Where Data Meets Computer Science
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Publications

In Preparation

  • [2018,article] bibtex
    B. Obara, A. Lichius, N. Read, V. Grau, and M. Fricker, "Analysis and understanding of fungal cell tip growth," Bioinformatics, 2018.
    @article{Obara2018P,
      author = {Boguslaw Obara and Alexander Lichius and Nick Read and Vicente Grau and Mark Fricker},
      title = {Analysis and understanding of fungal cell tip growth},
      journal = {Bioinformatics},
      year = {2018}
    }

In Review

  • [2018,inproceedings] bibtex
    P. Jackson, A. Atapour-Abarghouei, S. Bonner, T. Breckon, and B. Obara, "Style augmentation: data augmentation via style randomization," in Asian Conference on Computer Vision, Perth, Western Australia, 2018.
    @inproceedings{Jackson2018R,
      author = {Philip Jackson and Amir Atapour-Abarghouei and Stephen Bonner and Toby Breckon and Boguslaw Obara},
      title = {Style augmentation: data augmentation via style randomization},
      booktitle = {Asian Conference on Computer Vision},
      address = {Perth, Western Australia},
      month = {3-6 September},
      year = {2018}
    }
  • [2018,article] bibtex
    M. Roberts, C. Willcocks, and B. Obara, "Deep learning for the classification and clustering of museum collections," Digital Applications in Archaeology and Cultural Heritage, 2018.
    @article{Roberts2018R,
      author = {Matthew Roberts and Chris Willcocks and Boguslaw Obara},
      title = {Deep learning for the classification and clustering of museum collections},
      journal = {Digital Applications in Archaeology and Cultural Heritage},
      year = {2018}
    }
  • [2018,article] bibtex
    S. Bonner, I. Kureshi, J. Brennan, G. Theodoropoulos, S. McGough, and B. Obara, "Exploring the semantic content of unsupervised graph embeddings: an empirical study," Data Science and Engineering, 2018.
    @article{Bonner2018,
      author = {Stephen Bonner and Ibad Kureshi and John Brennan and Georgios Theodoropoulos and Stephen McGough and Boguslaw Obara},
      title = {Exploring the semantic content of unsupervised graph embeddings: an empirical study},
      journal = {Data Science and Engineering},
      year = {2018}
    }
  • [2018,article] bibtex
    S. S. Alharbi, C. Willcocks, P. T. G. Jackson, and B. Obara, "Hierarchical centerline enhancement and extraction of curvilinear structures in 2D and 3D images," Signal, Image and Video Processing, 2018.
    @article{Alharbi2018R,
      author = {Shuaa S. Alharbi and Chris Willcocks and Philip T.G. Jackson and Boguslaw Obara},
      title = {Hierarchical centerline enhancement and extraction of curvilinear structures in {2D} and {3D} images},
      journal = {Signal, Image and Video Processing},
      year = {2018}
    }
  • [2018,article] bibtex
    C. J. Nelson, P. T. G. Jackson, and B. Obara, "Ellipse detection by Hilbert-edge detection and ranging (HEDAR)," PLoS One, 2018.
    @article{Nelson2018R,
      author = {Carl J. Nelson and Philip T.G. Jackson and Boguslaw Obara},
      title = {Ellipse detection by {H}ilbert-edge detection and ranging ({HEDAR})},
      journal = {PLoS One},
      year = {2018}
    }
  • [2018,inproceedings] bibtex
    S. S. Alharbi, C. Sazak, C. J. Nelson, and B. Obara, "Curvilinear structure enhancement by multiscale top-hat tensor in 2D/3D images," in German Conference on Pattern Recognition, Stuttgart, Germany, 2018.
    @inproceedings{Alharbi2018Rb,
      author = {Shuaa S. Alharbi and Cigdem Sazak and Carl J. Nelson and Boguslaw Obara},
      title = {Curvilinear structure enhancement by multiscale top-hat tensor in {2D/3D} images},
      booktitle = {German Conference on Pattern Recognition},
      address = {Stuttgart, Germany},
      month = {9-12 October},
      year = {2018}
    }
  • [2018,article] bibtex
    C. Sazak, C. J. Nelson, and B. Obara, "The multiscale bowler-hat transform for blood vessel enhancement in retinal images," Pattern Recognition, 2018.
    @article{Sazak2018Ra,
      author = {Cigdem Sazak and Carl J. Nelson and Boguslaw Obara},
      title = {The multiscale bowler-hat transform for blood vessel enhancement in retinal images},
      journal = {Pattern Recognition},
      year = {2018}
    }

Published

Journal Articles

  • [2018,article] bibtex
    A. Nasrulloh, C. Willcocks, P. T. G. Jackson, C. Geenen, M. S. Habib, D. H. W. Steel, and B. Obara, "Multi-scale segmentation and surface fitting for measuring 3D macular holes," IEEE Transactions on Medical Imaging, vol. 37, iss. 2, pp. 580-589, 2018.
    @article{Nasrulloh2018,
      author = {Amar Nasrulloh and Chris Willcocks and Philip T.G. Jackson and Caspar Geenen and Maged S. Habib and David H.W. Steel and Boguslaw Obara},
      title = {Multi-scale segmentation and surface fitting for measuring 3D macular holes},
      journal = {IEEE Transactions on Medical Imaging},
      volume = {37},
      number = {2},
      pages = {580-589},
      year = {2018}
    }
  • [2017,article] bibtex
    C. Willcocks, P. T. G. Jackson, C. J. Nelson, A. Nasrulloh, and B. Obara, "Interactive GPU Active Contours for Segmenting Inhomogeneous Objects," Journal of Real-Time Image Processing, pp. 1-14, 2017.
    @article{Willcocks2017b,
      author = {Chris Willcocks and Philip T.G. Jackson and Carl J. Nelson and Amar Nasrulloh and Boguslaw Obara},
      title = {Interactive {GPU} Active Contours for Segmenting Inhomogeneous Objects},
      journal = {Journal of Real-Time Image Processing},
      pages = {1-14},
      year = {2017}
    }
  • [2017,article] bibtex
    M. Fricker, D. Akita, L. Heaton, N. Jones, B. Obara, and T. Nakagaki, "Automated analysis of Physarum network structure and dynamics," Journal of Physics D, vol. 50, iss. 25, p. 254, 2017.
    @article{Fricker2017,
      author = {Mark Fricker and Dai Akita and Luke Heaton and Nick Jones and Boguslaw Obara and Toshiyuki Nakagaki},
      title = {Automated analysis of Physarum network structure and dynamics},
      journal = {Journal of Physics D},
      volume = {50},
      number = {25},
      pages = {254},
      year = {2017}
    }
  • [2017,article] bibtex
    M. Sawant, N. Schwarz, R. Windoffer, T. Magin, J. Krieger, N. Mucke, B. Obara, V. Jankowski, J. Jankowski, V. Wally, T. Lettner, J. Reichelt, and R. E. Leube1, "Threonine 150 phosphorylation of keratin 5 is linked to EBS and regulates filament assembly, cell cycle and oxidative stress response," Journal of Investigative Dermatology, vol. 138, iss. 3, pp. 627-636, 2017.
    @article{Sawant2017,
      author = {Mugdha Sawant and Nicole Schwarz and Reinhard Windoffer and Thomas Magin and Jan Krieger and Norbert Mucke and Boguslaw Obara and Vera Jankowski and Joachim Jankowski and Verena Wally and Thomas Lettner and Julia Reichelt and Rudolf E. Leube1},
      title = {Threonine 150 phosphorylation of keratin 5 is linked to {EBS} and regulates filament assembly, cell cycle and oxidative stress response},
      journal = {Journal of Investigative Dermatology},
      volume = {138},
      number = {3},
      pages = {627-636},
      year = {2017}
    }
  • [2016,article] bibtex
    C. Willcocks, P. T. G. Jackson, C. J. Nelson, and B. Obara, "Extracting 3D parametric curves from 2D images of helical objects," IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 39, iss. 9, pp. 1757-1769, 2016.
    @article{Willcocks2017a,
      author = {Chris Willcocks and Philip T.G. Jackson and Carl J. Nelson and Boguslaw Obara},
      title = {Extracting 3D parametric curves from 2D images of helical objects},
      journal = {IEEE Transactions on Pattern Analysis and Machine Intelligence},
      volume = {39},
      number = {9},
      pages = {1757-1769},
      year = {2016}
    }
  • [2016,article] bibtex
    K. Massey, A. Kotsialos, D. Volpati, E. Vissol-Gaudin, C. Pearson, L. Bowen, B. Obara, D. Zeze, C. Groves, and M. Petty, "Evolution of electronic circuits using carbon nanotube composites," Nature Scientific Reports, vol. 6, iss. 32197, 2016.
