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Journal of Integrative Bioinformatics

Editor-in-Chief: Schreiber, Falk / Hofestädt, Ralf

Managing Editor: Sommer, Björn

Ed. by Baumbach, Jan / Chen, Ming / Orlov, Yuriy / Allmer, Jens

Editorial Board: Giorgetti, Alejandro / Harrison, Andrew / Kochetov, Aleksey / Krüger, Jens / Ma, Qi / Matsuno, Hiroshi / Mitra, Chanchal K. / Pauling, Josch K. / Rawlings, Chris / Fdez-Riverola, Florentino / Romano, Paolo / Röttger, Richard / Shoshi, Alban / Soares, Siomar de Castro / Taubert, Jan / Tauch, Andreas / Yousef, Malik / Weise, Stephan / Hassani-Pak, Keywan

4 Issues per year

CiteScore 2017: 0.77

SCImago Journal Rank (SJR) 2017: 0.336

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Volume 8, Issue 3


Tracking T and B cells from two-photon microscopy imaging using constrained SMC clusters

D. Olivieri / J. Faro
  • University of Vigo, Department of Biochemistry, Genetics and Immunology, 36310, Vigo, http://www.uvigo.es, Portugal
  • Instituto Gulbenkian de Ciencia, 2781-901, Oeiras, http://www.igc.gulbenkian.pt, Portugal
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ I. Gomez-Conde / C. E. Tadokoro
Published Online: 2016-10-18 | DOI: https://doi.org/10.1515/jib-2011-180


This paper describes a novel software algorithm, called constrained Sequential Monte Carlo (SMC) clusters, for tracking a large collection of individual cells from intra-vital two-photon microscopy image sequences. We show how our method and software tool, implemented in python, is useful for quantifying the motility of T and B lymphocytes involved in an immune response vs lymphocytes under non immune conditions. We describe the theory behind our algorithm and briefly discuss the architecture of our software. Finally, we demonstrate both the functionality and utility of software by applying it to two practical examples from videos displaying lymphocyte motility in B cell zones (follicles) and T cell zones of lymph nodes.

About the article

Published Online: 2016-10-18

Published in Print: 2011-12-01

Citation Information: Journal of Integrative Bioinformatics, Volume 8, Issue 3, Pages 141–157, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2011-180.

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© 2011 The Author(s). Published by Journal of Integrative Bioinformatics.. This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0

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