



@book {2222,
	title = {Arabidopsis thaliana automatic cell file detection and cell length estimation},
	series = {Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)Lect. Notes Comput. Sci.},
	volume = {6754 LNCS},
	year = {2011},
	note = {Conference code: 85546Export Date: 21 November 2012Source: Scopusdoi: 10.1007/978-3-642-21596-4_1Language of Original Document: EnglishCorrespondence Address: Quelhas, P.; INEB - Divis{\~a}o de Sinal e Imagem, Instituto de Engenharia Biom{\'e}dica, Porto, PortugalReferences: Terpstra, I., Heidstra, R., Stem cells: The root of all cells (2009) Semin. Cell Dev. Biol., 20 (9), pp. 1089-1096;Bennett, T., Scheres, B., Root development-two meristems for the price of one? (2010) Curr. Top Dev. Bio., 91, pp. 67-102; 
De Smet, I., Tetsumura, T., De Rybel, B., Frey, N.F., Laplaze, L., Casimiro, I., Swarup, R., Beeckman, T., Auxin-dependent regulation of lateral root positioning in the basal meristem of arabidopsis (2007) Development, 134 (4), pp. 681-690; 
Nieuwland, J., Maughan, S., Dewitte, W., Scofield, S., Sanz, L., Murray, J.A., The d-type cyclin cycd4;1 modulates lateral root density in arabidopsis by affecting the basal meristem region (2009) Proc. Natl. Acad. Sci. U S A, 106 (52), pp. 22528-22533; 
Vanstraelen, M., Baloban, M., Da Ines, O., Cultrone, A., Lammens, T., Boudolf, V., Brown, S.C., Kondorosi, E., Apc/c-ccs52a complexes control meristem maintenance in the arabidopsis root (2009) Proc. Natl. Acad. Sci. U S A, 106 (28), pp. 11806-11811; 
Beemster, G., Baskin, T., Analysis of cell division and elongation underlying the developmental acceleration of root growth in arabidopsis thaliana (1998) Plant Physiology, 116, pp. 1515-1526; 
Iwamoto, A., Satoh, D., Furutani, M., Maruyama, S., Ohba, H., Sugiyama, M., Insight into the basis of root growth in arabidopsis thaliana provided by a simple mathematical model (2006) J. Plant Res., 119, pp. 85-93; 
Immink, R., Gadella, T., Ferrario, S., Busscher, M., Angenent, G., Analysis of mads box protein-protein interactions in living plant cells (2002) Proc. Natl. Acad. Sci. USA, 99, pp. 2416-2421; 
Willemse, J., Kulikova, O., Jong, H., Bisseling, T., A new whole-mount dna quantification method and the analysis of nuclear dna content in the stem-cell niche of arabidopsis roots (2008) The Plant Journal, 10, pp. 1365-1374; 
Marcuzzo, M., Quelhas, P., Campilho, A., Mendon{\c c}a, A.M., Campilho, A., Automated arabidopsis plant root cell segmentation based on svm classification and region merging (2009) Comp. in Biology and Medicine, 39, pp. 785-793; 
Marcuzzo, M., Guichard, T., Quelhas, P., Mendon{\c c}a, A.M., Campilho, A., Cell division detection on the arabidopsis thaliana root (2009) LNCS, 5524, pp. 168-175. , Araujo, H., Mendon{\c c}a, A.M., Pinho, A.J., Torres, M.I. (eds.) IbPRIA 2009. Springer, Heidelberg; 
Kovesi, P., Symmetry and asymmetry from local phase Proc. of the 10th Australian Joint Conf. on Artificial Intelligence (December 1997); 
Campilho, A., Garcia, B., Toorn, H., Wijk, H., Campilho, A., Scheres, B., Time-lapse analysis of stem-cell divisions in the arabidopsis thaliana root meristem (2006) The Plant Journal, 48, pp. 619-627; 
Dabov, K., Foi, A., Katkovnik, V., Egiazarian, K., Image denoising by sparse 3d transform-domain collaborative filtering (2007) IEEE Trans. on Image Processing, 16 (8), pp. 2080-2095; 
Otsu, N., A threshold selection method from gray-level histograms (1979) IEEE Transactions on Systems, Man, and Cybernetics, SMC-9 (1), pp. 62-66
},
	month = {2011///},
	pages = {1 - 11},
	address = {Burnaby, BC},
	abstract = {In plant development biology, the study of the structure of the plant{\textquoteright}s root is fundamental for the understanding of the regulation and interrelationships of cell division and cellular differentiation. This is based on the high connection between cell length and progression of cell differentiation and the nuclear state. However, the need to analyse a large amount of images from many replicate roots to obtain reliable measurements motivates the development of automatic tools for root structure analysis. We present a novel automatic approach to detect cell files, the main structure in plant roots, and extract the length of the cells in those files. This approach is based on the detection of local cell file characteristic symmetry using a wavelet based image symmetry measure. The resulting detection enables the automatic extraction of important data on the plant development stage and of characteristics for individual cells. Furthermore, the approach presented reduces in more than 90\% the time required for the analysis of each root, improving the work of the biologist and allowing the increase of the amount of data to be analysed for each experimental condition. While our approach is fully automatic a user verification and editing stage is provided so that any existing errors may be corrected. Given five test images it was observed that user did not correct more than 20\% of all automatically detected structure, while taking no more than 10\% of manual analysis time to do so. {\textcopyright} 2011 Springer-Verlag.},
	keywords = {Arabidopsis thaliana, Automatic extraction, Automatic tools, Bio-imaging, BioImaging, cell differentiation, Cell divisions, Cell lengths, cell proliferation, Cells, Cellular differentiation, Experimental conditions, Image analysis, image symmetry, Individual cells, Main structure, Manual analysis, Nuclear state, Plant development, Plant roots, Plants (botany), Reliable measurement, Root structure, Test images, User verification, Wavelet analysis, Wavelet-based images},
	isbn = {03029743 (ISSN); 9783642215957 (ISBN)},
	url = {http://www.scopus.com/inward/record.url?eid=2-s2.0-79960337749\&partnerID=40\&md5=ef49700082788511730e38d4eda9a566},
	author = {Quelhas, P. and Nieuwland, J. and Dewitte, W. and Mendon{\c c}a, A.M. and Murray, J. and Campilho, A.}
}