    @article{Massey2016,
      author = {Kieran Massey and Apostolos Kotsialos and Diogo Volpati and Eleonore Vissol-Gaudin and Chris Pearson and Leon Bowen and Boguslaw Obara and Dagou Zeze and Chris Groves and Michael Petty},
      title = {Evolution of electronic circuits using carbon nanotube composites},
      journal = {Nature Scientific Reports},
      volume = {6},
      number = {32197},
      year = {2016},
      doi = {10.1038/srep32197}
    }
  • [2015,article] bibtex
    C. J. Nelson, P. Duckney, T. J. Hawkins, M. J. Deeks, P. Laissue, P. J. Hussey, and B. Obara, "Bioimage informatics for plant sciences. Blobs and curves: object-based colocalisation for plant cells," Functional Plant Biology, vol. 42, iss. 5, pp. 471-485, 2015.
    @article{Nelson2015,
      author = {Carl J. Nelson and Patrick Duckney and Timothy J. Hawkins and Michael J. Deeks and Philippe Laissue and Patrick J. Hussey and Boguslaw Obara},
      title = {Bioimage informatics for plant sciences. {B}lobs and curves: object-based colocalisation for plant cells},
      journal = {Functional Plant Biology},
      volume = {42},
      number = {5},
      pages = {471-485},
      year = {2015}
    }
  • [2014,article] bibtex
    A. Lichius, A. B. Goryachev, M. D. Fricker, B. Obara, E. Castro-Longoria, and N. D. Read, "CDC-42 and RAC-1 regulate opposite chemotropisms in Neurospora crassa," Journal of Cell Science, vol. 127, iss. 9, pp. 1953-1965, 2014.
    @article{Lichius2014,
      author = {Alexander Lichius and Andrew B. Goryachev and Mark D. Fricker and Boguslaw Obara and Ernestina Castro-Longoria and Nick D. Read},
      title = {{CDC-42} and {RAC-1} regulate opposite chemotropisms in {N}eurospora crassa},
      journal = {Journal of Cell Science},
      volume = {127},
      number = {9},
      pages = {1953-1965},
      year = {2014}
    }
  • [2013,article] bibtex
    A. Jabeen, J. M. Miranda-Sayago, B. Obara, P. S. Spencer, G. B. Dealtry, S. Hayrabedyan, P. P. Laissue, and N. Fernandez, "Quantified colocalization reveals heterotypic histocompatibility class I antigen associations on trophoblast cell membranes: relevance for human pregnancy," Biology of Reproduction, vol. 89, iss. 4, pp. 1-10, 2013.
    @article{Jabeen2013,
      author = {Asma Jabeen and Jose Maria Miranda-Sayago and Boguslaw Obara and Patrick Simon Spencer and Gill Barbara Dealtry and Soren Hayrabedyan and Pierre Philippe Laissue and Nelson Fernandez},
      title = {Quantified colocalization reveals heterotypic histocompatibility class {I} antigen associations on trophoblast cell membranes: relevance for human pregnancy},
      journal = {Biology of Reproduction},
      volume = {89},
      number = {4},
      pages = {1-10},
      year = {2013}
    }
  • [2013,article] bibtex
    B. Obara, A. Jabeen, N. Fernandez, and P. P. Laissue, "A novel method for quantified, superresolved, three-dimensional colocalisation of isotropic, fluorescent particles," Histochemistry and Cell Biology, vol. 139, iss. 3, pp. 391-402, 2013.
    @article{Obara2013a,
      author = {Boguslaw Obara and Asma Jabeen and Nelson Fernandez and Pierre Philippe Laissue},
      title = {A novel method for quantified, superresolved, three-dimensional colocalisation of isotropic, fluorescent particles},
      journal = {Histochemistry and Cell Biology},
      volume = {139},
      number = {3},
      pages = {391-402},
      year = {2013}
    }
  • [2013,article] bibtex
    B. Obara, M. Roberts, J. Armitage, and V. Grau, "Bioimage informatics approach for bacterial cells identification in Differential Interference Contrast microscopy images," BMC Bioinformatics, vol. 14, iss. 134, 2013.
    @article{Obara2013c,
      author = {Boguslaw Obara and Mark Roberts and Judy Armitage and Vicente Grau},
      title = {Bioimage informatics approach for bacterial cells identification in {Differential Interference Contrast} microscopy images},
      journal = {BMC Bioinformatics},
      volume = {14},
      number = {134},
      year = {2013}
    }
  • [2013,article] bibtex
    T. M. E. Scales, B. Obara, M. R. Holt, N. A. Hotchin, F. Berditchevski, and M. Parsons, "$\alpha$3$\beta$1 integrins regulate CD151 complex assembly and membrane dynamics of carcinoma cells within 3D environments," Oncogene, vol. 32, iss. 34, pp. 3965-3979, 2013.
    @article{Scales2013,
      author = {Timothy M.E. Scales and Boguslaw Obara and Mark R. Holt and Neil A. Hotchin and Fedor Berditchevski and Maddy Parsons},
      title = {$\alpha$3$\beta$1 integrins regulate {CD151} complex assembly and membrane dynamics of carcinoma cells within {3D} environments},
      journal = {Oncogene},
      volume = {32},
      number = {34},
      pages = {3965-3979},
      year = {2013}
    }
  • [2012,article] bibtex
    B. Obara, M. Fricker, D. Gavaghan, and V. Grau, "Contrast-independent curvilinear structure detection in biomedical images," IEEE Transactions on Image Processing, vol. 21, iss. 5, pp. 2572-2581, 2012.
    @article{Obara2012b,
      author = {Boguslaw Obara and Mark Fricker and David Gavaghan and Vicente Grau},
      title = {Contrast-independent curvilinear structure detection in biomedical images},
      journal = {IEEE Transactions on Image Processing},
      volume = {21},
      number = {5},
      pages = {2572-2581},
      year = {2012}
    }
  • [2012,article] bibtex
    L. Heaton, B. Obara, V. Grau, N. Jones, T. Nakagaki, L. Boddy, and M. Fricker, "Analysis of fungal networks," Fungal Biology Reviews, vol. 26, iss. 1, pp. 12-29, 2012.
    @article{Heaton2012,
      author = {Luke Heaton and Boguslaw Obara and Vincente Grau and Nick Jones and Toshiyuki Nakagaki and Lynne Boddy and Mark Fricker},
      title = {Analysis of fungal networks},
      journal = {Fungal Biology Reviews},
      volume = {26},
      number = {1},
      pages = {12-29},
      year = {2012}
    }
  • [2012,article] bibtex
    B. Obara, M. Fricker, and V. Grau, "A bioimage informatics approach to automatically extract complex fungal networks," Bioinformatics, vol. 28, iss. 18, pp. 2374-2381, 2012.
    @article{Obara2012f,
      author = {Boguslaw Obara and Mark Fricker and Vicente Grau},
      title = {A bioimage informatics approach to automatically extract complex fungal networks},
      journal = {Bioinformatics},
      volume = {28},
      number = {18},
      pages = {2374-2381},
      year = {2012}
    }
  • [2012,article] bibtex
    M. Brown, B. Steel, C. Silvestrin, D. Wilkinson, N. Delalez, C. Lumb, B. Obara, J. Armitage, and R. Berry, "Flagellar hook flexibility is essential for bundle formation in swimming Escherichia coli," Journal of Bacteriology, vol. 194, iss. 13, pp. 3495-3501, 2012.
    @article{Brown2012,
      author = {Mostyn Brown and Bradley Steel and Claudio Silvestrin and David Wilkinson and Nocolas Delalez and Craig Lumb and Boguslaw Obara and Judith Armitage and Richard Berry},
      title = {Flagellar hook flexibility is essential for bundle formation in swimming {Escherichia coli}},
      journal = {Journal of Bacteriology},
      volume = {194},
      number = {13},
      pages = {3495-3501},
      year = {2012}
    }
  • [2011,article] bibtex
    B. Obara, M. Veeman, J. H. Choi, W. Smith, and B. S. Manjunath, "Segmentation of ascidian notochord cells in DIC timelapse images," Microscopy Research and Technique, vol. 74, iss. 8, pp. 727-734, 2011.
    @article{Obara2010d,
      author = {Boguslaw Obara and Michael Veeman and Jae Hyeok Choi and William Smith and B. S. Manjunath},
      title = {Segmentation of ascidian notochord cells in {DIC} timelapse images},
      journal = {Microscopy Research and Technique},
      volume = {74},
      number = {8},
      pages = {727-734},
      year = {2011}
    }
  • [2011,article] bibtex
    B. Obara, A. K. v, and J. Scucka, "Automatic identification of microcracks observed on microscopic images of coarse-grained sandstone," International Journal of Rock Mechanics and Mining Sciences, vol. 48, iss. 4, pp. 681-686, 2011.
    @article{Obara2011d,
      author = {Boguslaw Obara and Alena Ko{\v{z}}usn{\'{i}}ko{\v{v}}a and Jiri Scucka},
      title = {Automatic identification of microcracks observed on microscopic images of coarse-grained sandstone},
      journal = {International Journal of Rock Mechanics and Mining Sciences},
      volume = {48},
      number = {4},
      pages = {681-686},
      year = {2011}
    }
  • [2010,article] bibtex
    K. Kvilekval, D. Fedorov, B. Obara, A. K. Singh, and B. S. Manjunath, "Bisque: a platform for bioimage analysis and management," Bioinformatics, vol. 26, iss. 4, pp. 544-552, 2010.
