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Influence of Fibrin Network Conformation and Fibrin Fiber Diameter on Fibrinolysis Speed : Dynamic and Structural Approaches by Confocal Microscopy

J. P. Collet, D. Park, C. Lesty, J. Soria, C. Soria, G. Montalescot, J. W. Weisel
<span title="2000-05-01">2000</span> <i title="Ovid Technologies (Wolters Kluwer Health)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ocv5b4js4vdl7ps6ugk4rl6gja" style="color: black;">Arteriosclerosis, Thrombosis and Vascular Biology</a> </i> &nbsp;
To elucidate further structural and dynamic changes occurring during fibrinolysis, cross-linked plasma fibrin was labeled with colloidal gold particles, and fibrinolysis was followed by confocal microscopy  ...  These dynamic and structural approaches to fibrin digestion at the network and the fiber levels reveal aspects of the physical process of clot lysis.  ...  Acknowledgments This study was supported in part by National Institutes of Health grant HL-30954 and by a grant from Parke-Davis Co. We wish to acknowledge Dr Y.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1161/01.atv.20.5.1354">doi:10.1161/01.atv.20.5.1354</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/10807754">pmid:10807754</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/zqzcbmyo2fe53gjik75j2yfuta">fatcat:zqzcbmyo2fe53gjik75j2yfuta</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180722174832/http://atvb.ahajournals.org/content/atvbaha/20/5/1354.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/27/83/27831f5313d2f22ce952c1855f9d2129aa757fb8.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1161/01.atv.20.5.1354"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Automated and Semi-Automated Enhancement, Segmentation and Tracing of Cytoskeletal Networks in Microscopic Images: A Review

Bugra Özdemir, Ralf Reski
<span title="2021-04-15">2021</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/cmflnsn2l5gylcviv447te3mku" style="color: black;">Computational and Structural Biotechnology Journal</a> </i> &nbsp;
The correct analysis of the network structure and connectivity needs precise segmentation of microscopic images.  ...  segmentation of cytoskeletal filaments and networks from microscopic images.  ...  We gratefully acknowledge funding of the laboratory by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy EXC-2189 (CIBSS) and EXC-2193 (livMatS).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.csbj.2021.04.019">doi:10.1016/j.csbj.2021.04.019</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33995906">pmid:33995906</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC8085673/">pmcid:PMC8085673</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4ekmmdmzrvclzp4zmk5mwfq5ca">fatcat:4ekmmdmzrvclzp4zmk5mwfq5ca</a> </span>
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Automated Tracking of Biopolymer Growth and Network Deformation with TSOAX [article]

Ting Xu, Christos Langouras, Maral Adeli Koudehi, Bart E. Vos, Ning Wang, Gijsje H. Koenderink, Xiaolei Huang, Dimitrios Vavylonis
<span title="2018-05-07">2018</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
Automatic tracking of biopolymer networks from fluorescence microscopy time-lapse sequences facilitates such quantitative studies.  ...  We present an open source software tool that combines a global and local correspondence algorithm to track biopolymer networks in 2D and 3D, using stretching open active contours.  ...  GHK and BEV acknowledge support from the the Netherlands Organisation for Scientific Research (NWO) and the Foundation for Fundamental Research on Matter (FOM Program grant nr 143).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/316489">doi:10.1101/316489</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/mi5brxbp35ehvgjgjtd6mvny7e">fatcat:mi5brxbp35ehvgjgjtd6mvny7e</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190501100159/https://www.biorxiv.org/content/biorxiv/early/2018/05/07/316489.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/f9/b9/f9b9b02e6c7c7fa3512194fa1dabbdfd27d217da.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/316489"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Segmentation, Reconstruction, and Analysis of Blood Thrombus Formation in 3D 2-Photon Microscopy Images

