{"id":53,"date":"2012-09-29T07:54:09","date_gmt":"2012-09-29T11:54:09","guid":{"rendered":"http:\/\/bioimage.coe.drexel.edu\/info\/?page_id=53"},"modified":"2025-02-05T11:04:52","modified_gmt":"2025-02-05T16:04:52","slug":"publications","status":"publish","type":"page","link":"https:\/\/bioimage.coe.drexel.edu\/mp\/","title":{"rendered":"Publications"},"content":{"rendered":"\n<p>My publications are also listed on <a href=\"http:\/\/scholar.google.com\/citations?user=4pWLoJEAAAAJ&amp;hl=en&amp;authuser=1\">Google Scholar<\/a>. Some of my recent papers are listed on my <a href=\"http:\/\/www.ncbi.nlm.nih.gov\/sites\/myncbi\/andrew.cohen.1\/bibliography\/42198983\/public\/?sort=date&amp;direction=ascending\">NCBI bibliography<\/a>. Bold=Cohen lab member, *=corresponding author<\/p>\n\n\n\n<ul><li><strong>L. Aho, M. Winter, M. DeCarlo, <\/strong>A. Frismantiene, Y. Blum, P. A. Gagliardi, O. Pertz, and <strong>A. R. Cohen*<\/strong>,  <em>A Kolmogorov metric embedding for live cell microscopy signaling patterns<\/em>, in review and <a href=\"https:\/\/arxiv.org\/abs\/2401.02501#:~:text=The%20proposed%20cell%20signaling%20structure,%2Dthe%2Dart%20cytonuclear%20ratio.\">arXiv<\/a>, 2025.<\/li><\/ul>\n\n\n\n<ul><li><strong>A.R. Cohen<\/strong> and P.M.B. Vit\u00e1nyi, <em>The cluster structure function<\/em>, <span style=\"text-decoration: underline;\">IEEE Transactions on Pattern Analysis &amp; Machine Intelligence<\/span>, <a href=\"https:\/\/pubmed.ncbi.nlm.nih.gov\/37018105\/\">PMID:&nbsp;<strong>37018105<\/strong><\/a>, 2023.<\/li><li>Ma\u0161ka, M.,&nbsp;incl. <strong>L. Aho and A. R. Cohen , <\/strong><em>et al.<\/em>&nbsp;The Cell Tracking Challenge: 10 years of objective benchmarking.&nbsp;<span style=\"text-decoration: underline;\">Nat Methods<\/span>&nbsp;20, 1010\u20131020 (2023). <a href=\"https:\/\/doi.org\/10.1038\/s41592-023-01879-y\">https:\/\/doi.org\/10.1038\/s41592-023-01879-y<\/a> <\/li><li>P. A. Gagliardi, incl. <strong>A. R. Cohen<\/strong>, <em>et al.,<\/em> <em>Automatic detection of spatio-temporal signaling patterns in cell collectives<\/em>.&nbsp;<span style=\"text-decoration: underline;\">J Cell Biol<\/span>, 2023; 222 (10): e202207048. doi:&nbsp;<a rel=\"noreferrer noopener\" href=\"https:\/\/doi.org\/10.1083\/jcb.202207048\" target=\"_blank\">https:\/\/doi.org\/10.1083\/jcb.202207048<\/a><\/li><\/ul>\n\n\n\n<p><\/p>\n\n\n\n<ul><li>P. Ender,&nbsp;P. A. Gagliardi,&nbsp;M. Dobrzynski,&nbsp;C. Dessauges,&nbsp;T. H\u00f6hener,&nbsp;M.A. Jacques,&nbsp;<strong>A. R.&nbsp;Cohen<\/strong>,&nbsp;O. Pertz, <em>Spatio-temporal Control of ERK Pulse Frequency Coordinates Fate Decisions during Mammary Acinar Morphogenesis<\/em>, <span style=\"text-decoration: underline;\">Developmental Cell<\/span>. 2022 Sep 26;57(18):2153-2167.e6. <a href=\"https:\/\/doi.org\/10.1016\/j.devcel.2022.08.008\">https:\/\/doi.org\/10.1016\/j.devcel.2022.08.008<\/a>. <\/li><li><strong>Mark Winter and Andrew R. Cohen*<\/strong>, <em>LEVERSC: Cross-Platform Scriptable Multichannel 3-D Visualization for Fluorescence Microscopy Images<\/em>. <span style=\"text-decoration-line: underline;\">Frontiers in Bioinformatics<\/span>, vol. 2, 2022-March-17.