    @article{Kvilekval2010,
      author = {Kris Kvilekval and Dmitry Fedorov and Boguslaw Obara and Ambuj K. Singh and B. S. Manjunath},
      title = {Bisque: a platform for bioimage analysis and management},
      journal = {Bioinformatics},
      volume = {26},
      number = {4},
      pages = {544-552},
      year = {2010}
    }
  • [2010,article] bibtex
    D. Piedrahita, I. Hernandez, A. Lopez-Tobon, D. Alzate, F. LaFerla, B. Davidson, D. Fedorov, B. Obara, B. S. Manjunath, K. Kosik, G. J. Carlos, and C. G. Patricia, "Silencing of CDK5 reduces neurofibrillary tangles in transgenic Alzheimers mice," The Journal of Neuroscience, vol. 30, iss. 42, pp. 13966-13976, 2010.
    @article{Piedrahita2010,
      author = {Diego Piedrahita and Israel Hernandez and Alejandro Lopez-Tobon and Diego Alzate and Frank LaFerla and Beverly Davidson and Dmitry Fedorov and Boguslaw Obara and B. S. Manjunath and Kenneth Kosik and Gallego-Gomez Juan Carlos and Cardona-Gomez Gloria Patricia},
      title = {Silencing of {CDK5} reduces neurofibrillary tangles in transgenic {A}lzheimers mice},
      journal = {The Journal of Neuroscience},
      volume = {30},
      number = {42},
      pages = {13966-13976},
      year = {2010}
    }
  • [2010,article] bibtex
    A. H. K. Roeder, V. Chickarmane, A. Cunha, B. Obara, B. S. Manjunath, and E. M. Meyerowitz, "Variability in the control of cell division underlies sepal epidermal patterning in Arabidopsis thaliana," PLoS Biology, vol. 8, iss. 5, p. 1000367, 2010.
    @article{Roeder2010,
      author = {Adrienne H. K. Roeder and Vijay Chickarmane and Alexandre Cunha and Boguslaw Obara and B. S. Manjunath and Elliot M. Meyerowitz},
      title = {Variability in the control of cell division underlies sepal epidermal patterning in {A}rabidopsis thaliana},
      journal = {PLoS Biology},
      volume = {8},
      number = {5},
      pages = {e1000367},
      year = {2010}
    }
  • [2009,article] bibtex
    E. D. Gelasca, B. Obara, D. Fedorov, K. Kvilekval, and B. S. Manjunath, "A biosegmentation benchmark for evaluation of bioimage analysis methods," BMC Bioinformatics, vol. 10, iss. 1, p. 368, 2009.
    @article{Gelasca2009,
      author = {Elisa Drelie Gelasca and Boguslaw Obara and Dmitry Fedorov and Kris Kvilekval and B. S. Manjunath},
      title = {A biosegmentation benchmark for evaluation of bioimage analysis methods},
      journal = {BMC Bioinformatics},
      volume = {10},
      number = {1},
      pages = {368},
      year = {2009}
    }
  • [2009,article] bibtex
    A. Chworos and B. Obara, "Automatic analysis of conjugated polyelectrolytes – DNA interactions based on sequential analysis of AFM imaging," IEEE Transactions on Nanotechnology, vol. 8, iss. 4, pp. 457-462, 2009.
    @article{Chworos2009,
      author = {Arkadiusz Chworos and Boguslaw Obara},
      title = {Automatic analysis of conjugated polyelectrolytes - {DNA} interactions based on sequential analysis of {AFM} imaging},
      journal = {IEEE Transactions on Nanotechnology},
      volume = {8},
      number = {4},
      pages = {457-462},
      year = {2009}
    }
  • [2008,article] bibtex
    T. Stepien and B. Obara, "The cycloid and skeletonization methods for morphometric analysis of fetal brain vessels," Folia Neuropathologica, vol. 46, iss. 4, pp. 278-285, 2008.
    @article{Stepien2008,
      author = {Tomasz Stepien and Boguslaw Obara},
      title = {The cycloid and skeletonization methods for morphometric analysis of fetal brain vessels},
      journal = {Folia Neuropathologica},
      volume = {46},
      number = {4},
      pages = {278-285},
      year = {2008}
    }
  • [2007,article] bibtex
    T. Stepien, B. Obara, T. Wierzba-Bobrowicz, and P. Kreczmanski, "Morphometric methods in analysis of vessels in cortical grey matter," Folia Neuropathologica, vol. 45, iss. 4, p. 264, 2007.
    @article{Stepien2007,
      author = {Tomasz Stepien and Boguslaw Obara and Teresa Wierzba-Bobrowicz and Pawel Kreczmanski},
      title = {Morphometric methods in analysis of vessels in cortical grey matter},
      journal = {Folia Neuropathologica},
      volume = {45},
      number = {4},
      pages = {264},
      year = {2007}
    }
  • [2007,article] bibtex
    J. Sobczyk, B. Obara, P. Fraczek, and J. Sobczyk, "Application of the image analysis in non-invasive research of historical objects," Acta Universitatis Nicolai Copernici, vol. XXXVI, pp. 163-167, 2007.
    @article{Sobczyk2007a,
      author = {Jacek Sobczyk and Boguslaw Obara and Piotr Fraczek and Joanna Sobczyk},
      title = {Application of the image analysis in non-invasive research of historical objects},
      journal = {Acta Universitatis Nicolai Copernici},
      volume = {XXXVI},
      address = {Torun, Poland},
      note = {in Polish},
      pages = {163-167},
      year = {2007}
    }
  • [2007,article] bibtex
    B. Obara, "An image processing algorithm for the reversed transformation of rotated microscope images," Computers \& Geosciences, vol. 33, iss. 7, pp. 853-859, 2007.
    @article{Obara2007d,
      author = {Boguslaw Obara},
      title = {An image processing algorithm for the reversed transformation of rotated microscope images},
      journal = {Computers \& Geosciences},
      volume = {33},
      number = {7},
      pages = {853-859},
      year = {2007}
    }
  • [2007,article] bibtex
    B. Obara, "A new algorithm using image colour system transformation for rock grain segmentation," Mineralogy and Petrology, vol. 91, iss. 3-4, pp. 271-285, 2007.
    @article{Obara2007a,
      author = {Boguslaw Obara},
      title = {A new algorithm using image colour system transformation for rock grain segmentation},
      journal = {Mineralogy and Petrology},
      volume = {91},
      number = {3-4},
      pages = {271-285},
      year = {2007}
    }
  • [2007,article] bibtex
    B. Obara and A. K. v, "Utilisation of the image analysis method for the detection of the morphological anisotropy of calcite grains in marble," Computational Geosciences, vol. 11, iss. 4, pp. 275-281, 2007.
    @article{Obara2007b,
      author = {Boguslaw Obara and Alena Ko{\v{z}}usn{\'{i}}ko{\v{v}}a},
      title = {Utilisation of the image analysis method for the detection of the morphological anisotropy of calcite grains in marble},
      journal = {Computational Geosciences},
      volume = {11},
      number = {4},
      pages = {275-281},
      year = {2007}
    }
  • [2007,article] bibtex
    B. Obara, "Identification of transcrystalline microcracks observed in microscope images of dolomite structure using image analysis methods based on linear structuring element processing," Computers \& Geosciences, vol. 33, iss. 2, pp. 151-158, 2007.
    @article{Obara2007c,
      author = {Boguslaw Obara},
      title = {Identification of transcrystalline microcracks observed in microscope images of dolomite structure using image analysis methods based on linear structuring element processing},
      journal = {Computers \& Geosciences},
      volume = {33},
      number = {2},
      pages = {151-158},
      year = {2007}
    }
  • [2006,article] bibtex
    J. Sobczyk, B. Obara, P. Fraczek, and J. Sobczyk, "Application of the image analysis in non-invasive research of historical objects. Selected examples," Protection of Monuments, vol. 2, pp. 69-78, 2006.
    @article{Sobczyk2006,
      author = {Jacek Sobczyk and Boguslaw Obara and Piotr Fraczek and Joanna Sobczyk},
      title = {Application of the image analysis in non-invasive research of historical objects. {S}elected examples},
      journal = {Protection of Monuments},
      note = {in Polish},
      volume = {2},
      pages = {69-78},
      year = {2006}
    }
  • [2005,article] bibtex
    B. Obara, "Resistometric measurement stand," Measurement Automation and Monitoring, iss. 10, pp. 17-19, 2005.
    @article{Obara2005b,
      author = {Boguslaw Obara},
      title = {Resistometric measurement stand},
      journal = {Measurement Automation and Monitoring},
      note = {in Polish},
      number = {10},
      pages = {17-19},
      year = {2005}
    }
  • [2005,article] bibtex
    B. Obara, "Application of the image analysis method to the detection of transcrystalline microcracks observed in microscope images of dolomite and granite structures," Archives of Mining Sciences, vol. 50, iss. 4, pp. 537-551, 2005.
