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3D Mumford-Shah Based Active Mesh [chapter]

Alexandre Dufour, Nicole Vincent, Auguste Genovesio
<span title="">2006</span> <i title="Springer Berlin Heidelberg"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2w3awgokqne6te4nvlofavy5a4" style="color: black;">Lecture Notes in Computer Science</a> </i> &nbsp;
Deformable mesh methods have become an alternative of choice to classical deformable models for 3D image understanding.  ...  In this paper, we propose a fully automated deformable 3D mesh model that deforms using the reduced Mumford-Shah functional to segment and track objects with fuzzy boundaries.  ...  Introduction 3D segmentation and tracking by deformable models is a topic of active research in many domains including medical imaging [1] [2] [3] and biological imaging [4] [5] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/11892755_21">doi:10.1007/11892755_21</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/tj2g6j3fr5gfnjlwkghrcuqcba">fatcat:tj2g6j3fr5gfnjlwkghrcuqcba</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190503014502/https://link.springer.com/content/pdf/10.1007%2F11892755_21.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/29/1b/291bfd90350b24d3c21a8adba19b5309bce8dd3c.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/11892755_21"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

An analysis-synthesis approach for neurosphere modelisation under phase-contrast microscopy

Stephane Rigaud, Chao-Hui Huang, Sohail Ahmed, Joo-Hwee Lim, Daniel Racoceanu
<span title="">2013</span> <i title="IEEE"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/i3wdcpisqrhohjypmlikfya2la" style="color: black;">2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)</a> </i> &nbsp;
Tracking by mo del evolution is a tracking method using deformable model such as active contours. With this approach, the cell is segmented with a deformable model, as described previously.  ...  Thus, we propose a framework solution to estimate the 3-D cells configuration of a growing 3-D structure (neurospheres in the case of this work), starting from time lapse phase contrast 2-D microscopic  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/embc.2013.6610419">doi:10.1109/embc.2013.6610419</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24110606">pmid:24110606</a> <a target="_blank" rel="external noopener" href="https://dblp.org/rec/conf/embc/RigaudHALR13.html">dblp:conf/embc/RigaudHALR13</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ckouvvcvt5ckddzidvz3lxhhgi">fatcat:ckouvvcvt5ckddzidvz3lxhhgi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200321153737/https://tel.archives-ouvertes.fr/tel-01001639/document" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/54/67/54679247844f2aa36527fc128a9afdb243f06148.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/embc.2013.6610419"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ieee.com </button> </a>

Mean deformation metrics for quantifying 3D cell–matrix interactions without requiring information about matrix material properties

David A. Stout, Eyal Bar-Kochba, Jonathan B. Estrada, Jennet Toyjanova, Haneesh Kesari, Jonathan S. Reichner, Christian Franck
<span title="2016-02-29">2016</span> <i title="Proceedings of the National Academy of Sciences"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/nvtuoas5pbdsllkntnhizy4f4q" style="color: black;">Proceedings of the National Academy of Sciences of the United States of America</a> </i> &nbsp;
As a result, the constitutive laws are constantly evolving, making a onetime measurement of the matrix material properties insufficient for accurate determination of cell tractions in real time.  ...  Furthermore, we also report previously unseen deformation patterns generated by motile neutrophils in 3D collagen gels. traction force microscopy | confocal microscopy | large deformations | neutrophil  ...  For cases A to C, the number of subdivisions was two resulting in 320 discrete triangles, and for case D, the number of subdivisions was four, resulting in 5,120 discrete surface triangles.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1073/pnas.1510935113">doi:10.1073/pnas.1510935113</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26929377">pmid:26929377</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4801239/">pmcid:PMC4801239</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4jntgs77kzbaxfhvbihwijdttm">fatcat:4jntgs77kzbaxfhvbihwijdttm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20161020054936/http://www.pnas.org:80/content/113/11/2898.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/a1/53/a15342660c6a948e7e4d0bfee48b2432228fe8c7.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1073/pnas.1510935113"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4801239" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Light Sheet-Based Imaging and Analysis of Early Embryogenesis in the Fruit Fly [chapter]

Khaled Khairy, William C. Lemon, Fernando Amat, Philipp J. Keller
<span title="2014-08-22">2014</span> <i title="Springer New York"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6v4flwr6afbfrmhdyu6xe3dyvm" style="color: black;">Msphere</a> </i> &nbsp;
Furthermore, morphodynamics information is extracted by computationally tracking objects in the image.  ...  Towards that goal we describe the successful implementation of a fast fitting strategy of Gaussian mixture models.  ...  (a) Block diagram describing the main steps of a pipeline for obtaining cell lineage information from time-lapse microscopy data.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/978-1-4939-1164-6_6">doi:10.1007/978-1-4939-1164-6_6</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25245688">pmid:25245688</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fcvjzswbm5hrhokemeykwjzliy">fatcat:fcvjzswbm5hrhokemeykwjzliy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190225190843/http://pdfs.semanticscholar.org/66fe/5bc009122cc0a7e45efde822afb629125890.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/66/fe/66fe5bc009122cc0a7e45efde822afb629125890.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/978-1-4939-1164-6_6"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

