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Hyperspectral signal processing and analysis applied to histopathological diagnosis

Grant number:21/00633-0
Support Opportunities:Regular Research Grants
Start date: October 01, 2021
End date: September 30, 2023
Field of knowledge:Physical Sciences and Mathematics - Computer Science - Computing Methodologies and Techniques
Principal Investigator:Luciano Bachmann
Grantee:Luciano Bachmann
Host Institution: Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto (FFCLRP). Universidade de São Paulo (USP). Ribeirão Preto , SP, Brazil
City of the host institution:Ribeirão Preto
Associated researchers:Denise Maria Zezell ; Edson Garcia Soares ; Joaquim Cezar Felipe ; Luiz Carlos Conti de Freitas ; Thiago Martini Pereira
Associated research grant(s):24/18004-7 - Spie - Photonics West -2025, AR.EXT

Abstract

The anomalies typification in human tissues, including neoplasms, is usually performed by histological examinations on slides containing biopsies. Research on digital biopsy images has grown rapidly, leveraging the development and improvement of image processing methods specially developed or adapted for this category of images. The hyperspectral signals, obtained using infrared equipment, are characterized by presenting for each pixel of the image a spectrum of absorbance values for the different frequencies, which is sensitive to the characteristics of the underlying tissue. This project aims to investigate and validate the hypothesis that infrared hyperspectral signals can be used to recognize patterns that allow the identification of regions of the slide containing healthy tissue or with abnormal characteristics, especially neoplasms. In order to do this, datasets of hyperspectral signals representing absorbance over a wide range of infrared frequencies, obtained from slides containing samples of healthy tissue and abnormal tissue from different organs, such as thyroid, skin and breast, will be analyzed using deep learning techniques, implemented as classifiers, with which it will be possible to characterize the regions of the slide according to the possible anomalies present. Thus, the proposed method will allow the automatic analysis of biopsies, to make the diagnostic process more accurate and effective. Besides, images obtained from biopsy slides stained with Hematoxylin and Eosin will be processed by computer vision techniques in comparison with the hyperspectral signals approach, in order to detect patterns that are not identifiable by the currently used visual method. (AU)