    @article{Obara2005a,
      author = {Boguslaw Obara},
      title = {Application of the image analysis method to the detection of transcrystalline microcracks observed in microscope images of dolomite and granite structures},
      journal = {Archives of Mining Sciences},
      volume = {50},
      number = {4},
      pages = {537-551},
      year = {2005}
    }
  • [2004,article] bibtex
    B. Obara and M. M. l, "Application of image analysis methods to detection of microcracks on microscope images of rock structures," Transactions of the SMRI, vol. 5, pp. 155-161, 2004.
    @article{Obara2004a,
      author = {Boguslaw Obara and Mariusz M{\l}ynarczuk},
      title = {Application of image analysis methods to detection of microcracks on microscope images of rock structures},
      journal = {Transactions of the SMRI},
      note = {in Polish},
      volume = {5},
      pages = {155-161},
      year = {2004}
    }
  • [2003,article] bibtex
    B. Obara, "Grains segmentation based on image local homogeneity and RGB do CIELab colour system transformation," Transactions of the SMRI, vol. 5, pp. 389-399, 2003.
    @article{Obara2003b,
      author = {Boguslaw Obara},
      title = {Grains segmentation based on image local homogeneity and {RGB} do {CIEL}ab colour system transformation},
      journal = {Transactions of the SMRI},
      note = {in Polish},
      volume = {5},
      pages = {389-399},
      year = {2003}
    }
  • [2003,article] bibtex
    B. Obara, "An algorithm for automatic analysis of cracks in granite from Strzelin," Transactions of the SMRI, vol. 5, pp. 155-159, 2003.
    @article{Obara2003a,
      author = {Boguslaw Obara},
      title = {An algorithm for automatic analysis of cracks in granite from {S}trzelin},
      journal = {Transactions of the SMRI},
      note = {in Polish},
      volume = {5},
      pages = {155-159},
      year = {2003}
    }
  • [2003,article] bibtex
    M. M. l and B. Obara, "Automatic segmentation of transcrystalline microcracks in dolomite from Redziny – an algorithm and it’s application," Transactions of the SMRI, vol. 5, pp. 399-409, 2003.
    @article{Mlynarczuk2003,
      author = {Mariusz M{\l}ynarczuk and Boguslaw Obara},
      title = {Automatic segmentation of transcrystalline microcracks in dolomite from {R}edziny - an algorithm and it's application},
      journal = {Transactions of the SMRI},
      note = {in Polish},
      volume = {5},
      pages = {399-409},
      year = {2003}
    }
  • [2002,article] bibtex
    B. Obara and J. Sobczyk, "Evaluation of compatibility of the quantitative estimations of rock fractures morphology done by means of two methods: laser profilometry and stereological analysis," Transactions of the SMRI, vol. 4, pp. 77-86, 2002.
    @article{Obara2002,
      author = {Boguslaw Obara and Jacek Sobczyk},
      title = {Evaluation of compatibility of the quantitative estimations of rock fractures morphology done by means of two methods: laser profilometry and stereological analysis},
      journal = {Transactions of the SMRI},
      note = {in Polish},
      volume = {4},
      pages = {77-86},
      year = {2002}
    }
  • [2001,article] bibtex
    B. Obara, "Computer system to support stereological analysis of microscope rock structures," Transactions of the SMRI, vol. 3, pp. 331-337, 2001.
    @article{Obara2001,
      author = {Boguslaw Obara},
      title = {Computer system to support stereological analysis of microscope rock structures},
      journal = {Transactions of the SMRI},
      note = {in Polish},
      volume = {3},
      pages = {331-337},
      year = {2001}
    }

Conference Proceedings

  • [2018,inproceedings] bibtex
    H. F. Alhasson, S. S. Alharbi, and B. Obara, "2D and 3D vascular structures enhancement via multiscale fractional anisotropy tensor," in European Conference on Computer Vision, Munich, Germany, 2018.
    @inproceedings{Alhasson2018,
      author = {Haifa F. Alhasson and Shuaa S. Alharbi and Boguslaw Obara},
      title = {{2D} and {3D} vascular structures enhancement via multiscale fractional anisotropy tensor},
      booktitle = {European Conference on Computer Vision},
      address = {Munich, Germany},
      month = {8-14 September},
      year = {2018}
    }
  • [2018,inproceedings] bibtex
    M. Nebbia, A. Leone, M. Belzic, J. Brennan, M. Roberts, R. Hamdi, M. Hadia, and B. Obara, "HeDAP(Heritage Documentation and Protection): a tool to fight the illicit traffic of Libyan and Tunisian antiquities," in Annual Meeting of the European Association of Archaeologists, Barcelona, Spain, 2018.
    @inproceedings{Nebbia2018,
      author = {Marco Nebbia and Anna Leone and Morgan Belzic and John Brennan and Matthew Roberts and Rached Hamdi and Mahmoud Hadia and Boguslaw Obara},
      title = {{HeDAP}(Heritage Documentation and Protection): a tool to fight the illicit traffic of Libyan and Tunisian antiquities},
      booktitle = {Annual Meeting of the European Association of Archaeologists},
      address = {Barcelona, Spain},
      month = {5-8 September},
      year = {2018}
    }
  • [2018,inproceedings] bibtex
    M. Roberts, C. Willcocks, A. Leone, and B. Obara, "Deep learning for the classification and clustering of museum collections," in Annual Meeting of the European Association of Archaeologists, Barcelona, Spain, 2018.
    @inproceedings{Roberts2018,
      author = {Matthew Roberts and Chris Willcocks and Anna Leone and Boguslaw Obara},
      title = {Deep learning for the classification and clustering of museum collections},
      booktitle = {Annual Meeting of the European Association of Archaeologists},
      address = {Barcelona, Spain},
      month = {5-8 September},
      year = {2018}
    }
  • [2018,inproceedings] bibtex
    C. Sazak, C. J. Nelson, and B. Obara, "The multiscale bowler-hat transform for vessel enhancement in 3D biomedical images," in The British Machine Vision Conference, Newcastle, UK, 2018.
    @inproceedings{Sazak2018,
      author = {Cigdem Sazak and Carl J. Nelson and Boguslaw Obara},
      title = {The multiscale bowler-hat transform for vessel enhancement in {3D} biomedical images},
      booktitle = {The British Machine Vision Conference},
      address = {Newcastle, UK},
      month = {3-6 September},
      year = {2018}
    }
  • [2018,inproceedings] bibtex
    P. Cardenas, G. Theodoropoulos, B. Obara, and I. Kureshi, "A conceptual framework for social movements analytics for national security," in International Conference on Computational Science, Wuxi, China, 2018.
    @inproceedings{Cardenas2018,
      author = {Pedro Cardenas and Georgios Theodoropoulos and Boguslaw Obara and Ibad Kureshi},
      title = {A conceptual framework for social movements analytics for national security},
      booktitle = {International Conference on Computational Science},
      address = {Wuxi, China},
      month = {11-13 June},
      year = {2018}
    }
  • [2017,inproceedings] bibtex
    S. Bonner, J. Brennan, I. Kureshi, G. Theodoropoulos, S. McGough, and B. Obara, "Evaluating the quality of graph embeddings via topological feature reconstruction," in IEEE International Conference on Big Data, Boston, MA, USA, 2017.
    @inproceedings{Bonner2017,
      author = {Stephen Bonner and John Brennan and Ibad Kureshi and Georgios Theodoropoulos and Stephen McGough and Boguslaw Obara},
      title = {Evaluating the quality of graph embeddings via topological feature reconstruction},
      booktitle = {IEEE International Conference on Big Data},
      address = {Boston, MA, USA},
      month = {11-14 December},
      year = {2017}
    }
  • [2017,inproceedings] bibtex
    A. Leone, M. Nebbia, M. Belzic, J. Brennan, I. Kureshi, B. Obara, G. Theodoropoulos, M. Haddad, N. Alhrari, and M. Hadia, "Art crime and stolen heritage: towards an archaeological consensus," in European Association of Archaeologists, Maastricht, The Netherlands, 2017.
    @inproceedings{Leone2017,
      author = {Anna Leone and Marco Nebbia and Morgan Belzic and John Brennan and Ibad Kureshi and Boguslaw Obara and George Theodoropoulos and Moftah Haddad and Naser Alhrari and Mahmoud Hadia},
      title = {Art crime and stolen heritage: towards an archaeological consensus},
      booktitle = {European Association of Archaeologists},
      address = {Maastricht, The Netherlands},
      month = {30 August - 3 September},
      year = {2017}
    }
  • [2017,inproceedings] bibtex
    C. Sazak and B. Obara, "Contrast-independent curvilinear structure enhancement in 3D biomedical images," in IEEE International Symposium on Biomedical Imaging, Melbourne, Australia, 2017, pp. 1165-1168.
