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Tissue spatial organization and fractal analyses for automated plant taxonomy

Grant number: 13/22205-3
Support type:Scholarships abroad - Research Internship - Post-doctor
Effective date (Start): April 01, 2014
Effective date (End): March 31, 2015
Field of knowledge:Physical Sciences and Mathematics - Computer Science
Principal Investigator:Odemir Martinez Bruno
Grantee:Joao Batista Florindo
Supervisor abroad: Gabriel Landini
Home Institution: Instituto de Física de São Carlos (IFSC). Universidade de São Paulo (USP). São Carlos , SP, Brazil
Local de pesquisa : University of Birmingham, England  
Associated to the scholarship:12/19143-3 - Fractal geometry and image analysis applied to vegetal biology, BP.PD

Abstract

This work proposes to investigate the identification of plant species by fractal-based imaging methods. Images of plant leaves will be obtained from three different modalities (i.e. scanned leaf surface, microscopy images of the stomata and histological cross-sections) and will be analyzed using innovative computerized methods developed for the analysis of the architecture of tumors and geometry of cancer cells as proposed by the supervisor at the University of Birmingham. These methods include asymptotic fractal dimensions, morphological characterization of cell neighborhoods and local connected fractal dimension. Other approaches studied by the post-doctoral researcher at his home institution will be applied, including fractal descriptors and multiscale fractal dimension. The rational of this study is that image analysis can provide a new perspective over taxonomical identification, integrating the analysis of the arrangement of micro and macro-structures on the leaves which express both evolutionary processes as well as the interrelationships between their biological structure and the environment. In this way, the proposed analyses can provide an unbiased and useful description of plant tissue samples to facilitate a precise and reliable categorization of species. This work will contribute to both image analysis community as well as botany and cancer researchers by developing inexpensive computational methodologies to extract quantitative data for sample classification purposes. (AU)

Scientific publications (11)
(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)
FLORINDO, JOAO BATISTA; BRUNO, ODEMIR MARTINEZ. Fractal Descriptors of Texture Images Based on the Triangular Prism Dimension. Journal of Mathematical Imaging and Vision, v. 61, n. 1, p. 140-159, JAN 2019. Web of Science Citations: 0.
FLORINDO, JOAO BATISTA; CASANOVA, DALCIMAR; BRUNO, ODEMIR MARTINEZ. A Gaussian pyramid approach to Bouligand-Minkowski fractal descriptors. INFORMATION SCIENCES, v. 459, p. 36-52, AUG 2018. Web of Science Citations: 2.
FLORINDO, JOAO B.; BRUNO, ODEMIR M.; LANDINI, GABRIEL. Morphological classification of odontogenic keratocysts using Bouligand-Minkowski fractal descriptors. COMPUTERS IN BIOLOGY AND MEDICINE, v. 81, p. 1-10, FEB 1 2017. Web of Science Citations: 2.
FLORINDO, JOAO B.; LANDINI, GABRIEL; BRUNO, ODEMIR M. Three-dimensional connectivity index for texture recognition. PATTERN RECOGNITION LETTERS, v. 84, p. 239-244, DEC 1 2016. Web of Science Citations: 4.
CASANOVA, D.; FLORINDO, J. B.; FALVO, M.; BRUNO, O. M. Texture analysis using fractal descriptors estimated by the mutual interference of color channels. INFORMATION SCIENCES, v. 346, p. 58-72, JUN 10 2016. Web of Science Citations: 13.
FLORINDO, J. B.; BRUNO, O. M. Texture analysis by fractal descriptors over the wavelet domain using a best basis decomposition. PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, v. 444, p. 415-427, FEB 15 2016. Web of Science Citations: 6.
FLORINDO, JOAO BATISTA; ASSIRATI, LUCAS; BRUNO, ODEMIR MARTINEZ. Locally enhancing fractal descriptors by using the non-additive entropy. PATTERN RECOGNITION LETTERS, v. 70, p. 32-37, JAN 15 2016. Web of Science Citations: 3.
FLORINDO, JOAO BATISTA; BRUNO, ODEMIR MARTINEZ; ROSSATTO, DAVI RODRIGO; KOLB, ROSANA MARTA; CECILIA GOMEZ, MARIA; LANDINI, GABRIEL. Identifying plant species using architectural features in leaf microscopy images. BOTANY, v. 94, n. 1, p. 15-21, JAN 2016. Web of Science Citations: 0.
FLORINDO, JOAO BATISTA; ASSIRATI, LUCAS; BRUNO, ODEMIR MARTINEZ. Enhancing texture descriptors by a neighborhood approach to the non-additive entropy. DIGITAL SIGNAL PROCESSING, v. 44, p. 14-25, SEP 2015. Web of Science Citations: 1.
FLORINDO, JOAO BATISTA; LANDINI, GABRIEL; BRUNO, ODEMIR MARTINEZ. Texture descriptors by a fractal analysis of three-dimensional local coarseness. DIGITAL SIGNAL PROCESSING, v. 42, p. 70-79, JUL 2015. Web of Science Citations: 7.
OLIVEIRA, MARCOS WILLIAM DA S.; CASANOVA, DALCIMAR; FLORINDO, JOAO B.; BRUNO, ODEMIR M. Enhancing fractal descriptors on images by combining boundary and interior of Minkowski dilation. PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, v. 416, p. 41-48, DEC 15 2014. Web of Science Citations: 1.

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