Publications of C.L. Luengo Hendriks

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Papers in Journals

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2011

C.C. Fowlkes, K.B. Eckenrode, M.D. Bragdon, M. Meyer, Z. Wunderlich, L. Simirenko, C.L. Luengo Hendriks, S.V.E. Keränen, C. Henriquez, D.W. Knowles, M.D. Biggin, M.B. Eisen and A.H. DePace, A conserved developmental patterning network produces quantitatively different output in multiple species of Drosophila, PLoS Genetics 7(10):e1002346, October 2011. DOI
C.M. Miles, S.E. Lott, C.L. Luengo Hendriks, M.Z. Ludwig, Manu, C.L. Williams and M. Kreitman, Artificial selection on egg size perturbs early pattern formation in Drosophila melanogaster, Evolution 65(1):33-42, January 2011. DOI

2010

C.L. Luengo Hendriks, Revisiting priority queues for image analysis, Pattern Recognition 43(9):3003-3012, September 2010. DOI PDF (preprint) Software
C.L. Luengo Hendriks, Constrained and dimensionality-independent path openings, IEEE Transactions on Image Processing 19(6):1587-1595, June 2010. DOI PDF (preprint) Software
O. Rübel, G.H. Weber, M.-Y. Huang, E.W. Bethel, M.D. Biggin, C.C. Fowlkes, C.L. Luengo Hendriks, S.V.E. Keränen, M.B. Eisen, D.W. Knowles, J. Malik, H. Hagen and B. Hamann, Integrating data clustering and visualization for the analysis of 3D gene expression data, IEEE/ACM Transactions on Computational Biology and Bioinformatics 7(1):64-79, February 2010. DOI

2009

O. Tenow, T. Fagerström and C. Luengo, Epimeletic behaviour in airborne Common Swift Apus apus (contd.): indication of an interspecies “spill-over” reaction?, Ornis Svecica 19(4):233-236, 2009.
G.H. Weber, O. Rübel, M.-Y. Huang, A.H. DePace, C.C. Fowlkes, S.V.E. Keränen, C.L. Luengo Hendriks, H. Hagen, D.W. Knowles, J. Malik, M.D. Biggin and B. Hamann, Visual exploration of three-dimensional gene expression using physical views and linked abstract views, IEEE/ACM Transactions on Computational Biology and Bioinformatics 6(2):296-309, May 2009. DOI

2008

C.C. Fowlkes, C.L. Luengo Hendriks, S.V.E. Keränen, G.H. Weber, O. Rübel, M.-Y. Huang, S. Chatoor, A.H. DePace, L. Simirenko, C. Henriquez, A. Beaton, R. Weiszmann, S. Celniker, B. Hamann, D.W. Knowles, M.D. Biggin, M.B. Eisen and J. Malik, A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm, Cell 133(2):364-374, April 2008. DOI PDF
This paper is highlighted in Developmental Cell 14(5):639-640, May 2008. DOI PDF
This paper is highlighted in Nature Methods 5(6):466, June 2008. DOI PDF
X. Li, S. MacArthur, R. Bourgon, D. Nix, D.A. Pollard, V.N. Iyer, A. Hechmer, L. Simirenko, M. Stapleton, C.L. Luengo Hendriks, H.C. Chu, N. Ogawa, W. Inwood, V. Sementchenko, A. Beaton, R. Weiszmann, S.E. Celniker, D.W. Knowles, T. Gingeras, T.P. Speed, M.B. Eisen and M.D. Biggin, Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm, PLoS Biology 6(2):e27, February 2008. DOI PDF
This paper is highlighted in Nature Reviews Genetics 9(4):247, April 2008. DOI PDF

2007

C.L. Luengo Hendriks, S.V.E. Keränen, M.D. Biggin and D.W. Knowles, Automatic channel unmixing for high-throughput quantitative analysis of fluorescence images, Optics Express 15(19):12306-12317, September 2007. DOI PDF
C.L. Luengo Hendriks, G.M.P. van Kempen and L.J. van Vliet, Improving the accuracy of isotropic granulometries, Pattern Recognition Letters 28(7):865-872, May 2007. DOI PDF Software
C.L. Luengo Hendriks and D.W. Knowles, Comments on the paper “A novel 3D wavelet-based filter for visualizing features in noisy biological data,” by Moss et al., Journal of Microscopy 225(1):104-107, January 2007. DOI PDF Software