<a href=\"https:\/\/doi.org\/10.3389\/fbinf.2022.740078\">https:\/\/doi.org\/10.3389\/fbinf.2022.740078<\/a><\/li><\/ul>\n\n\n\n<p><\/p>\n\n\n\n<ul><li>A. Villasante, S. T. Robinson, <strong>A. R Cohen<\/strong>, R. Lock, X. E. Guo, G. Vunjak-Novakovic,  <em>Human serum enhances biomimicry of engineered tissue models of bone and cancer<\/em>,  <span style=\"text-decoration: underline;\">Frontiers Bioengineering and Biotechnology<\/span>, 13 July 2021<span style=\"text-decoration: underline;\"> |&nbsp;<a href=\"https:\/\/doi.org\/10.3389\/fbioe.2021.658472\">https:\/\/doi.org\/10.3389\/fbioe.2021.658472<\/a><\/span>. <\/li><li>P. A. Gagliardi, M. Dobrzyski, M.A. Jacques, C. Dessauges, P. Ender, Y. Blum, R. M. Hughes, <strong>A. R Cohen<\/strong>, O. Pertz, <em>Collective ERK\/Akt activity waves orchestrate epithelial homeostasis by driving apoptosis-induced survival<\/em>, <span style=\"text-decoration: underline;\">Developmental Cell<\/span>, Vol 56(12),&nbsp; https:\/\/doi.org\/10.1016\/j.devcel.2021.05.007<a href=\"https:\/\/doi.org\/10.1016\/j.devcel.2021.05.007\">,<\/a>&nbsp;JUNE 21, 2021<\/li><li> X. Zhao, Y. Wang, <strong>E. Wait, W. Mankowski<\/strong>, Christopher S. Bjornsson, <strong>A. R. Cohen<\/strong>, K. L. Zuloaga, S. Temple, <em>3D image analysis of the Complete Ventricular-Subventricular Zone Stem Cell Niche reveals Significant Vasculature changes and Progenitor Deficits in Males versus Females with Aging<\/em>, <span style=\"text-decoration: underline;\">Stem Cell Reports<\/span>, 2021 Apr 13;16(4):836-850, <a href=\"https:\/\/doi.org\/10.1016\/j.stemcr.2021.03.012\">https:\/\/doi.org\/10.1016\/j.stemcr.2021.03.012<\/a>.<\/li><li><strong>M. R. Winter<\/strong>, M. Morgulis, T. Gildor,  <strong>A. R. Cohen<\/strong> and  S. Ben-Tabou de-Leon,  <em>Calcium-vesicles perform active diffusion in the sea urchin embryo during larval biomineralization<\/em>, &nbsp;<span style=\"text-decoration: underline;\">PLOS Computational Biology<\/span> 17(2): e1008780.&nbsp;<a href=\"https:\/\/doi.org\/10.1371\/journal.pcbi.1008780\">https:\/\/doi.org\/10.1371\/journal.pcbi.1008780<\/a>. Also,  <a href=\"https:\/\/doi.org\/10.1101\/2020.08.14.244053   \">bioarxiv<\/a>, 2021.<\/li><\/ul>\n\n\n\n<p><\/p>\n\n\n\n<ul><li><strong>A.R. Cohen* <\/strong>and P.M.B. Vit\u00e1nyi, <em>Web Similarity in Sets of Search Terms Using Database Queries<\/em><strong>, <\/strong><span style=\"text-decoration: underline;\">SN Computer Science,<\/span>&nbsp;1,&nbsp;161 (2020). <a href=\"https:\/\/doi.org\/10.1007\/s42979-020-00148-5\">https:\/\/doi.org\/10.1007\/s42979-020-00148-5<\/a>.&nbsp; Also arXiv 1502.05957<a href=\"http:\/\/export.arxiv.org\/pdf\/1502.05957v1\"> (pdf<\/a>).<\/li><li>PL Graney, S Ben-Shaul, S Landau, A Bajpai, B Singh, J Eager, <strong>A. R. Cohen<\/strong>, S Levenberg, KL Spiller, <em>Macrophages of diverse phenotypes drive vascularization of engineered tissues<\/em>,&nbsp;<span style=\"text-decoration: underline;\">Science Advances<\/span>, 6 (18), 2020.