    @inproceedings{Sazak2017,
      author = {Cigdem Sazak and Boguslaw Obara},
      title = {Contrast-independent curvilinear structure enhancement in {3D} biomedical images},
      booktitle = {IEEE International Symposium on Biomedical Imaging},
      address = {Melbourne, Australia},
      month = {18-21 April},
      pages = {1165-1168},
      year = {2017}
    }
  • [2017,inproceedings] bibtex
    P. T. G. Jackson and B. Obara, "Avoiding over-detection: towards combined object detection and counting," in International Conference on Artificial Intelligence and Soft Computing, Zakopane, Poland, 2017, pp. 75-85.
    @inproceedings{Jackson2017,
      author = {Philip T.G. Jackson and Boguslaw Obara},
      title = {Avoiding over-detection: towards combined object detection and counting},
      booktitle = {International Conference on Artificial Intelligence and Soft Computing},
      address = {Zakopane, Poland},
      month = {11-15 June},
      pages = {75-85},
      year = {2017}
    }
  • [2016,inproceedings] bibtex
    C. J. Nelson, C. Willcocks, P. T. G. Jackson, P. Laissue, and B. Obara, "Application of high-speed level set segmentation to light sheet fluorescence microscopy," in Light Sheet Fluorescence Microscopy International Conference, Sheffield, UK, 2016.
    @inproceedings{Nelson2016,
      author = {Carl J. Nelson and Chris Willcocks and Philip T.G. Jackson and Philippe Laissue and Boguslaw Obara},
      title = {Application of high-speed level set segmentation to light sheet fluorescence microscopy},
      booktitle = {Light Sheet Fluorescence Microscopy International Conference},
      address = {Sheffield, UK},
      month = {31 August - 3 September},
      year = {2016}
    }
  • [2016,inproceedings] bibtex
    H. F. Alhasson and B. Obara, "2D adaptive grid-based image analysis approach for biological networks," in IEEE International Conference on BioInformatics and BioEngineering, Taichung, Taiwan, 2016, pp. 230-237.
    @inproceedings{Alhasson2016,
      author = {Haifa F. Alhasson and Boguslaw Obara},
      title = {{2D} adaptive grid-based image analysis approach for biological networks},
      booktitle = {IEEE International Conference on BioInformatics and BioEngineering},
      address = {Taichung, Taiwan},
      month = {31 October - 2 November},
      pages = {230-237},
      year = {2016}
    }
  • [2016,inproceedings] bibtex
    H. Alhasson and B. Obara, "2D Adaptive Grid-based Image Analysis Approach for Biological Networks," in Medical Imaging Summer School, Favignana, Sicily, Italy, 2016.
    @inproceedings{Alhasson2016a,
      author = {Haifa Alhasson and Boguslaw Obara},
      title = {2D Adaptive Grid-based Image Analysis Approach for Biological Networks},
      booktitle = {Medical Imaging Summer School},
      address = {Favignana, Sicily, Italy},
      month = {31 July - 6 August},
      year = {2016}
    }
  • [2016,inproceedings] bibtex
    B. Obara, "Bioimage informatics: where bioimaging meets computer science," in Workshop on Imaging Cells and Tissue, Warwick, UK, 2016.
    @inproceedings{Obara2016,
      author = {Boguslaw Obara},
      title = {Bioimage informatics: where bioimaging meets computer science},
      booktitle = {Workshop on Imaging Cells and Tissue},
      address = {Warwick, UK},
      month = {10-11 October},
      year = {2016}
    }
  • [2016,inproceedings] bibtex
    N. Mukerji, C. J. Nelson, C. Willcocks, P. T. G. Jackson, and B. Obara, "Real-time segmentation of brain vasculature and identification of anomalies in magnetic resonance angiography," in European Congress of Neurosurgery, Athens, Greece, 2016.
    @inproceedings{Mukerji2016,
      author = {Nitin Mukerji and Carl J. Nelson and Chris Willcocks and Philip T.G. Jackson and Boguslaw Obara},
      title = {Real-time segmentation of brain vasculature and identification of anomalies in magnetic resonance angiography},
      booktitle = {European Congress of Neurosurgery},
      address = {Athens, Greece},
      month = {4-8 September},
      year = {2016}
    }
  • [2015,inproceedings] bibtex
    M. Fricker, L. Heaton, N. Jones, T. Nakagaki, D. Akita, and B. Obara, "Automated analysis of Physarum network structure and dynamics," in International Workshop on Physarum Transport Networks, New York City, NY, USA, 2015.
    @inproceedings{Fricker2015,
      author = {Mark Fricker and Luke Heaton and Nick Jones and Toshiyuki Nakagaki and Dai Akita and Boguslaw Obara},
      title = {Automated analysis of Physarum network structure and dynamics},
      booktitle = {International Workshop on Physarum Transport Networks},
      address = {New York City, NY, USA},
      month = {3-5 December},
      year = {2015}
    }
  • [2015,inproceedings] bibtex
    A. Karpinska, N. Koson, M. Bednarz, J. Leskow, B. Obara, and A. M. Garay, "Modelling cell movements," in Escola de Modelos de Regressao, Campinas, Brazil, 2015.
    @inproceedings{Karpinska2015b,
      author = {Agnieszka Karpinska and Natalia Koson and Monika Bednarz and Jacek Leskow and Boguslaw Obara and Aldo Medina Garay},
      title = {Modelling cell movements},
      booktitle = {Escola de Modelos de Regressao},
      address = {Campinas, Brazil},
      month = {2-5 March},
      year = {2015}
    }
  • [2015,inproceedings] bibtex
    A. Karpinska, N. Koson, M. Bednarz, J. Leskow, B. Obara, and A. M. Garay, "Modelling cell movements," in 8th Workshop on Cyclostationary Systems And Their Applications, Grodek, Poland, 2015.
    @inproceedings{Karpinska2015a,
      author = {Agnieszka Karpinska and Natalia Koson and Monika Bednarz and Jacek Leskow and Boguslaw Obara and Aldo Medina Garay},
      title = {Modelling cell movements},
      booktitle = {8th Workshop on Cyclostationary Systems And Their Applications},
      address = {Grodek, Poland},
      month = {8-11 February},
      year = {2015}
    }
  • [2015,inproceedings] bibtex
    S. Knappe, A. Cumine, P. Zammit, B. Obara, and R. Knight, "Imaging of Pax7-expressing cells during muscle repair reveals differential responses," in Gordon Research Conference. Molecular and Cellular Networks, Lucca, Italy, 2015.
    @inproceedings{Knappe2015,
      author = {Stefanie Knappe and Antonia Cumine and Peter Zammit and Boguslaw Obara and Robert Knight},
      title = {Imaging of Pax7-expressing cells during muscle repair reveals differential responses},
      booktitle = {Gordon Research Conference. Molecular and Cellular Networks},
      address = {Lucca, Italy},
      month = {21-26 June},
      year = {2015}
    }
  • [2015,inproceedings] bibtex
    P. T. G. Jackson, C. J. Nelson, J. Schiefeley, and B. Obara, "Runway detection in high resolution remote sensing data," in International Symposium on Image and Signal Processing and Analysis, Zagreb, Croatia, 2015, pp. 170-175.
    @inproceedings{Jackson2015,
      author = {Philip T.G. Jackson and Carl J. Nelson and Jens Schiefeley and Boguslaw Obara},
      title = {Runway detection in high resolution remote sensing data},
      booktitle = {International Symposium on Image and Signal Processing and Analysis},
      address = {Zagreb, Croatia},
      month = {7-9 September},
      pages = {170-175},
      year = {2015}
    }
  • [2015,inproceedings] bibtex
    B. Obara, L. Heaton, N. Jones, and M. Fricker, "Automated biological network analysis," in Botanical Microscopy Meeting, Exeter, UK, 2015.
    @inproceedings{Obara2015a,
      author = {Boguslaw Obara and Luke Heaton and Nick Jones and Mark Fricker},
      title = {Automated biological network analysis},
      booktitle = {Botanical Microscopy Meeting},
      address = {Exeter, UK},
      month = {19-23 April},
      year = {2015}
    }
  • [2014,inproceedings] bibtex
    C. J. Nelson, M. Dixon, P. P. Laissue, and B. Obara, "Speeding up active mesh segmentation by local termination of nodes," in Medical Image Understanding and Analysis, London, UK, 2014, pp. 179-184.
    @inproceedings{Nelson2014a,
      author = {Carl J. Nelson and Martin Dixon and Pierre Philippe Laissue and Boguslaw Obara},
      title = {Speeding up active mesh segmentation by local termination of nodes},
      booktitle = {Medical Image Understanding and Analysis},
      address = {London, UK},
      pages = {179-184},
      month = {9-11 July},
      year = {2014}
    }
  • [2014,inproceedings] bibtex
    C. J. Nelson and B. Obara, "A bioimage informatics QVEST: quick, versatile and easy segmentation \& tracking system," in The Society for Experimental Biology (SEB), Manchester, UK, 2014.