Jian Mu, Xiaomin Liu, Malgorzata M. Kamocka, Zhiliang Xu, Mark S. Alber, Elliot D. Rosen, Danny Z. Chen
<span title="2009-09-06">2009</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hqblpsydr5emviirtqkkmctpha" style="color: black;">EURASIP Journal on Advances in Signal Processing</a> </i> &nbsp;
First, we develop an algorithm for segmenting clots in 3D microscopic images based on density-based clustering and methods for dealing with imaging artifacts.  ...  We study the problem of segmenting, reconstructing, and analyzing the structure growth of thrombi (clots) in blood vessels in vivo based on 2-photon microscopic image data.  ...  This research was supported in part by NSF Grants CCF-0515203, CCF-0916606, and DMS-0800612, NIH Grants R01-EB004640 and HL073750-01A1, and the INGEN Initiative to Indiana University School of Medicine  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1155/2010/147216">doi:10.1155/2010/147216</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vmxp2bzhbban3dlg7cmqk3lcqy">fatcat:vmxp2bzhbban3dlg7cmqk3lcqy</a> </span>
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SOAX: A software for quantification of 3D biopolymer networks

Ting Xu, Dimitrios Vavylonis, Feng-Ching Tsai, Gijsje H. Koenderink, Wei Nie, Eddy Yusuf, I-Ju Lee, Jian-Qiu Wu, Xiaolei Huang
<span title="2015-03-13">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;
Filamentous biopolymer networks in cells and tissues are routinely imaged by confocal microscopy. Image analysis methods enable quantitative study of the properties of these curvilinear networks.  ...  , and fibrin, in the presence of image noise and unrelated structures such as those that appear in images of live cells.  ...  The work of FCT and GK was supported by a VIDI grant from the Netherlands Organization for Scientific Research (NWO) and by the Foundation for Fundamental Research on Matter (FOM), which is part of NWO  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/srep09081">doi:10.1038/srep09081</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25765313">pmid:25765313</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4357869/">pmcid:PMC4357869</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/zssc7owqlbfsfo3hqntn2jghoa">fatcat:zssc7owqlbfsfo3hqntn2jghoa</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190218105743/http://pdfs.semanticscholar.org/0ae2/951d35713b64f34107f09bfafc524ce2cacf.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/e2/0ae2951d35713b64f34107f09bfafc524ce2cacf.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/srep09081"> <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/PMC4357869" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Spheroid Coculture of Human Gingiva-Derived Progenitor Cells With Endothelial Cells in Modified Platelet Lysate Hydrogels

Siddharth Shanbhag, Ahmad Rashad, Ellen Helgeland Nymark, Salwa Suliman, Catharina de Lange Davies, Andreas Stavropoulos, Anne Isine Bolstad, Kamal Mustafa
<span title="2021-08-26">2021</span> <i title="Frontiers Media SA"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tkuhrcyiufdxtkdmjqvay6f2ua" style="color: black;">Frontiers in Bioengineering and Biotechnology</a> </i> &nbsp;
Spheroid coculture of HUVEC + GPC in HPLG represents a promising strategy to promote angiogenesis.  ...  Both HUVEC and HUVEC + GPC spheroids in HPLG revealed abundant and comparable neoangiogenesis in the CAM assay (p &gt; 0.05).  ...  ACKNOWLEDGMENTS We thank the Bloodbank at Haukeland University Hospital for supplying the platelets and the Molecular Imaging Center (MIC), University of Bergen, for assistance with microscopy and imaging  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fbioe.2021.739225">doi:10.3389/fbioe.2021.739225</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/34513817">pmid:34513817</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC8427051/">pmcid:PMC8427051</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/md65e7uvbjdabbb5s2sa5lyqaq">fatcat:md65e7uvbjdabbb5s2sa5lyqaq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210912001042/https://fjfsdata01prod.blob.core.windows.net/articles/files/739225/pubmed-zip/.versions/1/.package-entries/fbioe-09-739225/fbioe-09-739225.pdf?sv=2018-03-28&amp;sr=b&amp;sig=JKZg86R0fBbKitoWMWFdGsgFlYJynm5nerOsEjl1KpQ%3D&amp;se=2021-09-12T00%3A11%3A11Z&amp;sp=r&amp;rscd=attachment%3B%20filename%2A%3DUTF-8%27%27fbioe-09-739225.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/fa/27/fa2762fcca32bcb338f7fa631be8dc74b71fdb5b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fbioe.2021.739225"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> frontiersin.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8427051" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Effects of Constant Flow Bioreactor Cultivation and Keratinocyte Seeding Densities on Prevascularized Organotypic Skin Grafts Based on a Fibrin Scaffold