<\/li><\/ul>\n\n\n\n<p><\/p>\n\n\n\n<ul><li><strong>E. Wait, M. Winter and A. R. Cohen<\/strong>, <em>Hydra image processor: 5-D GPU image analysis library with MATLAB and Python wrappers,<\/em>&nbsp; <span style=\"text-decoration: underline;\">Bioinformatics<\/span>, 2019. (<a href=\"https:\/\/academic.oup.com\/bioinformatics\/advance-article\/doi\/10.1093\/bioinformatics\/btz523\/5523180?guestAccessKey=60693d4e-64b7-42a0-97a0-bd0e51b45d50\">link<\/a>).<\/li><li><b>M. Winter, W. Mankowski, E. Wait, E. C. De La Hoz, A. Aguinaldo and A. R. Cohen<\/b>, <em>Separating Touching Cells using Pixel Replicated Elliptical Shape Models,&nbsp;<\/em><span style=\"text-decoration: underline;\">IEEE Transactions on Medical Imaging<\/span>, 38:4, pp 883-893, October 2018. (<a href=\"https:\/\/bioimage.coe.drexel.edu\/pdf\/segmenting%20touching%20cells%20final%20submit.pdf\">pdf<\/a>)<\/li><li>K. E. Pourfarhangi1, <strong>E. C. De La Hoz, A. R. Cohen<\/strong> and  B. Gligorijevic, <em>Contact guidance is cell cycle-dependent<\/em>, <span style=\"text-decoration: underline;\">APL Bioengineering<\/span> 2, 031904, 2018; <a href=\"https:\/\/doi.org\/10.1063\/1.5026419\">https:\/\/doi.org\/10.1063\/1.5026419<\/a>.<\/li><li>Seo, J. Ho, Agarwal, Ekta, Bryant, K. G, Caino, M. Cecilia, Kim, E. Tae, Kossenkov, A. V., Tang, Hsin-Yao, Languino, L. R., Gabrilovich, D. I, <strong>Cohen, A. R.<\/strong>, Speicher, D. W., Altieri, and D. C., <i>Syntaphilin Ubiquitination Regulates Mitochondrial Dynamics And Tumor Cell Movements<\/i>, <span style=\"text-decoration: underline;\">Cancer Research<\/span>, 2018. <a href=\"http:\/\/cancerres.aacrjournals.org\/content\/early\/2018\/06\/13\/0008-5472.CAN-18-0595.short\">DOI: 10.1158\/0008-5472.CAN-18-0595<\/a>.<\/li><li>Apostolopoulou, M., Kiehl, T. R., <strong>Winter, M.<\/strong>, <strong>De La Hoz, E.<\/strong>, Boles, N. C., Bjornsson, C. S., Zuloaga, K. L., Goderie, S. K., Wang, Yue, <strong>Cohen, A. R.,<\/strong> Temple, S., <i>Non-monotonic Changes in Progenitor Cell Behavior and Gene Expression during Aging of the Adult V-SVZ Neural Stem Cell Nich<\/i>, <span style=\"text-decoration: underline;\">Stem Cell Reports<\/span>, vol. 9, no. 6, pp. 1931-1947, 12\/ 2017. <a href=\"https:\/\/doi.org\/10.1016\/j.stemcr.2017.10.005\">doi: 10.1016\/j.stemcr.2017.10.005<\/a><\/li><li>A. M. Valm, S. Cohen, W. Legant, J. Melunis, U. Hershberg, <strong>E. Wait, A. R. Cohen, <\/strong> M. W. Davidson, E. Betzig, J. Lippincott-Schwartz, <em>Applying systems-level spectral imaging and analysis to reveal the organelle interactome<\/em>, <span style=\"text-decoration: underline;\">Nature<\/span>, Letter. advance online publication, 05\/24\/2017. <a href=\"http:\/\/www.nature.com\/nature\/journal\/v546\/n7656\/abs\/nature22369.html\">doi:10.1038\/nature22369<\/a><\/li><li>M. Caino, J. Seo, <strong>A.