2006

S.V.E. Keränen*, C.C. Fowlkes*, C.L. Luengo Hendriks** These authors have contributed equally to this work., D. Sudar, D.W. Knowles, J. Malik and M.D. Biggin, Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics, Genome Biology, 7:R124, December 2006. DOI PDF
C.L. Luengo Hendriks*, S.V.E. Keränen** These authors have contributed equally to this work., C.C. Fowlkes, L. Simirenko, G.H. Weber, A.H. DePace, C.N. Henriquez, D.W. Kaszuba, B. Hamann, M.B. Eisen, J. Malik, D. Sudar, M.D. Biggin and D.W. Knowles, Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline, Genome Biology, 7:R123, December 2006. DOI PDF Software Data
This paper and its companion are highlighted in Nature Reviews Genetics 8(2):88-89, February 2007. DOI PDF

2005

C.L. Luengo Hendriks, M. van Ginkel, P.W. Verbeek and L.J. van Vliet, The generalized Radon transform: sampling, accuracy and memory considerations, Pattern Recognition 38(12):2494-2505, December 2005. DOI PDF
C.L. Luengo Hendriks and L.J. van Vliet, Using line segments as structuring elements for sampling-invariant measurements, IEEE Transactions on Pattern Analysis and Machine Intelligence 27(11):1826-1831, November 2005. DOI PDF Software

2004

P.W. de Bont, C.L. Luengo Hendriks, G.M.P. van Kempen and R. Vreeker, Time evolution of phase separating milk protein and amylopectin mixtures, Food Hydrocolloids 18(6):1023-1031, November 2004. DOI PDF

2003

G. van Dalen, H. Blonk, H. van Aalst and C.L. Luengo Hendriks, 3-D imaging of foods using X-ray microtomography, Imaging & Microscopy 3:18-21, 2003. PDF References

Papers in Conference Proceedings

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2011

E.L.G Wernersson, C.L. Luengo Hendriks and A. Brun, Accurate estimation of Gaussian and mean curvature in volumetric images, in: International Conference on 3D Imaging, Modeling, Processing, Visualization, and Transmission, 3DIMPVT 2011 (Hangzhou, China, May 16-19), pp. 312-317, IEEE Publications, 2011. DOI

2010

O. Rübel, S. Ahern, E.W. Bethel, M.D. Biggin, H. Childs, E. Cormier-Michel, A. DePace, M.B. Eisen, C.C. Fowlkes, C.G.R. Geddes, H. Hagen, B. Hamann, M.-Y. Huang, S.V.E. Keränen, D.W. Knowles, C.L. Luengo Hendriks, J. Malik, J. Meredith, P. Messmer, Prabhat, D. Ushizima, G.H. Weber and K. Wu, Coupling visualization and data analysis for knowledge discovery from multi-dimensional scientific data, in: International Conference on Computational Science, ICCS 2010 (Amsterdam, The Netherlands, May 31-June 2), Procedia Computer Science 1(1):1751-1758, Elsevier, 2010. DOI
C.L. Luengo Hendriks, Path openings and their applications, in: C.L. Luengo Hendriks and M. Gavrilovic (eds.), Proceedings SSBA 2010, Symposium on Image Analysis (Uppsala, Sweden, March 11-12) pp. 79-82, Centre for Image Analysis, 2010.