Marius Julian Helmedag, Stefan Weinandy, Yvonne Marquardt, Jens Malte Baron, Norbert Pallua, Christoph V. Suschek, Stefan Jockenhoevel
<span title="">2015</span> <i title="Mary Ann Liebert Inc"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tgvawvvnrndyvja2he7cz7aiou" style="color: black;">Tissue Engineering. Part A</a> </i> &nbsp;
In addition, software-assisted three-dimensional evaluation of the capillary-like structure networks was performed by twophoton laser scanning microscopy (TPLSM) and subsequent image processing was done  ...  In addition, we evaluated the utilization of a custom-made constant flow bioreactor for simplified cultivation of these grafts, therefore possibly easing graft production and presumably increasing their  ...  This work was supported by the core facility ''Two-Photon Imaging,'' a core facility of the Interdisciplinary Center for Clinical Research (IZKF) Aachen within the Faculty of Medicine at RWTH Aachen University  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1089/ten.tea.2013.0640">doi:10.1089/ten.tea.2013.0640</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25159286">pmid:25159286</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4293133/">pmcid:PMC4293133</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fzcpvrbytjdrnecnw77klkrpcy">fatcat:fzcpvrbytjdrnecnw77klkrpcy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200506102128/http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC4293133&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/5d/23/5d23e15e3cb8fddd21994d49dd3accfdaf7213cb.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1089/ten.tea.2013.0640"> <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/PMC4293133" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

TFMLAB: a MATLAB toolbox for 4D traction force microscopy [article]

Jorge Barrasa Fano, Apeksha Shapeti, Alvaro Jorge-Penas, Mojtaba Barzegari, Jose A Sanz Herrera, Hans Van Oosterwyck
<span title="2020-12-19">2020</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
TFMLAB integrates all the computational steps to compute active cellular forces from confocal microscopy images, including image processing, cell segmentation, image alignment, matrix displacement measurement  ...  While various TFM computational workflows are available in the literature, open-source programs that are easy to use by researchers with limited technical experience and that can analyze 4D in vitro systems  ...  Image processing steps in TFMLAB. (a,b) 3D renders of the stressed and relaxed images as obtained by means of confocal microscopy (cell channel in green, beads channel in red).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.12.18.423056">doi:10.1101/2020.12.18.423056</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/eel7vmvsi5eozbvpdvmdzbkw2y">fatcat:eel7vmvsi5eozbvpdvmdzbkw2y</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210428102344/https://www.biorxiv.org/content/biorxiv/early/2020/12/19/2020.12.18.423056.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/48/21/482156392a8e0cc1db6a1320cf45124fe1d99ea9.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2020.12.18.423056"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Increased vasculogenesis of endothelial cells in hyaluronic acid augmented fibrin-based natural hydrogels - from in vitro to in vivo models

H C Lin, C K Wang, Y C Tung, F Y Chiu, Y P Su
<span title="2020-09-20">2020</span> <i title="ECM Research Journal"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/a3ue7g3mbrelngrqyeuvtewfam" style="color: black;">European Cells &amp; Materials</a> </i> &nbsp;
The material properties of the hydrogels were also analysed using atomic force microscopy (AFM).  ...  The in vitro vascular morphology analysis showed 17.9 % longer mean tube length and 14.3 % higher average thickness in 7 d cultivation within the HA-supplemented hydrogel.  ...  Acknowledgments This paper is based on work supported by the Taiwan National Science Council (NSC 102-2314-B-075-014), Taipei Veterans General Hospital (V102-113), Taiwan Ministry of Science and Technology  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.22203/ecm.v040a08">doi:10.22203/ecm.v040a08</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/32951194">pmid:32951194</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fciamksahzeqffnbifr5nvse54">fatcat:fciamksahzeqffnbifr5nvse54</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200922011054/https://www.ecmjournal.org/papers/vol040/pdf/v040a08.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/02/3f/023f3e933af7492342d8e757d6fee4a44edd5191.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.22203/ecm.v040a08"> <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>