&nbsp; Aguinaldo, E. Wait<\/strong>, K. Bryant, A. Kossenkov, J. Hayden, V. Vaira, A. Morotti, S. Ferrero, S. Bosari, D. Gabrilovich, L. Languino, <strong>A. R. Cohen<\/strong>, and D. Altieri. <em> A Neuronal Network of Mitochondrial Dynamics Regulates Metastasis<\/em>.\u009d <span style=\"text-decoration: underline;\">Nature Communications<\/span>, 2016. <a href=\"http:\/\/www.nature.com\/articles\/ncomms13730\">doi:10.1038\/ncomms13730.<\/a><\/li><li><strong>E. Cardenas De La Hoz, M. R. Winter<\/strong>, M. Apostolopoulou, S. Temple, <strong>A. R. Cohen*<\/strong>, <em>Measuring Process Dynamics and Nuclear Migration for Clones of Neural Progenitor Cells<\/em>,&nbsp; <a rel=\"noopener noreferrer\" href=\"http:\/\/dx.doi.org\/10.1007\/978-3-319-46604-0_21\" target=\"_blank\">ECCV 2016 Workshops<\/a>, Volume 9913, Springer&nbsp;Lecture Notes in Computer Science <span class=\"page-numbers-info\">pp 291-305 (<a rel=\"noopener noreferrer\" href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/cohen%20eccv2016submission%20author.pdf\" target=\"_blank\">pdf<\/a>).&nbsp; PMC: pending.<\/span><\/li><li><strong>M. Winter, W. Mankowski, E. Wait,<\/strong> S. Temple and <strong>A. R. Cohen*<\/strong>, <em>LEVER: software tools for segmentation, tracking and lineaging of proliferating cells, <\/em><span style=\"text-decoration: underline;\">Bioinformatics<\/span>. 2016, (<a rel=\"noopener noreferrer\" href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/Bioinformatics-LEVER_author.pdf\" target=\"_blank\">pdf<\/a>)&nbsp;<a rel=\"noopener noreferrer\" href=\"http:\/\/dx.doi.org\/10.1093\/bioinformatics\/btw406\" target=\"_blank\">doi:10.1093\/bioinformatics\/btw406<\/a>.<\/li><li><strong>R. Joshi, W. Mankowski, M. Winter<\/strong>, J. S. Saini, T. A. Blenkinsop, J. H. Stern, S. Temple* and <strong>A. R. Cohen*<\/strong>, <em>Automated measurement of cobblestone morphology for characterizing stem cell-derived retinal pigment epithelial cell cultures<\/em>, <span style=\"text-decoration: underline;\"> Journal of Ocular Pharmacology and Therapeutics<\/span>, Special Issue: Cell-based Therapies for Eye Disease. 2016 Jun;32(5):331-9. doi:10.1089\/jop.2015.0163. (<a title=\"author version\" href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/AutomatedRPE%20cohen%20final.pdf\">pdf<\/a>), <a rel=\"noopener noreferrer\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/27191513\/\" target=\"_blank\">pubmed ID 27191513<\/a>.<br \/>+ GitLab source code repository for this paper:<br \/><a href=\"https:\/\/git-bioimage.coe.drexel.edu\/opensource\/rpe\">https:\/\/git-bioimage.coe.drexel.edu\/opensource\/rpe<\/a><\/li><li>A. Newhart, S. L. Powers, P. K. Shastrula, I. Sierra, L. M. Joo, J. E. Hayden, A. R. Cohen, and Susan M. Janicki, <em>RNase P protein subunit Rpp29 represses histone H3.3 nucleosome deposition<\/em>, <span style=\"text-decoration: underline;\">Molecular Biology of the Cell<\/span>, 2016 27:7 pp. 1154-1169; <a href=\"https:\/\/doi.org\/10.1091\/mbc.e15-02-0099\">doi:10.1091\/mbc.E15-02-0099,&nbsp;<\/a>&nbsp;<a rel=\"noopener noreferrer\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26842893\" target=\"_blank\">pubmed ID 26842893<\/a>.