Rapid, topology-based particle tracking for high-resolution measurements of large complex 3D motion fields

Mohak Patel, Susan E. Leggett, Alexander K. Landauer, Ian Y. Wong, Christian Franck
<span title="2018-04-03">2018</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tnqhc2x2aneavcd3gx5h7mswhm" style="color: black;">Scientific Reports</a> </i> &nbsp;
flows, and cell-generated substrate deformations.  ...  Instead, SPT reconstructs a complex deformation field based on the spatially discretized motion of tracer particles.  ...  Cells were allowed to settle and adhere overnight prior to time-lapse fluorescence microscopy.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41598-018-23488-y">doi:10.1038/s41598-018-23488-y</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/29615650">pmid:29615650</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5882970/">pmcid:PMC5882970</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vx2eadq4kvdzjhkazbjfupr5wa">fatcat:vx2eadq4kvdzjhkazbjfupr5wa</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200208211531/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC5882970&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/5a/b9/5ab9a7b7b64aca9377c4c1dec87be22ec286167b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41598-018-23488-y"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5882970" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Hydro-Responsive Curling of the Resurrection Plant Selaginella lepidophylla

Ahmad Rafsanjani, Véronique Brulé, Tamara L. Western, Damiano Pasini
<span title="2015-01-27">2015</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tnqhc2x2aneavcd3gx5h7mswhm" style="color: black;">Scientific Reports</a> </i> &nbsp;
This arrangement eases both the tight packing of the plant during desiccation and its fast opening upon rehydration.  ...  The insights gained from this work shed light on the hydro-responsive movements in plants and might contribute to the development of deployable structures with remarkable shape transformations in response  ...  Stems were then allowed to air-dry for approximately 6 hours, during which time changes in their curvature were captured via time-lapse filming at frame rate of 1 min 21 .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/srep08064">doi:10.1038/srep08064</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25623361">pmid:25623361</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4306918/">pmcid:PMC4306918</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ad4bzdjhhra7lggyhdp7f7xpey">fatcat:ad4bzdjhhra7lggyhdp7f7xpey</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20191101195127/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC4306918&amp;blobtype=pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ce/69/ce69d7df166c2ec310b2dc880ce684e2f5f04d52.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/srep08064"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4306918" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Three-Dimensional Modeling of Mechanical Forces in the Extracellular Matrix during Epithelial Lumen Formation

Dehong Zeng, Aldo Ferrari, Jens Ulmer, Alexey Veligodskiy, Peter Fischer, Joachim Spatz, Yiannis Ventikos, Dimos Poulikakos, Ruth Kroschewski
<span title="">2006</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/dez2wau7t5aqvklzwrcsreuwq4" style="color: black;">Biophysical Journal</a> </i> &nbsp;
We analyzed the evolution of Madin-Darby canine kidney cells in 3D cultures using time-lapse microscopy, with type I collagen gel forming the ECM.  ...  This work relies on the combination of numerical modeling with live cell imaging, to piece together a novel nonintrusive method for determining three-dimensional (3D) mechanical forces caused by shape  ...  D. A. Zacharias at the University of Florida is kindly acknowledged for the YMD cells. We thank Dr. Hang Si at WIAS for assistance in using TetGen, and E. DiIorio and C.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1529/biophysj.105.073494">doi:10.1529/biophysj.105.073494</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/16565042">pmid:16565042</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1471864/">pmcid:PMC1471864</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/s65rkzv2l5gcdcsa3awdxefrvi">fatcat:s65rkzv2l5gcdcsa3awdxefrvi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190224130137/https://core.ac.uk/download/pdf/82545961.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/17/d3/17d33044c6b7c0ff1e46f84932ce7d6146009461.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1529/biophysj.105.073494"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1471864" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Fibronectin-Based Nanomechanical Biosensors to Map 3D Strains in Live Cells and Tissues [article]