S-Nitrosoglutathione Acts as a Small Molecule Modulator of Human Fibrin Clot Architecture

Ryon M. Bateman, Christopher G. Ellis, Makoto Suematsu, Keith R. Walley, Pieter H. Reitsma
<span title="2012-08-20">2012</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s3gm7274mfe6fcs7e3jterqlri" style="color: black;">PLoS ONE</a> </i> &nbsp;
Methodology/Principal Findings: Accordingly, we treated human platelet-poor plasma with GSNO (0.01-3.75 mM) and imaged thrombin induced fibrin networks using multiphoton microscopy.  ...  Notwithstanding fibrin clusters, the clot remained stable, as fiber branching was insensitive to GSNO and there was no evidence of fiber motion within the network.  ...  Hon Sing Leong for his assistance in sample preparation. Author Contributions Conceived and designed the experiments: RMB. Performed the experiments: RMB. Analyzed the data: RMB CGE MS KRW.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0043660">doi:10.1371/journal.pone.0043660</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22916291">pmid:22916291</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3423378/">pmcid:PMC3423378</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ajd3s7fwlfet3f5qrn3vdrl5a4">fatcat:ajd3s7fwlfet3f5qrn3vdrl5a4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171004160552/http://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0043660&amp;type=printable" 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/ba/d9/bad96d9be7688514af210eb9e9e4bb75dd285e99.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0043660"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3423378" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Swimming Motility of Monotrichous Pseuomonas Aeruginosa

Chen Qian, Chui Ching Wong, Sanjay Swarup, Keng-Hwee Chiam
<span title="">2011</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 collect time-series of 3D confocal image stacks of the cell body (stained with CMFDA), the nucleus (labeled with DRAQ5) and the surrounding matrices (labeled with TAMRA-SE).  ...  Here, we study fibrin and collagen networks undergoing shear on a confocal microscope and compare this to bulk rheological measurements. We track individual fiber branchpoints as function of strain.  ...  We collect time-series of 3D confocal image stacks of the cell body (stained with CMFDA), the nucleus (labeled with DRAQ5) and the surrounding matrices (labeled with TAMRA-SE).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.bpj.2010.12.1874">doi:10.1016/j.bpj.2010.12.1874</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/dh6wiz3dhvgkjgcvtinxf6tk5i">fatcat:dh6wiz3dhvgkjgcvtinxf6tk5i</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170930181428/http://publisher-connector.core.ac.uk/resourcesync/data/elsevier/pdf/93d/aHR0cDovL2FwaS5lbHNldmllci5jb20vY29udGVudC9hcnRpY2xlL3BpaS9zMDAwNjM0OTUxMDAzMzc3MQ%3D%3D.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/63/44/6344878fee5b26ccf8e43c99e28f90f14ace9af6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.bpj.2010.12.1874"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a>

Angiogenesis Analyzer for ImageJ — A comparative morphometric analysis of "Endothelial Tube Formation Assay" and "Fibrin Bead Assay"

Gilles Carpentier, Sarah Berndt, Ségolène Ferratge, Wayne Rasband, Muriel Cuendet, Georges Uzan, Patricia Albanese
<span title="2020-07-14">2020</span> <i title="Springer Science and Business Media LLC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tnqhc2x2aneavcd3gx5h7mswhm" style="color: black;">Scientific Reports</a> </i> &nbsp;
The analytical evaluation of these two widely used assays still remains challenging in terms of observation method and image analysis.  ...  We previously developed the "Angiogenesis Analyzer" for ImageJ (AA), a tool allowing analysis of ETFA-derived images, according to characteristics of the pseudo-capillary networks.  ...  We also thank Dr Fabien Chevalier for providing some images of ETFA used for the first developments of AA.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41598-020-67289-8">doi:10.1038/s41598-020-67289-8</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/32665552">pmid:32665552</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/r23mahpsxjg5lmk3nsqnbviefi">fatcat:r23mahpsxjg5lmk3nsqnbviefi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201104131634/https://www.hal.inserm.fr/inserm-02926114/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/cf/bc/cfbca7a363ef610e8e0e20117463df7462506f4f.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41598-020-67289-8"> <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>