<\/li><li>A. Jolly, CH Luan, B. Dusel, S. Dunne, M. Winding, V. Dixit, C. Robins, J. Saluk, D. Logan, A. Carpenter, M. Sharma, D. Dean, A.R. Cohen* and V.I. Gelfand*, <em>A genome-wide RNAi screen for microtubule 1 bundle formation and lysosome motility regulation in Drosophila S2 cells<\/em>, <span style=\"text-decoration: underline;\">Cell Reports<\/span>. 2016 14(3) pp. 611-620; <a href=\"http:\/\/dx.doi.org\/10.1016\/j.celrep.2015.12.051 \">doi:10.1016\/j.celrep.2015.12.051<\/a>, <a rel=\"noopener noreferrer\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26774481\/\" target=\"_blank\">pubmed ID 26774481<\/a>.<\/li><li><strong>M. Winter<\/strong>, M. Liu, <strong>D. Monteleone<\/strong>, J. Melunis, U. Hershberg, S. K. Goderie, S. Temple*, and <strong>A. R. Cohen*<\/strong>, <em>Computational Image Analysis Reveals Intrinsic Multigenerational Differences Between Anterior and Posterior Cerebral Cortex Neural Progenitor Cells<\/em>, <span style=\"text-decoration: underline;\">Stem Cell Reports<\/span>, vol. 5, pp. 609-620, 10\/13\/2015, <a rel=\"noopener noreferrer\" href=\"http:\/\/dx.doi.org\/10.1016\/j.stemcr.2015.08.002\" target=\"_blank\">http:\/\/dx.doi.org\/10.1016\/j.stemcr.2015.08.002<\/a>, <a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26344906\">pubmed ID 26344906 <\/a>.<br \/>+ CloneView open data repository for this paper: <a href=\"http:\/\/n2t.net\/ark:\/87918\/d91591\">http:\/\/n2t.net\/ark:\/87918\/d91591<\/a><br \/>+ GitLab source code repository for this paper: <a href=\"https:\/\/git-bioimage.coe.drexel.edu\/opensource\/lever\/tree\/master\">https:\/\/git-bioimage.coe.drexel.edu\/opensource\/lever\/tree\/master<\/a><\/li><li><strong>A.R.Cohen<\/strong> and P.M.B. Vitanyi, <em>Normalized Compression Distance of Multisets with Applications<\/em>, <span style=\"text-decoration: underline;\">IEEE Transactions on Pattern Analysis and Machine Intelligence<\/span>. 2015 Aug;37(8):1602-14, <a href=\"http:\/\/dx.doi.org\/10.1109\/TPAMI.2014.2375175\">http:\/\/dx.doi.org\/10.1109\/TPAMI.2014.2375175<\/a>, (<a rel=\"noopener noreferrer\" href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/author%20version%20TPAMI%20final.pdf\">pdf<\/a>), <a rel=\"noopener noreferrer\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/26352998\/\" target=\"_blank\">pubmed ID 26352998<\/a>.<\/li><li><strong>A. R. Cohen<\/strong>, <em>Extracting meaning from biological imaging data<\/em>, <span style=\"text-decoration: underline;\">Molecular Biology of the Cell<\/span>, 2014; 25(22):3470-3, (<a title=\"prepress\" href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/Cohen%20MBOC%202014%20perspective%20prepress.pdf\">pdf<\/a>), <a rel=\"noopener noreferrer\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/25368423\" target=\"_blank\">pubmed ID 25368423<\/a>.