Daniel J Shiwarski, Joshua W Tashman, Alkiviadis Tsamis, Jacqueline M Bliley, Malachi A Blundon, Edgar Aranda-Michel, Quentin Jallerat, John M Szymanski, Brooke M McCartney, Adam W Feinberg
<span title="2020-02-12">2020</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
Time-lapse 3D confocal imaging of the NMBS demonstrated strain tracking in 2D and 3D following mechanical deformation of known materials and was validated with finite element modeling.  ...  Imaging and 3D analysis of the NMBS applied to single cells, cell monolayers, and Drosophila ovarioles demonstrated the ability to dynamically track microscopic tensile and compressive strains in various  ...  Research reported in this publication was supported by grants from the Human Frontier Science Program  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.02.11.943696">doi:10.1101/2020.02.11.943696</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/77fhxqovuzbcjo42r7stfesac4">fatcat:77fhxqovuzbcjo42r7stfesac4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200711040942/https://www.biorxiv.org/content/biorxiv/early/2020/02/12/2020.02.11.943696.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/92/a8/92a8a27106e179ffd546eea6145bbd7b645fc1bd.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.02.11.943696"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

A novel method for assessing adherent single-cell stiffness in tension: design and testing of a substrate-based live cell functional imaging device

Guido Bartalena, Reto Grieder, Ram I. Sharma, Tomaso Zambelli, Roman Muff, Jess G. Snedeker
<span title="2010-12-01">2010</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/phmyolpy4rfgdpm7j4vfdzndoy" style="color: black;">Biomedical microdevices</a> </i> &nbsp;
We employed a real-time tracking system that analyzes high magnification images of living cells under stretch, and compensates for gross substrate motions by dynamic adjustment of the microscope stage.  ...  terrain for cell adhesion and for substrate deformation quantification, respectively.  ...  Hansruedolf Sommer for his contribution to device construction, and Pascal Bissig and Michael Bieri from the ETH Zurich for their contribution to the tracking system design and implementation.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s10544-010-9493-3">doi:10.1007/s10544-010-9493-3</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21120698">pmid:21120698</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/zzzr7qfg3jcsffa2atb45hyfai">fatcat:zzzr7qfg3jcsffa2atb45hyfai</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200223180347/https://www.zora.uzh.ch/id/eprint/43527/1/ZORA_NL_43527.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/25/80/2580627a2686361769b32f2388f29b1238a0808b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s10544-010-9493-3"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

Mitochondrial Membrane Tension Governs Fission

Dora Mahecic, Lina Carlini, Tatjana Kleele, Adai Colom, Antoine Goujon, Stefan Matile, Aurélien Roux, Suliana Manley
<span title="">2020</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tol7woxlqjeg5bmzadeg6qrg3e" style="color: black;">Social Science Research Network</a> </i> &nbsp;
We capture the dynamics of constricting mitochondria in mammalian cells using live-cell structured illumination microscopy (SIM).  ...  We propose a model based on our estimates of mitochondrial membrane tension and bending energy in living cells which accounts for the observed probability distribution for mitochondrial constrictions to  ...  Time-lapse images were acquired every 1 s for 3-5 min, with 50 ms exposure time. Fast dual color imaging of mitochondria and Drp1 was performed at 37 C with 5% CO2, in pre-warmed DMEM medium.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.2139/ssrn.3669396">doi:10.2139/ssrn.3669396</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vnnwmyttmjfr7jrtyupez5j6lu">fatcat:vnnwmyttmjfr7jrtyupez5j6lu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210715205343/https://addi.ehu.es/bitstream/handle/10810/51484/1-s2.0-S2211124721002618-main.pdf;jsessionid=FB65FAEBDD7821E3C7D9C14CCF6CAD79?sequence=1" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/33/b5/33b538ffb6416cb25a5596b4bc44a68edac24092.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.2139/ssrn.3669396"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ssrn.com </button> </a>

Quantification of cardiomyocyte contraction based on image correlation analysis

A. Kamgoué, J. Ohayon, Y. Usson, L. Riou, P. Tracqui
<span title="">2009</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/vlghmc36xnhadgvjbpyrvcjllq" style="color: black;">Cytometry Part A</a> </i> &nbsp;
A two-dimensional image correlation analysis of cardiomyocytes phase-contrast images was developed to extract local cell deformations from videomicroscopy time-lapse sequences.  ...  cell behavior, such as the correlation of spontaneous Ca 21 waves with arrhythmic electrical activity (4-6).  ...  Hongxue (Northwestern University) for their useful comments, as well as Drs. N. B ereaud, J. Olivares (LBFA, Univ. J. Fourier), and M. Trifa (CNRS, TIMC) for their technical support.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/cyto.a.20700">doi:10.1002/cyto.a.20700</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19107827">pmid:19107827</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6ptqbat6fja5dmaliz56pthllu">fatcat:6ptqbat6fja5dmaliz56pthllu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170809095101/http://www-timc.imag.fr/IMG/pdf/Kamgoue_et_al_Cytometry_09.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/e3/4d/e34de11876969ef65e430b5d6d2578474b6d0816.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/cyto.a.20700"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> wiley.com </button> </a>

