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Automated Image Processing to Quantify Cell Migration [chapter]

Minmin Shen, Bastian Zimmer, Marcel Leist, Dorit Merhof
2013 Bildverarbeitung für die Medizin 2013  
Here, we established an automated image processing framework to quantify migration of human neural crest (NC) cells into an initially empty, circular region of interest (ROI) .  ...  The irnage processing framework was capable of quantifying chemical effects on cell migration.  ...  In this paper, an image processing framework is presented for automated cell migration analysis in response to this need.  ... 
doi:10.1007/978-3-642-36480-8_28 dblp:conf/bildmed/ShenZLM13 fatcat:6rhjijbwvfbd5fljdhvrfomvby

TACTICS, an interactive platform for customized high-content bioimaging analysis

R. Shimoni, K. Pham, M. Yassin, M. Gu, S. M. Russell
2013 Bioinformatics  
processes, and (v) user interfaces for post-tracking analysis that is linked to the original images, including options to view cell pedigrees and normalized polarization ratios based on fluorescence ratiometric  ...  relationships between parameters within subpopulations of the images, (iii) options for user-control of the tracking such as an interface to restrict the analysis region, (iv) manual correction of automated  ...  ACKNOWLEDGEMENTS The authors would like to thank the MATLAB® community for sharing open-code sources. Adam Poetter, Amelia Poetter and Emily O'Connor assisted with data analysis.  ... 
doi:10.1093/bioinformatics/btt035 pmid:23341500 fatcat:ivvs75rfyze5dct3z2w54pkvku

Quantifying trophoblast migration: In vitro approaches to address in vivo situations

Joanna James, Win Tun, Alys Clark
2015 Cell Adhesion & Migration  
However, the development of automated imaging algorithms is likely to aid our ability to accurately interpret trophoblast migration in vitro, and better allow us to relate these observations to in vivo  ...  This commentary discusses the advantages and disadvantages of techniques commonly used to quantify trophoblast migration and invasion, both from a cell biology and a mathematical perspective, and examines  ...  is further confounded by the difficulties in developing automated methods to readily quantify EVT outgrowth expansion and migration in these models as images are often captured in phase contrast, which  ... 
doi:10.1080/19336918.2015.1083667 pmid:26479000 pmcid:PMC4853037 fatcat:rlp42tbuebanfhce3gggjgec7e

Robust quantitative scratch assay

Andrea Vargas, Marc Angeli, Chiara Pastrello, Rosanne McQuaid, Han Li, Andrea Jurisicova, Igor Jurisica
2015 Bioinformatics  
The wound healing assay (or scratch assay) is a technique frequently used to quantify the dependence of cell motility-a central process in tissue repair and evolution of disease-subject to various treatments  ...  However processing the resulting data is a laborious task due its high throughput and variability across images.  ...  Since the rate how wounds close may depend on conditions used, measuring wound areas from individual images are used to estimate migration rates, and thus quantify condition-specific cell motility.  ... 
doi:10.1093/bioinformatics/btv746 pmid:26722119 pmcid:PMC4848397 fatcat:mmljhbi6tbenjfdzzp4oh2ef6y

An automated cell-counting algorithm for fluorescently-stained cells in migration assays

Baraa K Al-Khazraji, Philip J Medeiros, Nicole M Novielli, Dwayne N Jackson
2011 Biological Procedures Online  
A cell-counting algorithm, developed in Matlab ® , was created to efficiently count migrated fluorescently-stained cells on membranes from migration assays.  ...  Automated cell counts strongly correlated to manual counts (r 2 = 0.99, P < 0.0001 for a total of 47 images), with no difference in the measurements between methods under all conditions.  ...  Acknowledgements and funding The authors would like to acknowledge Dr. Christopher G. Ellis for his advice in use of Matlab ® .  ... 
doi:10.1186/1480-9222-13-9 pmid:22011343 pmcid:PMC3214125 fatcat:3xiou3qjqzhzxm222dt7bjwqau