    @inproceedings{Nelson2014b,
      author = {Carl J. Nelson and Boguslaw Obara},
      title = {A bioimage informatics {QVEST}: quick, versatile and easy segmentation \& tracking system},
      booktitle = {The Society for Experimental Biology (SEB)},
      address = {Manchester, UK},
      month = {1-4 July},
      year = {2014}
    }
  • [2014,inproceedings] bibtex
    B. Obara, "Bioimage informatics: where bioimaging meets computer science," in The Society for Experimental Biology (SEB), Manchester, UK, 2014.
    @inproceedings{Obara2014,
      author = {Boguslaw Obara},
      title = {Bioimage informatics: where bioimaging meets computer science},
      booktitle = {The Society for Experimental Biology (SEB)},
      address = {Manchester, UK},
      month = {1-4 July},
      year = {2014}
    }
  • [2014,inproceedings] bibtex
    B. Obara, "Bioimage informatics: where bioimaging meets computer science," in International Workshop on Machine Vision and Intelligence (MVI), Kitakyushu, Japan, 2014.
    @inproceedings{Obara2014b,
      author = {Boguslaw Obara},
      title = {Bioimage informatics: where bioimaging meets computer science},
      booktitle = {International Workshop on Machine Vision and Intelligence (MVI)},
      address = {Kitakyushu, Japan},
      month = {22-23 October},
      year = {2014}
    }
  • [2014,inproceedings] bibtex
    M. Fricker, B. Obara, L. Boddy, L. Heaton, N. Jones, and D. Johnson, "Relating architecture to function in saprotrophic and mycorrhizal networks," in International Mycological Congress, Bangkok, Thailand, 2014.
    @inproceedings{Fricker2014,
      author = {Mark Fricker and Boguslaw Obara and Lynne Boddy and Luke Heaton and Nick Jones and David Johnson},
      title = {Relating architecture to function in saprotrophic and mycorrhizal networks},
      booktitle = {International Mycological Congress},
      address = {Bangkok, Thailand},
      month = {3-8 August},
      year = {2014}
    }
  • [2013,inproceedings] bibtex
    C. J. Nelson, T. J. Hawkins, M. J. Deeks, M. W. Goldberg, R. A. Quinlan, P. J. Hussey, and B. Obara, "Bioimage informatics tools for analysis of 3D/4D network geometries for life sciences," in Actin, Bristol, UK, 2013.
    @inproceedings{Nelson2013,
      author = {Carl J. Nelson and Timothy J. Hawkins and Michael J. Deeks and Martin W. Goldberg and Roy A. Quinlan and Patrick J. Hussey and Boguslaw Obara},
      title = {Bioimage informatics tools for analysis of {3D/4D} network geometries for life sciences},
      booktitle = {Actin},
      address = {Bristol, UK},
      month = {6 December},
      year = {2013}
    }
  • [2013,inproceedings] bibtex
    B. Obara, R. Alghamdi, A. Jabeen, N. Fernandez, K. South, P. J. Reeves, and P. P. Laissue, "Quantified, three-dimensional, object-based colocalisation for characterising cellular phenotypes," in Focus on Microscopy, Maastricht, The Netherlands, 2013.
    @inproceedings{Obara2013b,
      author = {Boguslaw Obara and Rana Alghamdi and Asma Jabeen and Nelson Fernandez and Kieron South and Philip J Reeves and Pierre Philippe Laissue},
      title = {Quantified, three-dimensional, object-based colocalisation for characterising cellular phenotypes},
      booktitle = {Focus on Microscopy},
      address = {Maastricht, The Netherlands},
      month = {24-27 March},
      year = {2013}
    }
  • [2013,inproceedings] bibtex
    P. P. Laissue, B. Obara, R. Smart, and D. Smith, "Live morphology and dynamics of reef-building corals using high-resolution, label-free, quantified microscopy," in Focus on Microscopy, Maastricht, The Netherlands, 2013.
    @inproceedings{Laissue2013,
      author = {Pierre Philippe Laissue and Boguslaw Obara and Russell Smart and David Smith},
      title = {Live morphology and dynamics of reef-building corals using high-resolution, label-free, quantified microscopy},
      booktitle = {Focus on Microscopy},
      address = {Maastricht, The Netherlands},
      month = {24-27 March},
      year = {2013}
    }
  • [2012,inproceedings] bibtex
    B. Obara, M. Fricker, and V. Grau, "Local phase approaches to extract biomedical networks," in IEEE International Symposium on Biomedical Imaging, Barcelona, Spain, 2012, pp. 1796-1799.
    @inproceedings{Obara2012d,
      author = {Boguslaw Obara and Mark Fricker and Vicente Grau},
      title = {Local phase approaches to extract biomedical networks},
      booktitle = {IEEE International Symposium on Biomedical Imaging},
      address = {Barcelona, Spain},
      pages = {1796-1799},
      month = {2-5 May},
      year = {2012}
    }
  • [2012,inproceedings] bibtex
    I. Kowalik-Urbaniak, E. R. Vrscay, Z. Wang, C. Cavaro-Menard, D. Koff, B. Wallace, and B. Obara, "The impact of skull bone intensity on the quality of compressed CT neuro images," in SPIE Medical Imaging, San Diego, CA, USA, 2012, p. 83190.
    @inproceedings{Urbaniak2012,
      author = {Ilona Kowalik-Urbaniak and Edward R. Vrscay and Zhou Wang and Christine Cavaro-Menard and David Koff and Bill Wallace and Boguslaw Obara},
      title = {The impact of skull bone intensity on the quality of compressed {CT} neuro images},
      booktitle = {SPIE Medical Imaging},
      address = {San Diego, CA, USA},
      pages = {83190L},
      month = {4-9 February},
      year = {2012}
    }
  • [2012,inproceedings] bibtex
    B. Obara, M. Fricker, and V. Grau, "Coherence enhancing diffusion filtering based on the Phase Congruency Tensor," in IEEE International Symposium on Biomedical Imaging, Barcelona, Spain, 2012, pp. 202-205.
    @inproceedings{Obara2012c,
      author = {Boguslaw Obara and Mark Fricker and Vicente Grau},
      title = {Coherence enhancing diffusion filtering based on the {Phase Congruency Tensor}},
      booktitle = {IEEE International Symposium on Biomedical Imaging},
      address = {Barcelona, Spain},
      pages = {202-205},
      month = {2-5 May},
      year = {2012}
    }
  • [2012,inproceedings] bibtex
    B. Obara, M. Fricker, and V. Grau, "Contrast independent detection of branching points in network-like structures," in SPIE Medical Imaging, San Diego, CA, USA, 2012, p. 83141.
    @inproceedings{Obara2012a,
      author = {Boguslaw Obara and Mark Fricker and Vicente Grau},
      title = {Contrast independent detection of branching points in network-like structures},
      booktitle = {SPIE Medical Imaging},
      address = {San Diego, CA, USA},
      pages = {83141L},
      month = {4-9 February},
      year = {2012}
    }
  • [2012,inproceedings] bibtex
    B. Obara, M. Fricker, and V. Grau, "Bioimage informatics for biomedical networks," in Oxford Systems Biology: Building Networks and Bridging Scales, Oxford, UK, 2012.
    @inproceedings{Obara2012e,
      author = {Boguslaw Obara and Mark Fricker and Vicente Grau},
      title = {Bioimage informatics for biomedical networks},
      booktitle = {Oxford Systems Biology: Building Networks and Bridging Scales},
      address = {Oxford, UK},
      month = {19-21 June},
      year = {2012}
    }
  • [2011,inproceedings] bibtex
    B. Obara, A. Lichius, N. Read, V. Grau, and M. Fricker, "Visualisation and quantitative analysis of hyphal tip dynamics," in Botanical Microscopy, Wageningen, Netherlands, 2011.
    @inproceedings{Obara2011b,
      author = {Boguslaw Obara and Alexander Lichius and Nick Read and Vicente Grau and Mark Fricker},
      title = {Visualisation and quantitative analysis of hyphal tip dynamics},
      booktitle = {Botanical Microscopy},
      address = {Wageningen, Netherlands},
      month = {18-22 April},
      year = {2011}
    }
  • [2011,inproceedings] bibtex
    B. Obara, V. Grau, and M. Fricker, "Contrast-independent curvilinear edge and junction detection in biomedical networks," in Botanical Microscopy, Wageningen, Netherlands, 2011.
    @inproceedings{Obara2011c,
      author = {Boguslaw Obara and Vicente Grau and Mark Fricker},
      title = {Contrast-independent curvilinear edge and junction detection in biomedical networks},
      booktitle = {Botanical Microscopy},
      address = {Wageningen, Netherlands},
      month = {18-22 April},
      year = {2011}
    }
  • [2011,inproceedings] bibtex
    B. Obara, M. Fricker, A. Lichius, N. Read, D. Gavaghan, and V. Grau, "Analysis and understanding of fungal tip growth," in European Conference on Mathematical and Theoretical Biology, Krakow, Poland, 2011.