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Scientific publications (15)
(The scientific publications listed on this page originate from the Web of Science or SciELO databases. Their authors have cited FAPESP grant or fellowship project numbers awarded to Principal Investigators or Fellowship Recipients, whether or not they are among the authors. This information is collected automatically and retrieved directly from those bibliometric databases.)
GERMANO, GLEICE; DEL VALLE, MATHEUS; PEREIRA, DANIELLA LUMARA; DE FATIMA, DANIELA; PEREIRA, THIAGO MARTINI; ZEZELL, DENISE MARIA. Rapid identification of breast cancer in different stages using micro-FTIR and supervised machine learning methods. 2024 SBFOTON INTERNATIONAL OPTICS AND PHOTONICS CONFERENCE, SBFOTON IOPC 2024, v. N/A, p. 3-pg., . (21/00633-0)
STASI, RAFFAELE; GERMANO, GLEICE C. M.; DA SILVA, EVELIN MONTEIRO; DE LIMA, FERNANDO SILVA; MORENO-LOIZA, OSCAR J.; MEDEI, EMILIANO H.; ZEZELL, DENISE M.. Infrared Spectroscopy Imaging of Cardiac Atria from Mice Treated with Interleukin-1beta: A Preliminary Clustering Analysis. 2024 SBFOTON INTERNATIONAL OPTICS AND PHOTONICS CONFERENCE, SBFOTON IOPC 2024, v. N/A, p. 3-pg., . (21/00633-0)
PERES, DANIELLA LUMARA; GERMANO, GLEICE; SILVA, DANIELA F. T.; BACHMANN, LUCIANO; MATOS, LEANDRO L. DE; FELIPE, JOAQUIM C.; PEREIRA, THIAGO MARTINI; ZEZELL, DENISE MARIA. A deep neural network approach for oral squamous cell carcinoma identification. 2024 SBFOTON INTERNATIONAL OPTICS AND PHOTONICS CONFERENCE, SBFOTON IOPC 2024, v. N/A, p. 3-pg., . (21/00633-0)
SARDO, ARIANE VENZON NAIA; ANDRADE, MAIRA FRANCO; FIGUEIREDO, ANAELIZA; ROSIN, FLAVIA CRISTINA PERILLO; CORREA, LUCIANA; ZEZELL, DENISE MARIA. Does Photobiomodulation Affects CK10 and CK14 in Oral Mucositis Radioinduced Repair?. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, v. 23, n. 24, p. 9-pg., . (21/00633-0, 17/50332-0, 13/26113-6)
FAROOQ, SAJID; DEL-VALLE, MATHEUS; SANTOS, SOFIA NASCIMENTO DOS; BERNARDES, EMERSON SOARES; ZEZELL, DENISE MARIA. Recognition of breast cancer subtypes using FTIR hyperspectral data. SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY, v. 310, p. 8-pg., . (21/00633-0, 17/50332-0)
OLIVEIRA BAFFA, MATHEUS DE REIMS; BACHMANN, LUCIANO; ZEZELL, DENISE MARIA; PEREIRA, THIAGO MARTINI; DESERNO, THOMAS MARTIN; FELIPE, JOAQUIM CEZAR; ALMEIDA, JR; SPILIOPOULOU, M; ANDRADES, JAB; PLACIDI, G; et al. Advancing Thyroid Pathologies Detection with Recurrent Neural Networks and Micro-FTIR Hyperspectral Imaging. 2023 IEEE 36TH INTERNATIONAL SYMPOSIUM ON COMPUTER-BASED MEDICAL SYSTEMS, CBMS, v. N/A, p. 5-pg., . (21/00633-0)
FAROOQ, SAJID; GERMANO, GLEICE; STANCARI, KLEBER ADRIANI; RAFFAELI, ROCIO; CROCE, MARIA VIRGINIA; CROCE, ADELA E.; ZEZELL, DENISE MARIA; IEEE. A 3D discriminant analysis for Hyperspectral FTIR images. 2023 INTERNATIONAL CONFERENCE ON OPTICAL MEMS AND NANOPHOTONICS, OMN AND SBFOTON INTERNATIONAL OPTICS AND PHOTONICS CONFERENCE, SBFOTON IOPC, v. N/A, p. 2-pg., . (21/00633-0, 17/50332-0)
PERES, DANIELLA LUMARA; FAROOQ, SAJID; RAFFAELI, ROCIO; CROCE, MARIA VIRGINIA; CROCE, ADELA E.; ZEZELL, DENISE MARIA; IEEE. Identification of basal cell carcinoma skin cancer using FTIR and Machine learning. 2023 INTERNATIONAL CONFERENCE ON OPTICAL MEMS AND NANOPHOTONICS, OMN AND SBFOTON INTERNATIONAL OPTICS AND PHOTONICS CONFERENCE, SBFOTON IOPC, v. N/A, p. 2-pg., . (21/00633-0, 17/50332-0)
FAROOQ, SAJID; PERES, DANIELLA L. PRIME UMARA; CAIXETA, DOUGLAS CARVALHO; LIMA, CASSIO; DA SILVA, ROBINSON SABINO; ZEZELL, DENISE MARIA; IEEE. Monitoring changes in urine from diabetic rats using ATR-FTIR and Machine Learning. 2023 INTERNATIONAL CONFERENCE ON OPTICAL MEMS AND NANOPHOTONICS, OMN AND SBFOTON INTERNATIONAL OPTICS AND PHOTONICS CONFERENCE, SBFOTON IOPC, v. N/A, p. 2-pg., . (21/00633-0, 17/50332-0)
BAFFA, MATHEUS DE FREITAS OLIVEIRA; ZEZELL, DENISE MARIA; BACHMANN, LUCIANO; PEREIRA, THIAGO MARTINI; DESERNO, THOMAS MARTIN; FELIPE, JOAQUIM CEZAR. Deep neural networks can differentiate thyroid pathologies on infrared hyperspectral images. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE, v. 247, p. 8-pg., . (21/00633-0)
FAROOQ, SAJID; DEL-VALLE, MATHEUS; DOS SANTOS, MOISES OLIVEIRA; DOS SANTOS, SOFIA NASCIMENTO; BERNARDES, EMERSON SOARES; ZEZELL, DENISE MARIA. Rapid identification of breast cancer subtypes using micro-FTIR and machine learning methods. APPLIED OPTICS, v. 62, n. 8, p. 8-pg., . (21/00633-0, 17/50332-0)
BENETTI, CAROLINA; BLAY, ALBERTO; CORREA, LUCIANA; VERLANGIERI, MARCO AURELIO; DOS SANTOS, MOISES O.; KAZARIAN, SERGEI G.; ZEZELL, DENISE M.. ATR-FTIR spectroscopy imaging of bone repair in mandibular laser-osteotomy. Journal of Biophotonics, v. 17, n. 9, p. 12-pg., . (21/00633-0)
BAFFA, MATHEUS DE FREITAS OLIVEIRA; ZEZELL, DENISE MARIA; BACHMANN, LUCIANO; PEREIRA, THIAGO MARTINI; FELIPE, JOAQUIM CEZAR. A comparative analysis of deep learning architectures for thyroid tissue classification with hyperspectral imaging. SCIENTIFIC REPORTS, v. 15, n. 1, p. 9-pg., . (21/00633-0)
AUGUSTO DE CASTRO, PEDRO ARTHUR; DIAS, DERLY AUGUSTO; DEL-VALLE, MATHEUS; VELOSO, MARCELO NORONHA; RIBEIRO SOMESSARI, ELIZABETH SEBASTIANA; ZEZELL, DENISE MARIA. Assessment of bone dose response using ATR-FTIR spectroscopy: A potential method for biodosimetry. SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY, v. 273, p. 7-pg., . (21/00633-0, 17/50332-0)