Cell-to-cell variability of dynamic CXCL12-CXCR4 signaling and morphological processes in chemotaxis [article]

Kenneth K.Y. Ho, Siddhartha Srivastava, Patrick C. Kinnunen, Krishna Garikipati, Gary D. Luker, Kathryn E. Luker
2022 bioRxiv   pre-print
We integrated live, single-cell imaging with advanced computational analysis methods to discover processes defining subsets of cells that move efficiently toward a CXCL12 gradient.  ...  These data reveal processing events that enable cells to convert a signaling input to chemotaxis and highlight how cells in a uniform environment produce heterogeneous responses.  ...  We implemented multiplexed fluorescence reporters with automated live-cell imaging and image processing to quantify dynamic signaling, morphology, and chemotaxis data in >1000 cells over 24 hours at 4-  ... 
doi:10.1101/2022.05.19.492090 fatcat:atcq5qj2kjcdtad6b5sblucmt4

An Automated Quantification Tool for Angiogenic Sprouting From Endothelial Spheroids

Pavitra Kannan, Martin Schain, David P. Lane
2022 Frontiers in Pharmacology  
Here, we developed an automated analysis tool called AQuTAS to quantify sprouting parameters from the spheroid-based sprouting assay.  ...  The process of sprouting angiogenesis can be measured in vitro using endothelial cells in sprouting assays such as the fibrin bead assay and the spheroid-based assay.  ...  Development of Automated Algorithm to Quantify Angiogenic Sprouting We subsequently developed a Matlab-based automated algorithm to quantify angiogenic sprouting from HUVEC spheroids imaged using fluorescence  ... 
doi:10.3389/fphar.2022.883083 pmid:35571133 pmcid:PMC9093605 fatcat:rnuuikvaizcbbcv3wrw5q6jxiy

TScratch: a novel and simple software tool for automated analysis of monolayer wound healing assays

Tobias Gebäck, Martin Michael Peter Schulz, Petros Koumoutsakos, Michael Detmar
2009 BioTechniques  
Acknowledgments The authors thank Florian Milde for helpful discussions; Nadia Tobler, Leah Cueni, and Jay Shin for providing sample wound healing images and discussion; and the beta-testing community.  ...  Introduction Cell migration has a major role in development and in physiological repair processes, and is also involved in many pathological disorders, including cancer invasion and metastasis, angiogenesis  ...  with well-known cell migration inhibitors and enhancers.  ... 
doi:10.2144/000113083 pmid:19450233 fatcat:kyc4uyqafnb6rpicxxnbjhxm3u

Differential RhoA Dynamics in Migratory and Stationary Cells Measured by FRET and Automated Image Analysis

John Paul Eichorst, Shaoying Lu, Jing Xu, Yingxiao Wang, Terry Means
2008 PLoS ONE  
Based on image registration of the single-cell movement, we have developed automated image analysis methods to track and quantify the FRET signals within user-defined subcellular regions.  ...  The efficient and accurate quantification of the large amount of imaging data from these single-cell FRET measurements demands robust and automated data analysis.  ...  In this paper, we have developed automated image analysis methods to track the movement of single cells and quantify the FRET signals at subcellular regions utilizing the RhoA biosensor from Dr.  ... 
doi:10.1371/journal.pone.0004082 pmid:19114999 pmcid:PMC2603592 fatcat:ej4ud5sf6jborby2koclbnabnu

RapID Cell Counter: Semi-automated and mid-throughput estimation of cell density within diverse cortical layers

Aarthi Sekar, Thiago M. Sanches, Keiko Hino, Matangi Kumar, Juliann Wang, Elisa Ha, Blythe Durbin-Johnson, Sergi Simó, Megan Y. Dennis
2021 eNeuro  
in neuroscience rely on imaging to elucidate key neurodevelopmental processes including cell migration and proliferation.  ...  Here, we present RapID Cell Counter, a semi-automated cell-counting tool with an easy-to-implement graphical user interface, that facilitates quick and consistent quantifications of cell density within  ...  After the desired parameters are set, the user can define the space within the image to quantify cells.  ... 
doi:10.1523/eneuro.0185-21.2021 pmid:34725102 pmcid:PMC8638678 fatcat:t6wr2cyfwbazbiitrjwsj7l65y

