acids Research·Damian SzklarczykChristian von Mering
Nov 20, 2014·Bioinformatics·Martin SchieggFred A Hamprecht
Jul 16, 2015·Mucosal Immunology·G LeoniA Nusrat
Aug 4, 2015·Nature Materials·Jin-Ah ParkJeffrey J Fredberg
Dec 8, 2015·Cell·Michael BoutrosChristina Laufer
Dec 20, 2015·Biophysical Journal·Assaf ZaritskyGaudenz Danuser
Oct 8, 2016·Methods : a Companion to Methods in Enzymology·Jean-Yves TinevezKevin W Eliceiri
Jan 31, 2017·Nature Materials·Chiara MalinvernoGiorgio Scita
Mar 1, 2017·Methods : a Companion to Methods in Enzymology·Thomas A NketiaJens Rittscher
May 18, 2017·The Journal of Cell Biology·Assaf ZaritskyAlan Hall
Sep 12, 2017·Nature Materials·Pilar Rodríguez-FrancoXavier Trepat

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Citations

Dec 12, 2019·Frontiers in Immunology·Diego Ulisse PizzagalliSantiago F Gonzalez
Nov 18, 2021·Immunological Reviews·Dominik Schienstock, Scott N Mueller

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Methods Mentioned

BETA
PCA
MDS

Software Mentioned

TSNE
OpenCV
Google search
Motion Sensing Superpixels ( MOSES
Anaconda
scikit
MOtion SEnsing Superpixels ( MOSES )
MOSES
Scipy
Adam

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