High-Resolution Traction Force Microscopy [chapter]

Sergey V. Plotnikov, Benedikt Sabass, Ulrich S. Schwarz, Clare M. Waterman
<span title="">2014</span> <i title="Elsevier"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/whmkxykiubgv7jhhphaypbr4hu" style="color: black;">Methods in Cell Biology</a> </i> &nbsp;
Construct discrete wave vectors for the Fourier transform as k i ¼ 2pn i /(dN i ). Here, d is the nodal distance of the grid in units of pixels. 3.  ...  For time-lapse TFM, we acquire image triplets at $15-60 s intervals. 10.  ...  of view allows to avoid divergence of Green's function by setting e G ij 0, 0, x 3 ð Þ¼0.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/b978-0-12-420138-5.00020-3">doi:10.1016/b978-0-12-420138-5.00020-3</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24974038">pmid:24974038</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4699589/">pmcid:PMC4699589</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/wpv5rcg6v5adnova6j7z47ehmu">fatcat:wpv5rcg6v5adnova6j7z47ehmu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170705074752/http://light.ece.illinois.edu/ECE564/Plotnikov-2014-High-Resolution%20Trac.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/50/1f/501f30c3adab29bec66e9839e35bb335540b6f82.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/b978-0-12-420138-5.00020-3"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4699589" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Extracting neuronal activity signals from microscopy recordings of contractile tissue: a cell tracking approach using B-spline Explicit Active Surfaces (BEAS) [article]

Youcef Kazwiny, Joao M. Pedroso, Zhiqing Zhang, Werend Boesmans, Jan D'hooge, Pieter Vanden Berghe
<span title="2020-12-15">2020</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
Ca 2+ imaging is a widely used microscopy technique to simultaneously study cellular activity in multiple cells.  ...  The desired information consists of cell-specific time series of pixel intensity values, in which the fluorescence intensity represents cellular activity.  ...  Acknowledgements 448 The authors thank Tobie Martens for manual cell delineation and ROI selection on Ca 2+ recordings.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.12.15.422837">doi:10.1101/2020.12.15.422837</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ynby4ivxtzebhl4nka2nnis63i">fatcat:ynby4ivxtzebhl4nka2nnis63i</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210429033954/https://www.biorxiv.org/content/biorxiv/early/2020/12/15/2020.12.15.422837.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c2/17/c217b831e16b7a7a5e5510d32cfe795f2066f7e6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.12.15.422837"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Reconstructing embryonic development

Khaled Khairy, Philipp J. Keller
<span title="2011-01-24">2011</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4ysorsivbzfexby3o7afxmbpai" style="color: black;">Genesis</a> </i> &nbsp;
to image segmentation, cell tracking, automated data annotation, and biophysical modeling.  ...  Cell behavior, cell fate decisions, cell interactions during tissue morphogenesis, and gene expression dynamics can be analyzed in vivo for entire complex organisms and throughout embryonic development  ...  in this review article.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/dvg.20698">doi:10.1002/dvg.20698</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21140407">pmid:21140407</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/g6aznif7ivec5nwgakw5zflnha">fatcat:g6aznif7ivec5nwgakw5zflnha</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170810160209/http://homepage.univie.ac.at/brian.metscher/Khairy10_review.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/0a/5b/0a5bfc794a827e8a93203146db722e61e360abd1.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/dvg.20698"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> wiley.com </button> </a>

Adhesion dynamics regulate cell intercalation behaviour in an active tissue [article]

Alexander Nestor-Bergmann, Guy Blanchard, Nathan Hervieux, Alexander George Fletcher, Jocelyn Etienne, Benedicte Sanson
<span title="2021-04-11">2021</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
Here, we develop a mechanical model to understand active cell intercalation behaviours in the context of an epithelial tissue.  ...  The model additionally predicts that rosettes, which form when a vertex becomes common to many cells, are likely to occur in active tissues with high adhesive friction.  ...  1B shows segmented contours of cells at the level of adherens junctions, from time-lapse confocal movies of 351 stage 7-8 Drosophila embryos, where intercalating cells are segmented and tracked through  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2021.04.11.439313">doi:10.1101/2021.04.11.439313</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ufguixcobjez3ousvmchh7im34">fatcat:ufguixcobjez3ousvmchh7im34</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210717154830/https://www.biorxiv.org/content/biorxiv/early/2021/04/11/2021.04.11.439313.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/b7/5e/b75e7ba87d219bc3e544ac02347df11f24887949.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2021.04.11.439313"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>
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