    @inproceedings{Obara2011a,
      author = {Boguslaw Obara and Mark Fricker and Alexander Lichius and Nick Read and David Gavaghan and Vicente Grau},
      title = {Analysis and understanding of fungal tip growth},
      booktitle = {European Conference on Mathematical and Theoretical Biology},
      address = {Krakow, Poland},
      month = {28 July - 2 June},
      year = {2011}
    }
  • [2011,inproceedings] bibtex
    B. Obara, M. Fricker, and V. Grau, "Bioimage informatics for biological networks," in Oxford Biomedical Imaging Festival, Oxford, UK, 2011.
    @inproceedings{Obara2011e,
      author = {Boguslaw Obara and Mark Fricker and Vicente Grau},
      title = {Bioimage informatics for biological networks},
      booktitle = {Oxford Biomedical Imaging Festival},
      address = {Oxford, UK},
      month = {13 October},
      year = {2011}
    }
  • [2010,inproceedings] bibtex
    B. Obara, M. Fricker, D. Gavaghan, and V. Grau, "Contrast-independent curvilinear structure detection in biomedical images," in Oxford Biomedical Imaging Festival, Oxford, UK, 2010.
    @inproceedings{Obara2010c,
      author = {Boguslaw Obara and Mark Fricker and David Gavaghan and Vicente Grau},
      title = {Contrast-independent curvilinear structure detection in biomedical images},
      booktitle = {Oxford Biomedical Imaging Festival},
      address = {Oxford, UK},
      month = {13 October},
      year = {2010}
    }
  • [2010,inproceedings] bibtex
    B. Obara, D. Gavaghan, and V. Grau, "Tracing curvilinear structures in live microscopy images," in Microscopy Image Analysis for Biomedical Applications, The British Machine Vision Association, London, UK, 2010.
    @inproceedings{Obara2010b,
      author = {Boguslaw Obara and David Gavaghan and Vicente Grau},
      title = {Tracing curvilinear structures in live microscopy images},
      booktitle = {Microscopy Image Analysis for Biomedical Applications, The British Machine Vision Association},
      address = {London, UK},
      month = {21 April},
      year = {2010}
    }
  • [2010,inproceedings] bibtex
    B. Obara, M. Fricker, S. Kelly, B. Wickstead, V. Grau, K. Gull, and D. Gavaghan, "Advanced computational image analysis in systems biology," in The 4th Annual BBSRC Systems Biology Grant Holders’ Workshop, Edinburgh, UK, 2010.
    @inproceedings{Obara2010a,
      author = {Boguslaw Obara and Mark Fricker and Steve Kelly and Bill Wickstead and Vicente Grau and Keith Gull and David Gavaghan},
      title = {Advanced computational image analysis in systems biology},
      booktitle = {The 4th Annual BBSRC Systems Biology Grant Holders' Workshop},
      address = {Edinburgh, UK},
      month = {6-8 January},
      year = {2010}
    }
  • [2009,inproceedings] bibtex
    A. H. K. Roeder, V. Chickarmane, A. Cunha, B. Obara, T. Bacarian, A. Sun, B. S. Manjunath, E. Mjolsness, and E. M. Meyerowitz, "Timing of cell division determines the relative cell size pattern in Arabidopsis," in 20th International Conference on Arabidopsis Research, Edinburgh, Scotland, UK, 2009.
    @inproceedings{Roeder2009a,
      author = {Adrienne H. K. Roeder and Vijay Chickarmane and Alexandre Cunha and Boguslaw Obara and Tigran Bacarian and Aida Sun and B. S. Manjunath and Eric Mjolsness and Elliot M. Meyerowitz},
      title = {Timing of cell division determines the relative cell size pattern in {A}rabidopsis},
      booktitle = {20th International Conference on Arabidopsis Research},
      address = {Edinburgh, Scotland, UK},
      month = {30 June - 4 July},
      year = {2009}
    }
  • [2009,inproceedings] bibtex
    B. Obara, M. Fricker, S. Kelly, B. Wickstead, V. Grau, K. Gull, and D. Gavaghan, "Bioimage informatics for systems biology," in Quantitative Imaging for Systems Biology, Oxford, UK, 2009.
    @inproceedings{Obara2009c,
      author = {Boguslaw Obara and Mark Fricker and Steve Kelly and Bill Wickstead and Vicente Grau and Keith Gull and David Gavaghan},
      title = {Bioimage informatics for systems biology},
      booktitle = {Quantitative Imaging for Systems Biology},
      address = {Oxford, UK},
      month = {16-18 December},
      year = {2009}
    }
  • [2009,inproceedings] bibtex
    B. Obara, S. Kelly, B. Wickstead, V. Grau, K. Gull, and D. Gavaghan, "Image analysis and processing for systems biology," in Interdisciplinary Research Forum on Integrated Quantitative BioSciences, Oxford, UK, 2009.
    @inproceedings{Obara2009a,
      author = {Boguslaw Obara and Steve Kelly and Bill Wickstead and Vicente Grau and Keith Gull and David Gavaghan},
      title = {Image analysis and processing for systems biology},
      booktitle = {Interdisciplinary Research Forum on Integrated Quantitative BioSciences},
      address = {Oxford, UK},
      month = {26 June},
      year = {2009}
    }
  • [2009,inproceedings] bibtex
    B. Obara, S. Kelly, B. Wickstead, K. Gull, D. Gavaghan, and V. Grau, "High-throughput high-resolution image analysis of the trypanosome cell cycle," in Microscopic Image Analysis with Applications in Biology, Bethesda, MD, USA, 2009.
    @inproceedings{Obara2009b,
      author = {Boguslaw Obara and Steve Kelly and Bill Wickstead and Keith Gull and David Gavaghan and Vicente Grau},
      title = {High-throughput high-resolution image analysis of the trypanosome cell cycle},
      booktitle = {Microscopic Image Analysis with Applications in Biology},
      address = {Bethesda, MD, USA},
      note = {www.miaab.org},
      month = {3-4 September},
      year = {2009}
    }
  • [2008,inproceedings] bibtex
    B. Obara, M. Veeman, W. Smith, and B. S. Manjunath, "Segmentation and analysis of notochord cells in 3D microscope data," in Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining, Santa Barbara, CA, USA, 2008.
    @inproceedings{Obara2008d,
      author = {Boguslaw Obara and Michael Veeman and William Smith and B. S. Manjunath},
      title = {Segmentation and analysis of notochord cells in 3{D} microscope data},
      booktitle = {Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining},
      address = {Santa Barbara, CA, USA},
      month = {17-18 January},
      year = {2008}
    }
  • [2008,inproceedings] bibtex
    M. Veeman, B. Obara, J. H. Choi, W. Smith, and B. S. Manjunath, "Morphomic analysis of a simple chordate," in Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining, Santa Barbara, CA, USA, 2008.
    @inproceedings{Veeman2008,
      author = {Michael Veeman and Boguslaw Obara and Jae Hyeok Choi and William Smith and B. S. Manjunath},
      title = {Morphomic analysis of a simple chordate},
      booktitle = {Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining},
      address = {Santa Barbara, CA, USA},
      month = {17-18 January},
      year = {2008}
    }
  • [2008,inproceedings] bibtex
    K. Kvilekval, D. Fedorov, B. Obara, B. Ruttenberg, B. S. Manjunath, and A. K. Singh, "Bisque: Bio-Image Semantic Query User Environment," in Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining, Santa Barbara, CA, USA, 2008.
    @inproceedings{Kvilekval2008,
      author = {Kris Kvilekval and Dmitry Fedorov and Boguslaw Obara and Brian Ruttenberg and B. S. Manjunath and Ambuj K. Singh},
      title = {Bisque: {B}io-{I}mage {S}emantic {Q}uery {U}ser {E}nvironment},
      booktitle = {Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining},
      address = {Santa Barbara, CA, USA},
      month = {17-18 January},
      year = {2008}
    }
  • [2008,inproceedings] bibtex
    B. Obara and A. Chworos, "Understanding of conjugated polyelectrolytes – DNA interactions based on sequential analysis of AFM imaging," in Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining, Santa Barbara, CA, USA, 2008.
    @inproceedings{Obara2008c,
      author = {Boguslaw Obara and Arkadiusz Chworos},
      title = {Understanding of conjugated polyelectrolytes - {DNA} interactions based on sequential analysis of {AFM} imaging},
      booktitle = {Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining},
      address = {Santa Barbara, CA, USA},
      month = {17-18 January},
      year = {2008}
    }
  • [2008,inproceedings] bibtex
    B. Obara, J. Byun, D. Fedorov, and B. S. Manjunath, "Automatic nuclei detection and dataflow in Bisquik system," in Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining, Santa Barbara, CA, USA, 2008.
    @inproceedings{Obara2008a,
      author = {Boguslaw Obara and Jiyun Byun and Dmitry Fedorov and B. S. Manjunath},
      title = {Automatic nuclei detection and dataflow in {B}isquik system},
      booktitle = {Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining},
      address = {Santa Barbara, CA, USA},
      month = {17-18 January},
      year = {2008}
    }
  • [2008,inproceedings] bibtex
    E. D. Gelasca, J. Byun, B. Obara, and B. S. Manjunath, "Evaluation and benchmark for biological image segmentation," in IEEE International Conference on Image Processing, San Diego, CA, USA, 2008, pp. 1816-1819.