2009

E.L.G Wernersson, C.L. Luengo Hendriks and A. Brun, Generating synthetic μCT images of wood fibre materials, in: P. Zinterhof, S. Lončarić, A. Uhl and A. Carini (eds.), Proceedings of the 6th International Symposium on Image and Signal Processing and Analysis (Salzburg, Austria, September 16-18), pp. 365-370, IEEE Publications, 2009. IEEEXplore PDF
Recipient of best paper award.
E.L.G Wernersson, A. Brun and C.L. Luengo Hendriks, Segmentation of wood fibres in 3D CT images using graph cuts, in: P. Foggia, C. Sansone and M. Vento (eds.), Image Analysis and Processing – ICIAP 2009 (Proceedings of the 15th International Conference on Image Analysis and Processing, Vietri sul Mare, Italy, September 8-11), LNCS 5716, pp. 92-102, Springer, 2009. DOI PDF
B. Selig, C.L. Luengo Hendriks, S. Bardage and G. Borgefors, Segmentation of highly lignified zones in wood fibre cross-sections, in: A.-B. Salberg, J.Y. Hardeberg and R. Jenssen (eds.), Proceedings of the 16th Scandinavian Conference on Image Analysis, SCIA 2009 (Oslo, Norway, June 15-18), LNCS 5575, pp. 369-378, Springer, 2009. DOI PDF
E.L.G. Wernersson, A. Brun and C.L. Luengo Hendriks, Closing pores and segmenting individual fibres in 3D images of wood fibre composites using curvature information and graph cuts, in: J. Bigun and A. Verikas (eds.), Proceedings SSBA'09, Symposium on Image Analysis (Halmstad, Sweden, March 19-20), pp. 113-116, Halmstad University, 2009.
B. Selig, C.L. Luengo Hendriks and G. Borgefors, Measuring distribution of lignin in wood fibre cross-sections, in: J. Bigun and A. Verikas (eds.), Proceedings SSBA'09, Symposium on Image Analysis (Halmstad, Sweden, March 19-20), pp. 5-8, Halmstad University, 2009.

2006

O. Rübel, G.H. Weber, S.V.E. Keränen, C.C. Fowlkes, C.L. Luengo Hendriks, L. Simirenko, N.Y. Shah, M.B. Eisen, M.D. Biggin, H. Hagen, D. Sudar, J. Malik, D.W. Knowles and B. Hamann, PointCloudXplore: Visual analysis of 3D gene expression data using physical views and parallel coordinates, in: B.C. Santos, T. Ertl and K. Joy (eds.), Data Visualization 2006 (Proceedings of the Eurographics/IEEE-VGTC Symposium on Visualization, Lisbon, Portugal, May), 2006. PDF

2005

C.C. Fowlkes, C.L. Luengo Hendriks, S.V.E. Keränen, M.D. Biggin, D.W. Knowles, D. Sudar and J. Malik, Registering Drosophila embryos at cellular resolution to build a quantitative 3D atlas of gene expression patterns and morphology (extended abstact), in: Proceedings of the 2005 IEEE Computational Systems Bioinformatics Conference Workshops (Stanford, California, August 8-12), pp. 354-357, 2005. DOI PDF
G.H. Weber, C.L. Luengo Hendriks, S.V.E. Keränen, S.E. Dillard, D.Y. Ju, D. Sudar and B. Hamann, Visualization for validation and improvement of three-dimensional segmentation algorithms, in: K. Brodlie, D. Duke and K.I. Joy (eds.), Data Visualization 2005 (Proceedings of the Eurographics/IEEE VGTC Symposium on Visualization, Leeds, United Kingdom, June 1-3), 2005. PDF
T.Q. Pham, M. Bezuijen, L.J. van Vliet, K. Schutte and C.L. Luengo Hendriks, Performance of optimal registration estimators, in: Z. Rahman, R.A. Schowengerdt and S.E. Reichenbach (eds.), Visual Information Processing XIV (SPIE Defense and Security Symposium, Orlando, Florida, March 29-April 1), Proceedings SPIE 5817, pp. 133-144, 2005. DOI PDF

2003

C.L. Luengo Hendriks and L.J. van Vliet, Discrete morphology with line structuring elements, in: N. Petkov and M.A. Westenberg (eds.), Proceedings of the 10th International Conference, CAIP 2003 (Groningen, The Netherlands, August 25-27), LNCS 2756, pp. 722-729, Springer, 2003. DOI PDF Software
Also presented (with only slight changes) in: S. Vassiliadis, L.M.J. Florack, J.W.J. Heijnsdijk and A. van der Steen (eds.), Proceedings 9th Annual Conference of the Advanced School for Computing and Imaging (Heijen, The Netherlands, June 4-6), pp. 169-176, ASCI, Delft, 2003. PDF
C.L. Luengo Hendriks, M. van Ginkel, P.W. Verbeek and L.J. van Vliet, The generalized Radon transform: sampling and memory considerations, in: N. Petkov and M.A. Westenberg (eds.), Proceedings of the 10th International Conference, CAIP 2003 (Groningen, The Netherlands, August 25-27), LNCS 2756, pp. 681-688, Springer, 2003. DOI PDF
C.L. Luengo Hendriks and L.J. van Vliet, Basic morphological operations, band-limited images and sampling, in: L.D. Griffin and M. Lillholm (eds.), Proceedings of the 4th International Conference, Scale-Space 2003 (Isle of Skye, United Kingdom, June 10-12), LNCS 2695, pp. 313-324, Springer, 2003. DOI PDF Software