Functional evaluation of prevascularization in one-stage versus two-stage tissue engineering approach of human bio-artificial muscle

Dacha Gholobova, Lisanne Terrie, Katerina Mackova, Linda Desender, Gilles Carpentier, Melanie Gerard, Lucie Hympanova, Jan Deprest, Lieven Thorrez
<span title="2020-05-01">2020</span> <i title="IOP Publishing"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/c3ws5trapvgfnm2r2424j7jvru" style="color: black;">Biofabrication</a> </i> &nbsp;
In a one-stage approach, human muscle cells were directly co-cultured with endothelial cells in 3D.  ...  In a two-stage approach, a one week old BAM containing differentiated myotubes was coated with a fibrin hydrogel containing endothelial cells.  ...  Acknowledgments The authors are grateful to Stephanie De Vleeschauwer, Erna Dewil and Marleen Lox, Aernout Luttun, Sander Craps, Greetje Vande Velde, Veerle Baekelandt and Joris Van Asselberghs for technical  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1088/1758-5090/ab8f36">doi:10.1088/1758-5090/ab8f36</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/32357347">pmid:32357347</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5afjeyepuvezrjbjp6swepvgmy">fatcat:5afjeyepuvezrjbjp6swepvgmy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210429021548/https://lirias2repo.kuleuven.be/bitstream/handle/123456789/655279/print%20proofs%20biofabrication%202020.pdf;jsessionid=A2BD7213B479C7CBEB542AC837479FD4?sequence=2" 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/12/b1/12b1b6cfe109fa13ec7fb386e9af24a34c47eaaa.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1088/1758-5090/ab8f36"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> iop.org </button> </a>

Endothelial Network Formation Within Human Tissue-Engineered Skeletal Muscle

Dacha Gholobova, Lieselot Decroix, Vicky Van Muylder, Linda Desender, Melanie Gerard, Gilles Carpentier, Herman Vandenburgh, Lieven Thorrez
<span title="">2015</span> <i title="Mary Ann Liebert Inc"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/tgvawvvnrndyvja2he7cz7aiou" style="color: black;">Tissue Engineering. Part A</a> </i> &nbsp;
Finally, addition of Matrigel to the fibrin ECM did not enhance overall myofiber and endothelial network formation.  ...  The size of in vitro engineered skeletal muscle tissue is limited due to the lack of a vascular network in vitro.  ...  Acknowledgements The authors thank Petra D'hooge for technical assistance with confocal microscopy and Sigrid Vanryckeghem for administrative support.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1089/ten.tea.2015.0093">doi:10.1089/ten.tea.2015.0093</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26177063">pmid:26177063</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4605445/">pmcid:PMC4605445</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fqp6c3qs3fh7vgxfaocwz4c2ju">fatcat:fqp6c3qs3fh7vgxfaocwz4c2ju</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170922134123/https://lirias.kuleuven.be/bitstream/123456789/517989/1/Gholobova+et+al.+-+2015+-+Tissue+Engineering+Part+A+-+Endothelial+network+formation+within+human+tissue-engineered+skeletal+muscle.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/c9/48/c948b97bc83ca1764362f48943db9d0a275e4825.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1089/ten.tea.2015.0093"> <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/PMC4605445" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