<\/li><li><strong>E. Wait, M. Winter<\/strong>, C. Bjornsson, E. Kokovay, Y. Wang, S. Goderie, S. Temple and <strong>A. R. Cohen*<\/strong>, <em>Visualization and Correction of Automated Segmentation, Tracking and Lineaging from 5-D Stem Cell Image Sequences<\/em>. <span style=\"text-decoration: underline;\">BMC Bioinformatics<\/span>, 15:328. <a rel=\"noopener noreferrer\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/15\/328\/abstract\" target=\"_blank\">doi:10.1186\/1471-2105-15-328<\/a>. October 3, 2014, <a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/25281197\">pubmed:25281197<\/a>.<\/li><li>N. Chenouard, I. Smal, F. de Chaumont, M. Maska, I. F. Sbalzarini, Y. Gong,J. Cardinale, C. Carthel, S. Coraluppi, <strong>M. Winter, A. R. Cohen,<\/strong> W. Godinez, K. Rohr,Y. Kalaidzidis, L. Liang, J. Duncan, H. Shen, Y. Xu, K. Magnusson, J. Jaldon, H. Blau, P. Paul-Gilloteaux, P. Roudot, C. Kervrann, F. Waharte, J. Tinevez, S. Shorte, J. Willemse, K. Celler, G. van Wezel, H. Dan, Y. Tsai, C. Ortiz de Solarzano, J.C. Olivo-Marin, E. Meijering, <em>Objective Comparison of Particle Tracking Methods<\/em>. <span style=\"text-decoration: underline;\">Nature Methods<\/span>. 2014 Mar;11(3):281-9. doi: 10.1038\/nmeth.2808. Epub 2014 Jan 19 (<a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC4131736\/\">PMC<\/a>)<\/li><li><strong>Winter, M.,<\/strong> C. Fang, G. Banker, B. Roysam, and <strong>A. R. Cohen*<\/strong>, <em>Axonal Transport Analysis Using Multitemporal Association Tracking<\/em>. <span style=\"text-decoration: underline;\">International Journal of Computational Biology and Drug Design<\/span> 2012;5(1):35-48. (<a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC3380808\/\">PMC<\/a>)<\/li><li><strong>Winter, M., E. Wait<\/strong>, B. Roysam, S. Goderie, E. Kokovay, S. Temple*, and <strong>A.R. Cohen*<\/strong>, <em>Vertebrate Neural Stem Cell Segmentation, Tracking and Lineaging with Validation and Editing<\/em>. <span style=\"text-decoration: underline;\">Nature Protocols<\/span>, 2011. 6(12): p. 1942-52. (<a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC3313840\/\">PMC<\/a>)<\/li><li>Clark, B., <strong>M. Winter<\/strong>, <strong>A.R. Cohen*<\/strong>, and B. Link*, <em>Generation of Rab-based transgenic lines for in vivo studies of endosome biology in zebrafish<\/em>. <span style=\"text-decoration: underline;\">Developmental Dynamics<\/span>, 2011. 240(11): p. 2452-65. (<a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC3197968\/\">PMC<\/a>)<\/li><li><strong>A.R. Cohen<\/strong>, F. Gomes, B. Roysam, and M. Cayouette, <em>Computational prediction of neural progenitor cell fates.<\/em> <span style=\"text-decoration: underline;\">Nature Methods<\/span>, 2010. 7(3): p. 213 &#8211; 218. [Selected for a News and Views in Nature Methods, March 2010. Evaluated for Faculty of 1000: Biology, Feb 17, 2010 by William Harris, University of Cambridge, UK. Ranked as a &#8220;must read&#8221;\u009d. Images from this&nbsp;work were <a rel=\"noopener noreferrer\" href=\"http:\/\/www.nature.com\/nature\/supplements\/tech\/7310\/index.html\" target=\"_blank\">featured as cover art on a Nature Journal special supplement on live cell imaging<\/a>&nbsp;(cover art and interview)&nbsp; (8\/26\/2010)]<\/li><li><strong>A.R. Cohen, <\/strong>C. Bjornsson, S. Temple, G. Banker and B. Roysam, <em>Automatic Summarization of Changes in Biological Image Sequences using Algorithmic Information Theory.