2001

C.L. Luengo Hendriks and L.J. van Vliet, Segmentation-free estimation of length distributions using sieves and RIA morphology, in: M. Kerckhove (ed.), Proceedings Third International Conference, Scale-Space 2001 (Vancouver, Canada, July 7-8), LNCS 2106, pp. 389-406, Springer, 2001. DOI PDF
Also presented (with less space constraints) in: R.L. Lagendijk, J.W.J. Heijnsdijk, A.D. Pimentel and M.H.F. Wilkinson (eds.), Proceedings 7th Annual Conference of the Advanced School for Computing and Imaging (Heijen, The Netherlands, May 30-June 1), pp. 129-136, ASCI, Delft, 2001. PDF
C.L. Luengo Hendriks and L.J. van Vliet, A rotation-invariant morphology for shape analysis of anisotropic objects and structures, in: C. Arcelli, L.P. Cordella and G. Sanniti di Baja (eds.), Proceedings 4th International Workshop on Visual Form (Capri, Italy, May 28-30), LNCS 2059, pp. 378-387, Springer, 2001. DOI PDF

2000

C.L. Luengo Hendriks and L.J. van Vliet, Morphological scale-space to differentiate microstructures of food products, in: L.J. van Vliet, J.W.J. Heijnsdijk, T. Kielmann and P.M.W. Knijnenburg (eds.), Proceedings 6th Annual Conference of the Advanced School for Computing and Imaging (Lommel, Belgium, June 14-16), pp. 289-293, ASCI, Delft, 2000. PDF Software
C.L. Luengo Hendriks and L.J. van Vliet, Improving resolution to reduce aliasing in an undersampled image sequence, in: M.M. Blouke, G.M. Williams, N. Sampat and T. Yeh (eds.), Sensors and Camera Systems for Scientific, Industrial, and Digital Photography Applications (Proceedings Electronic Imaging 2000, San Jose, California, January 24-25), Proceedings SPIE 3965, pp. 214-222, 2000. DOI PDF

1999

L.J. van Vliet and C.L. Luengo Hendriks, Improving spatial resolution in exchange of temporal resolution in aliased image sequences, in: B.K. Ersboll and P. Johansen (eds.), Proceedings 11th Scandinavian Conference on Image Analysis (Kangerlussuaq, Greenland, June 7-11), pp. 493-499, Pattern Recognition Society of Denmark, Lyngby, Denmark, 1999. PDF
C.L. Luengo Hendriks and L.J. van Vliet, Resolution enhancement of a sequence of undersampled shifted images, in: M. Boasson, J.A. Kaandorp, J.F.M. Tonino and M.G. Vosselman (eds.), Proceedings 5th Annual Conference of the Advanced School for Computing and Imaging (Heijen, The Netherlands, June 15-17), pp. 95-102, ASCI, Delft, 1999. PDF

Edited Conference Proceedings

C.L. Luengo Hendriks and M. Gavrilovic (eds.), Proceedings SSBA 2010, Symposium on Image Analysis (Uppsala, Sweden, March 11-12), Centre for Image Analysis, 2010.