TFMLAB: A MATLAB toolbox for 4D traction force microscopy

Jorge Barrasa-Fano, Apeksha Shapeti, Álvaro Jorge-Peñas, Mojtaba Barzegari, José Antonio Sanz-Herrera, Hans Van Oosterwyck
<span title="">2021</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/xayqhkyjsncwvogxxusqncax6q" style="color: black;">SoftwareX</a> </i> &nbsp;
TFMLAB integrates all the computational steps to compute active cellular forces from confocal microscopy images, including image processing, cell segmentation, image alignment, matrix displacement measurement  ...  While various TFM computational workflows are available in the literature, open-source programs that are easy to use by researchers with limited technical experience and that can analyze 4D in vitro systems  ...  Acknowledgments The authors thank Dr Marie-Mo Vaeyens, Dr Mar Cóndor and Janne de Jong for their valuable code testing and feedback.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.softx.2021.100723">doi:10.1016/j.softx.2021.100723</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/qhpifev3gffghdiiqrnuzmwcdu">fatcat:qhpifev3gffghdiiqrnuzmwcdu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210605214130/https://pdf.sciencedirectassets.com/312019/1-s2.0-S2352711021X00039/1-s2.0-S2352711021000625/main.pdf?X-Amz-Security-Token=IQoJb3JpZ2luX2VjEH0aCXVzLWVhc3QtMSJIMEYCIQDWQg8WsVleYaAQtU6k0HfwbC6kRqtXcr1ZJQ6m%2BliZsAIhAJW7yuD8NJN2T7Bd5KYGu2q8NCjqBqXcFbLbtRn%2FxaDdKvoDCDUQBBoMMDU5MDAzNTQ2ODY1IgzPSHUb1Qj4N2AXgOAq1wOR29tTKo95lw%2BYblJA64TGS7dvQkgNJ%2FIYta4OkAcp9svMt%2FmE2c0Vd2Gljg4aesW8YQF5KjTLq4Lcxpx6eVBNCSpEEKzfeWo6cgWg623W06mL%2BDBf%2FOHTqk1M6g38ljkooYRAbqZNjICdd5cnykp%2BM9D5ibLC7UOsmujqKFxQ6McMqou%2BpIXT3RNn3AfYDlLClMyQ1xns9JwoU7091338krMsbMF%2FVZn9oc6vBIC0C6LF45wgxbf1oe%2F0ZHnrWdLvWyIeYqbPjmT6X%2FFlqSM48ixToisWS5%2FOipk70OqWeXjSRpMB7lZW5mMFc18lkFsekfNgF4dKryRw4IdbwAfDg9UDuwMNmhVdoM4dzDWI0uHEsTy5yVGTsfW9Wj4U8K9oZ%2FVPUp4Nqy3tGRa6LP1EFYUufh%2BRIENHhLyiAe%2FGxtY8MyfL3VJX8FQzmQx5j%2BKhfX4GiCWZaxPnuWAdBFmbrvZn4mzJJrXaHTASrJXjnIIDPamJsE2%2F1zyfbooZR36CugxdW%2BFl5ZlCcQBXiuMnITMRhN%2FeSYBBGVVxYh6Fj2Pu%2FPsQMXIciBOfurlde8gCp9eEpnN7N0K%2BdphvMv72dPcF7a3bEoN4s4J8wVTLsLoJN%2BWe0I0w47bvhQY6pAH1y1k2Ysxwnfmmuypyjtx1e6AD0qOMJP2Npq0n995LqdmAbmAejJnBASv%2B4YAOHXP8HkC1AEoJ4UFiir%2FYh90uhGRl8NlW6VdY9g%2B5Xnbz4vSG8huynscPEBHnZyUJusr5rvkKKdi5WCi%2F%2ByiM1MbRio%2BY%2Bn%2FQcX%2FWuAmWDSw0gxTej5NnPwUyNHdUQ4N%2BN4lRKSYX234bIH3lGiXOwBz%2FWoH8qA%3D%3D&amp;X-Amz-Algorithm=AWS4-HMAC-SHA256&amp;X-Amz-Date=20210605T214125Z&amp;X-Amz-SignedHeaders=host&amp;X-Amz-Expires=300&amp;X-Amz-Credential=ASIAQ3PHCVTY4NLCVBQW%2F20210605%2Fus-east-1%2Fs3%2Faws4_request&amp;X-Amz-Signature=1459d37d2902c23ba32c81daa3542d71c1419fdef0d9480c5e04bfdf63fa7e58&amp;hash=f9961c83c207c58e2e073031e8a478ad35c00b3a1c13804c2a3e8187ac6d5c28&amp;host=68042c943591013ac2b2430a89b270f6af2c76d8dfd086a07176afe7c76c2c61&amp;pii=S2352711021000625&amp;tid=spdf-e3b525b9-5958-439d-bcbb-c8c03c9aa32a&amp;sid=dd686c7f11b4c54bfb68fdb22647949d6836gxrqa&amp;type=client" 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/b9/34/b93428035a83e7443b27500640f8d6184f867a74.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.softx.2021.100723"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> elsevier.com </button> </a>
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