    @inproceedings{Gelasca2008a,
      author = {Elisa Drelie Gelasca and Jiyun Byun and Boguslaw Obara and B. S. Manjunath},
      title = {Evaluation and benchmark for biological image segmentation},
      booktitle = {IEEE International Conference on Image Processing},
      address = {San Diego, CA, USA},
      pages = {1816-1819},
      month = {12-15 October},
      year = {2008}
    }
  • [2008,inproceedings] bibtex
    E. D. Gelasca, J. Byun, B. Obara, and B. S. Manjunath, "Benchmark for evaluating biological image analysis tools," in Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining, Santa Barbara, CA, USA, 2008.
    @inproceedings{Gelasca2008b,
      author = {Elisa Drelie Gelasca and Jiyun Byun and Boguslaw Obara and B. S. Manjunath},
      title = {Benchmark for evaluating biological image analysis tools},
      booktitle = {Workshop on Bio-Image Informatics: Biological Imaging, Computer Vision and Data Mining},
      address = {Santa Barbara, CA, USA},
      month = {17-18 January},
      year = {2008}
    }
  • [2007,inproceedings] bibtex
    B. Obara and A. Chworos, "Understanding of conjugated polyelectrolytes – DNA interactions based on sequential analysis of AFM imaging," in RNA in Biology, Bioengineering and Nanotechnology, Minneapolis, MN, USA, 2007.
    @inproceedings{Obara2007e,
      author = {Boguslaw Obara and Arkadiusz Chworos},
      title = {Understanding of conjugated polyelectrolytes - {DNA} interactions based on sequential analysis of {AFM} imaging},
      booktitle = {RNA in Biology, Bioengineering and Nanotechnology},
      address = {Minneapolis, MN, USA},
      month = {29 October - 2 November},
      year = {2007}
    }
  • [2007,inproceedings] bibtex
    M. Veeman, Y. Nakatani, C. Hendrickson, B. Obara, V. Ericson, C. Lin, B. S. Manjunath, and W. Smith, "Chongmague reveals an essential role for laminin-mediated boundary formation in chordate convergence and extension movements," in Biology in Motion, Evian Royal Ermitage, Evian-les-Bains, France, 2007.
    @inproceedings{Veeman2007,
      author = {Michael Veeman and Yuki Nakatani and Carolyn Hendrickson and Boguslaw Obara and Vivian Ericson and Clarissa Lin and B. S. Manjunath and William Smith},
      title = {Chongmague reveals an essential role for laminin-mediated boundary formation in chordate convergence and extension movements},
      booktitle = {Biology in Motion},
      address = {Evian Royal Ermitage, Evian-les-Bains, France},
      month = {11-13 October},
      year = {2007}
    }
  • [2007,inproceedings] bibtex
    J. F. Gamond, M. M. l, and B. Obara, "Une adaptation du traitement d’images numériques de lames minces à l’analyse de la structure d’un grès à divers stades de la compression," in 18ème Congrès Français de Mécanique, Grenoble, France, 2007.
    @inproceedings{Gamond2007,
      author = {Jean Fran{\c{c}}ois Gamond and Mariusz M{\l}ynarczuk and Boguslaw Obara},
      title = {Une adaptation du traitement d'images num{\'{e}}riques de lames minces {\`{a}} l'analyse de la structure d'un gr{\`{e}}s {\`{a}} divers stades de la compression},
      booktitle = {18{\`{e}}me Congr{\`{e}}s Fran{\c{c}}ais de M{\'{e}}canique},
      address = {Grenoble, France},
      note = {in French, http://hdl.handle.net/2042/15466},
      month = {27-31 August},
      year = {2007}
    }
  • [2007,inproceedings] bibtex
    J. Sobczyk, B. Obara, P. Fraczek, and J. Sobczyk, "Application of computer image analysis to non-destructive research of historic objects," in The International Council of Museums – Conservation Committee, UPHOLSTERY, Krakow, Poland, 2007.
    @inproceedings{Sobczyk2007b,
      author = {J. Sobczyk and B. Obara and P. Fraczek and J. Sobczyk},
      title = {Application of computer image analysis to non-destructive research of historic objects},
      booktitle = {The International Council of Museums - Conservation Committee, UPHOLSTERY},
      address = {Krakow, Poland},
      note = {in Polish},
      month = {13-18 May},
      year = {2007}
    }
  • [2006,inproceedings] bibtex
    B. Obara, "Identification of transcrystalline microcracks observed in polarizing microscope images of rock structures using image analysis," in The 16th International Microscopy Congress, Sapporo, Japan, 2006, p. 960.
    @inproceedings{Obara2006b,
      author = {Boguslaw Obara},
      title = {Identification of transcrystalline microcracks observed in polarizing microscope images of rock structures using image analysis},
      booktitle = {The 16th International Microscopy Congress},
      address = {Sapporo, Japan},
      pages = {960},
      month = {3-8 September},
      year = {2006}
    }
  • [2006,inproceedings] bibtex
    B. Obara, "Application of the image analysis method to the detection of transcrystalline microcracks observed in microscope images of rock structures," in Geophysical Research Abstracts, Vienna, Austria, 2006, p. 16.
    @inproceedings{Obara2006a,
      author = {Boguslaw Obara},
      title = {Application of the image analysis method to the detection of transcrystalline microcracks observed in microscope images of rock structures},
      booktitle = {Geophysical Research Abstracts},
      address = {Vienna, Austria},
      volume = {8},
      pages = {16},
      month = {02-07 April},
      year = {2006}
    }
  • [2004,inproceedings] bibtex
    B. Obara and N. R. T. z, "Application of image analysis methods to vascular blood flow analysis in angiographic imaging," in Image Processing in Industrial Information Technology – Methods and Applications, Warszawa, Poland, 2004, pp. 76-78.
    @inproceedings{Obara2004b,
      author = {Boguslaw Obara and R. T. Ni{\.{z}}ankowski},
      title = {Application of image analysis methods to vascular blood flow analysis in angiographic imaging},
      booktitle = {Image Processing in Industrial Information Technology - Methods and Applications},
      address = {Warszawa, Poland},
      pages = {76-78},
      month = {14-15 October},
      year = {2004}
    }

Book Chapters

  • [2015,inbook] bibtex
    N. Chansawang, B. Obara, R. J. Geider, and P. P. Laissue, "Three-dimensional visualization and quantification of lipids in microalgae using fluorescence microscopy." Berlin, Germany: Springer-Verlag, 2015, pp. 1-17.
    @inbook{Chansawang2015,
      author = {Narin Chansawang and Boguslaw Obara and Richard J. Geider and Pierre Philippe Laissue},
      title = {Three-dimensional visualization and quantification of lipids in microalgae using fluorescence microscopy},
      booktitle = {Hydrocarbon and Lipid Microbiology Protocols},
      series = {Ultrastructure and Imaging},
      publisher = {Springer-Verlag},
      address = {Berlin, Germany},
      pages = {1-17},
      year = {2015}
    }
  • [2005,inbook] bibtex
    B. Obara, "Developing of the image segmentation methods to rock microcracks analysis." London, UK: A.A. Balkema Publishers, 2005, pp. 429-432.
    @inbook{Obara2005c,
      author = {Boguslaw Obara},
      title = {Developing of the image segmentation methods to rock microcracks analysis},
      booktitle = {Impact of the Human Activity on the Geological Environment},
      series = {Impact of the Human Activity on the Geological Environment},
      publisher = {A.A. Balkema Publishers},
      address = {London, UK},
      pages = {429-432},
      year = {2005}
    }
  • [2004,inbook] bibtex
    B. Obara and M. M. l, "Application of image analysis methods to automatize the process of description of transcrystalline cracks geometry in dolomite from Redziny." Krakow, Poland: AGH, 2004, pp. 319-329.
    @inbook{Obara2004c,
      author = {Boguslaw Obara and Mariusz M{\l}ynarczuk},
      title = {Application of image analysis methods to automatize the process of description of transcrystalline cracks geometry in dolomite from {R}edziny},
      booktitle = {Geotechnique and Special Architectural Engineering},
      series = {Geotechnique and Special Architectural Engineering},
      publisher = {AGH},
      address = {Krakow, Poland},
      pages = {319-329},
      year = {2004}
    }

Technical Reports

  • [2008,techreport] bibtex
    E. D. Gelasca, J. Byun, B. Obara, and B. S. Manjunath, "Evaluation and benchmark for Biological image segmentation," University of California Santa Barbara, CA, USA2008.
    @techreport{Gelasca2008c,
      author = {Elisa Drelie Gelasca and Jiyun Byun and Boguslaw Obara and B. S. Manjunath},
      title = {Evaluation and benchmark for Biological image segmentation},
      booktitle = {Technical report VRL, ECE},
      institution = {University of California Santa Barbara, CA, USA},
      year = {2008}
    }