<\/em> <span style=\"text-decoration: underline;\">Pattern Analysis and Machine Intelligence, IEEE Transactions on<\/span>, 2009. <strong>31<\/strong>(8): pp. 1386-1403.<\/li><li>W. He, T. A. Hamilton, <strong>A. R. Cohen<\/strong>, T. J. Holmes, J. N. Turner, and B. Roysam, <em>Automated Three-Dimensional Tracing of HRP Stained Neurons From A Stack Of Brightfield Optical Slices<\/em>, <span style=\"text-decoration: underline;\">Microscopy and Microanalysis<\/span>, vol. 9, 296-310, 2003.<\/li><li><strong>A. R. Cohen<\/strong>, B. Roysam, and J. N. Turner, <em>Automated Tracing and Volume Measurements of Neurons from 3-D Confocal&nbsp;Fluorescence Microscopy Data<\/em>, <span style=\"text-decoration: underline;\">Journal of Microscopy<\/span>, Vol. 173, Pt. 2, February 1994.<\/li><li>B. Roysam, <strong>A. R. Cohen<\/strong>, P. H. Getto, and P. R. Boyce, <em>A Numerical Approach to the Computation of Light Propagation through Turbid Media: Application to the Evaluation of Lighted Exit Signs<\/em>, <span style=\"text-decoration: underline;\">IEEE Transactions on Industry Applications<\/span>, Vol. 29, No. 3, pp. 661-669, May \/June 1993 (invited paper). Frontiers in Bioengineering and Biotechnology <\/li><\/ul>\n\n\n\n<p><strong>Select Peer Reviewed Publications <\/strong>*=corresponding author, <strong>bold=Cohen lab member<\/strong><\/p>\n\n\n\n<p><strong>Other publications <\/strong><\/p>\n\n\n\n<ul><li><strong> Wait, E., M. Winter, S. Song, D. Monteleone, <\/strong>C. Bjornsson, S. Goderie, S. Temple and <strong>A. R. Cohen*<\/strong> (2015). <em>Collaborative Visualization in the Browser for Segmentation, Tracking, and Lineaging with 5-D Biological Microscopy Images.<\/em> BioImage Informatics Conference, Gaithersburg, MD, 2015.<\/li><li><strong>R. Joshi, S. R. Swaminathan, M. Winter<\/strong>, J. S. Saini, T. A. Blenkinsop, J. Stern, S. Temple and <strong>A. R. Cohen*<\/strong>, <em>Measuring visual structure in phase and fluorescence microscopy using image compression<\/em>. BioImage Informatics Conference, Gaithersburg, MD, 2015.<\/li><li><strong>W. C. Mankowski, G. Konica, M. R. Winter, F. Chen<\/strong>, C. Maus, R. Merkle, U. Klingmuller, T. Hofer, A. Kan, S. Heinzel, S. Oostindie, P. Hodgkin, and <strong>A. R. Cohen*<\/strong>,<em>Multi-Modal Segmentation for Quantifying Fluorescent Cell Cycle Indicators Throughout Clonal Development <\/em>. BioImage Informatics Conference, Gaithersburg, MD, 2015.<\/li><li><strong>W. C. Mankowski, M. R. Winter, E. Wait,<\/strong> M. Lodder, T. Schumacher, S. H. Naik and <strong>A. R. Cohen*<\/strong>, <em>Segmentation of occluded hematopoietic stem cells from tracking<\/em>. Conf Proc IEEE Eng Med Biol Soc 2014: 5510-5513 (<a href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/embc14_walt.pdf\">pdf<\/a>) (<a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC4324458\/\">PMC<\/a>).