Book Chapters

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G. Chinga-Carrasco, A. Miettinen, C.L. Luengo Hendriks, E.K. Gamstedt and M. Kataja, Structural characterisation of kraft pulp fibres and their nanofibrillated materials for biodegradable composite applications, in: J. Cuppoletti (ed.), Nanocomposites and Polymers with Analytical Methods, ISBN 978-953-307-352-1, InTech, 2011. InTechOpen PDF
C.L. Luengo Hendriks, P. Malm and E. Bengtsson, Rapid prototyping of image analysis applications, in: G. Dougherty (ed.), Medical Image Processing: Techniques and Applications, ISBN 978-1-4419-9769-2, Biological and Medical Physics, Biomedical Engineering Series, Springer, 2011. DOI
M.-Y. Huang, O. Rübel, G.H. Weber, C.L. Luengo Hendriks, M.D. Biggin, H. Hagen and B. Hamann, Segmenting gene expression patterns of early-stage Drosophila embryos, in: L. Linsen, H. Hagen and B. Hamann (eds.), Visualization in Medicine and Life Sciences, Mathematics and Visualization Series, pp. 313-328, Springer-Verlag, Heidelberg, 2007. DOI PDF
O. Rübel, G.H. Weber, S.V.E. Keränen, C.C. Fowlkes, C.L. Luengo Hendriks, L. Simirenko, N.Y. Shah, M.B. Eisen, M.D. Biggin, H. Hagen, D. Sudar, J. Malik, D.W. Knowles and B. Hamann, PointCloudXplore: Visual analysis of 3D gene expression data, in: H. Hagen, A. Kerren and P. Dannenmann (eds.), Visualization of Large and Unstructured Data Sets, Lecture Notes in Informatics, vol. S-4, pp. 107-117, Gesellschaft für Informatik, Bonn, 2006. PDF

Theses

C.L. Luengo Hendriks, Structure characterization using mathematical morphology, Ph.D. Thesis, Pattern Recognition Group, Delft University of Technology, Delft, The Netherlands, November 2003. PDF (11Mb) more info
C.L. Luengo Hendriks, Improved resolution in infrared imaging using randomly shifted images, M.Sc. Thesis, Pattern Recognition Group, Delft University of Technology, Delft, The Netherlands, November 1998. PDF more info

Technical Reports

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M. van Ginkel, C.L. Luengo Hendriks and L.J. van Vliet, A short introduction to the Radon and Hough transforms and how they relate to each other, Technical Report QI-2004-01, Quantitative Imaging Group, Delft University of Technology, Delft, The Netherlands, February 2004. PDF
C.L. Luengo Hendriks, M. van Ginkel and L.J. van Vliet, Underestimation of the radius in the Radon transform for circles and spheres, Technical Report PH-2003-02, Pattern Recognition Group, Delft University of Technology, Delft, The Netherlands, May 2003. PDF
C.L. Luengo Hendriks, D. Rowlands and S. Singleton, 3D structure quantification of tea leaf and ice cream by image analysis and x-ray micro-computed tomography, Technical Report, Unilever Research Colworth, Bedford, United Kingdom, 2001.
C.L. Luengo Hendriks, G.M.P. van Kempen, L.J. van Vliet, S. Singleton and J.C.G Blonk, The use of morphological sieves to differentiate microstructures of food products, Technical Report, Unilever Research Vlaardingen, Vlaardingen, The Netherlands, 2000.
C.L. Luengo Hendriks, L.J. van Vliet and K. Schutte, Improved resolution in infrared imaging using randomly shifted images, Technical Report FEL-98-S315, TNO-FEL, Rijswijk, The Netherlands, December 1998.

Course Literature

C.L. Luengo Hendriks, L.J. van Vliet and M. van der Glas, Image analysis (course material for tn3531-p), Pattern Recognition Group, Delft University of Technology, Delft, The Netherlands, 2002. PDF

Software Manuals

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C.L. Luengo Hendriks, L.J. van Vliet, B. Rieger, M. van Ginkel and R. Ligteringen, DIPimage user manual, Quantitative Imaging Group, Delft University of Technology, Delft, The Netherlands, 1999-2010. PDF
G.M.P. van Kempen, M. van Ginkel, C.L. Luengo Hendriks and L.J. van Vliet, DIPlib programmers's guide, Quantitative Imaging Group, Delft University of Technology, Delft, The Netherlands, 1995-2010. PDF
G.M.P. van Kempen, M. van Ginkel, C.L. Luengo Hendriks, B. Rieger and L.J. van Vliet, DIPlib function reference, Quantitative Imaging Group, Delft University of Technology, Delft, The Netherlands, 1995-2010. PDF
C.L. Luengo Hendriks, MEX-file programming for image processing using DIPimage, Pattern Recognition Group, Delft University of Technology, Delft, The Netherlands, 2000. PDF
C.L. Luengo Hendriks and L.J. van Vliet, HRPIC: Superresolution toolbox for MATLAB 5, Pattern Recognition Group, Delft University of Technology, Delft, The Netherlands, 1999.