Cell Image Velocimetry (CIV): boosting the automated quantification of cell migration in wound healing assays

Florian Milde, Davide Franco, Aldo Ferrari, Vartan Kurtcuoglu, Dimos Poulikakos, Petros Koumoutsakos
2012 Integrative Biology  
We introduce Cell Image Velocimetry (CIV), a combination of cell layer segmentation and image velocimetry algorithms, to drastically enhance the quantification of cell migration by wound healing assays  ...  Cell migration is commonly quantified by tracking the speed of the cell layer interface in wound healing assays.  ...  The proposed Cell Image Velocimetry (CIV) combines an automated detection mechanism to trace the migrating wound front with flow detection analysis to capture transport processes inside the cell layer,  ... 
doi:10.1039/c2ib20113e pmid:23047374 fatcat:xk5ojsh5i5grtpbtx2pbqmcpbi

Cell Migration - Methods and Protocols

Manuela Monti
2019 European Journal of Histochemistry  
(at both molecular and cellular levels) involved in the dynamics of migration and cell-to-cell communication...  ...  As the title suggests, this book presents several techniques to study cells migration in vivo, in vitro, ex vivo and with different model systems to dissect many of the biochemical and biophysical properties  ...  Also, the dynamics of cell groups migrations can be tracked and quantified by 5D confocal imaging.  ... 
doi:10.4081/ejh.2019.3013 fatcat:x7sh4okeujhitmyk6oh5phagne

A high-throughput cell migration assay using scratch wound healing, a comparison of image-based readout methods

Justin C Yarrow, Zachary E Perlman, Nicholas J Westwood, Timothy J Mitchison
2004 BMC Biotechnology  
Imaging of the healing wounds with an automated fluorescence microscope allows us to distinguish perturbations that affect cell migration, morphology, and division.  ...  Cell migration is a complex phenomenon that requires the coordination of numerous cellular processes.  ...  Acknowledgements We'd like to thank Yan Feng for his contribution in setting up the automated microscopy rig; Rebecca Ward for her support of the project; Jim Horne for his masterful machining skills;  ... 
doi:10.1186/1472-6750-4-21 pmid:15357872 pmcid:PMC521074 fatcat:5mzkl3auhvba7hipwl6rm5d7se

Sertoli Cells - Methods and Protocols

CarloAlberto Redi
2019 European Journal of Histochemistry  
The mammalian somatic cell providing the physiological milieu to germ cells growth and differentiation is the Sertoli cell, named after the Italian physiologist Enrico Sertoli.  ...  Sertoli described for the first time this functionally multitasking cell in 1865 (when he was 23 years-old!)  ...  Also, the dynamics of cell groups migrations can be tracked and quantified by 5D confocal imaging.  ... 
doi:10.4081/ejh.2019.3014 fatcat:dkqjciqqhneidi4eqeyiiw5ari

Computer-assisted quantification of motile and invasive capabilities of cancer cells

Karthiga Santhana Kumar, Max Pillong, Jens Kunze, Isabel Burghardt, Michael Weller, Michael A. Grotzer, Gisbert Schneider, Martin Baumgartner
2015 Scientific Reports  
We combined automated microscopy imaging of two-and threedimensional cell cultures with computational image analysis into a single assay platform for studying cell dissemination in high-throughput.  ...  Cell migration is a graded process, with small alterations caused by subtle changes in the cellular motility machinery.  ...  This study was supported by grants from the Child and Cancer Foundation to M.A.G., and from the Swiss National Science Foundation to G.S. (SNF_205321-134783) and to M.B. (SNF_31004A-144090/1).  ... 
doi:10.1038/srep15338 pmid:26486848 pmcid:PMC4614254 fatcat:2cnms5j4dfcgvokjugxz5zw7cy
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