<\/li><li><strong>Koerner, M., E. Wait, M. Winter,<\/strong> C. Bjornsson, E. Kokovay, Y. Wang, S. K. Goderie, S. Temple and <strong>A. R. Cohen*<\/strong>, <em>Multisensory interface for 5D stem cell image volumes<\/em>. Conf Proc IEEE Eng Med Biol Soc 2014: 1178-1181 (<a href=\"http:\/\/bioimage.coe.drexel.edu\/pdf\/Multisensory%20Interface%20for%205D%20Stem%20Cell%20Image%20Volumes%20MKoerner.pdf\">pdf<\/a>) (<a href=\"http:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC4321857\/\">PMC<\/a>).<\/li><li><strong>E. Wait, M. Winter<\/strong>, C. Bjornsson, E. Kokovay, Y. Wang, S. Goderie, S. Temple and <strong>A. R. Cohen*<\/strong>, <em>Visualization and Correction of Automated Segmentation, Tracking and Lineaging from 5-D Stem Cell Image Sequences<\/em>. <span style=\"text-decoration: underline;\"> 4th Symposium on Biological Data Visualization, 11-12 July, Boston, MA., 2014 (<a href=\"http:\/\/arxiv.org\/abs\/1407.2089\">pdf<\/a>). <\/span><\/li><li><strong>Winter, M<\/strong>., C. Fang, G. Banker, B. Roysam, and <strong>A. R. Cohen*<\/strong>, <em>Axonal Transport Analysis Using Multitemporal Association Tracking<\/em>, in <em>Microscopic Image Analysis with Applications in Biology<\/em>. 2011: Chicago IL.<\/li><li><strong>A. R. Cohen<\/strong>, C. Bjornsson, Y. Chen, G. Banker, E. Ladi, E. Robey, S. Temple, and B. Roysam, <em>Automatic Summarization of Changes in Image Sequences using Algorithmic Information Theory<\/em>, <span style=\"text-decoration: underline;\">IEEE International Symposium on Biomedical Imaging<\/span>, May 2008: Paris, France (invited paper).<\/li><li>B. Roysam, <strong>A. R. Cohen<\/strong>, P. H. Getto, and P. R. Boyce, <em>Computational Visualization of Lighted Exit Signs Through Complex Smoke Media<\/em>, 26th <span style=\"text-decoration: underline;\">IEEE Conference on Industry Applications<\/span>, October 1991 (Prize Paper Award).<\/li><\/ul>\n","protected":false},"excerpt":{"rendered":"<p>My publications are also listed on Google Scholar. Some of my recent papers are listed on my NCBI bibliography. Bold=Cohen lab member, *=corresponding author L. Aho, M. Winter, M. DeCarlo, A. Frismantiene, Y. Blum, P. A. Gagliardi, O. Pertz, and &hellip; <a href=\"https:\/\/bioimage.coe.drexel.edu\/mp\/\">Continue reading <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":4,"featured_media":0,"parent":0,"menu_order":3,"comment_status":"closed","ping_status":"open","template":"","meta":[],"_links":{"self":[{"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/pages\/53"}],"collection":[{"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/comments?post=53"}],"version-history":[{"count":244,"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/pages\/53\/revisions"}],"predecessor-version":[{"id":1214,"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/pages\/53\/revisions\/1214"}],"wp:attachment":[{"href":"https:\/\/bioimage.coe.drexel.edu\/mp\/wp-json\/wp\/v2\/media?parent=53"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}