Creation of a Digital Pathology Laboratory using a histological slidescanner

• Grant number: 09/53839-2
• Support Opportunities: Multi-user Equipment Program
• Start date: October 01, 2010
• End date: September 30, 2012
• Field of knowledge: Health Sciences - Dentistry - Dental Clinics
• Principal Investigator: Oslei Paes de Almeida
• Grantee: Oslei Paes de Almeida
• Host Institution: Faculdade de Odontologia de Piracicaba (FOP). Universidade Estadual de Campinas (UNICAMP). Piracicaba , SP, Brazil
• EMU web page: Página do Equipamento Multiusuário não informada
• Type of equipment: Tipo de Equipamento Multiusuário não informado
• Manufacturer: Fabricante não informado
• Model: Modelo não informado

Abstract

The major equipment requested is a digital scanner model with a five-slide capacity, each slide being scanned completely in approximately three minutes. The image quality, low noise generation, small file sizes and speed in the process of scanning by columns make this unit unique in the market. We intend to establish a Digital Pathology Laboratory, the infrastructure of which will allow basic research, teaching, consulting and training of human resources. This slide scanner will allow a leap in how pathology research is carried out. By digitizing the images from slides stained with H&E or immunohistochemistry, together with the use of software for ploidy analysis, immunohistochemical quantification of nuclear or cytoplasmic staining, tissue microarray and blood vessel microdensity, the scanner will enable the rapid advancement of knowledge in pathology. The acquisition of this equipment will allow the generation of multi-user scientific works in digital pathology and allow a shift in teaching histology to undergraduate and graduate students at the colleges involved, because image analysis will be faster and images will be more easily stored. The prospect is that the Digital Pathology Laboratory of the UNICAMP Faculty of Dentistry of Piracicaba might soon achieve excellence in providing services to pathology laboratories, nationally and internationally. To that end, 12 professors/ researchers from various national and international colleges gathered and compiled this FAPESP Multi-User Equipment Program request. There are two FAPESP Thematic Projects associated with this request. We would also like to point out that the researchers involved are full professors of the Graduate Program in Oral Pathology/Stomatology at the UNICAMP Faculty of Dentistry of Piracicaba, which is currently the only such program to have received a level 6 grade from the Brazilian National Office for the Advancement of Higher Education (7 being the highest possible grade). (AU)

Scientific publications

(30)

(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)

FONSECA, FELIPE-PAIVA; SANTOS-SILVA, ALAN-ROGER; LOPES, MARCIO-AJUDARTE; DE ALMEIDA, OSLEI-PAES; VARGAS, PABLO-AGUSTIN. Transition from glass to digital slide microscopy in the teaching of oral pathology in a Brazilian dental school. MEDICINA ORAL PATOLOGIA ORAL Y CIRUGIA BUCAL, v. 20, n. 1, p. E17-E22, JAN 2015. (09/53839-2)

FONSECA, FELIPE PAIVA; BENEVENUTO DE ANDRADE, BRUNO AUGUSTO; LOPES, MARCIO AJUDARTE; REBELO PONTES, HELDER ANTONIO; VARGAS, PABLO AGUSTIN; DE ALMEIDA, OSLEI PAES. P63 expression in papillary cystadenoma and mucoepidermoid carcinoma of minor salivary glands. ORAL SURGERY ORAL MEDICINE ORAL PATHOLOGY ORAL RADIOLOGY, v. 115, n. 1, p. 79-86, JAN 2013. (09/53839-2)

FONSECA, FELIPE PAIVA; BENEVENUTO DE ANDRADE, BRUNO AUGUSTO; CARRINHO AYROSA RANGEL, ANA LUCIA; DELLA COLETTA, RICARDO; LOPES, MARCIO AJUDARTE; DE ALMEIDA, OSLEI PAES; VARGAS, PABLO AGUSTIN. Tissue microarray is a reliable method for immunohistochemical analysis of pleomorphic adenoma. ORAL SURGERY ORAL MEDICINE ORAL PATHOLOGY ORAL RADIOLOGY, v. 117, n. 1, p. 81-88, JAN 2014. (12/07519-9, 09/53839-2, 12/10781-7)

FONSECA, FELIPE PAIVA; MONTANHANA BASSO, MARCOS PAULO; MARIANO, FERNANDA VIVIANE; KOWALSKI, LUIZ PAULO; LOPES, MARCIO AJUDARTE; MARTINS, MANOELA DOMINGUES; CARRINHO AYROZA RANGEL, ANA LUCIA; SANTOS-SILVA, ALAN ROGER; VARGAS, PABLO AGUSTIN. Vascular endothelial growth factor immunoexpression is increased in malignant salivary gland tumors. ANNALS OF DIAGNOSTIC PATHOLOGY, v. 19, n. 3, p. 169-174, JUN 2015. (12/07519-9, 12/17659-2, 09/53839-2, 12/10781-7)

FONSECA, FELIPE P.; BINGLE, LYNNE; SANTOS-SILVA, ALAN R.; LOPES, MARCIO A.; DE ALMEIDA, OSLEI P.; DE ANDRADE, BRUNO A. B.; MARIANO, FERNANDA V.; KOWALSKI, LUIZ P.; RANGEL, ANA L. C. A.; MARTINS, MANOELA D.; et al. Semaphorins and neuropilins expression in salivary gland tumors. JOURNAL OF ORAL PATHOLOGY & MEDICINE, v. 45, n. 2, p. 119-126, FEB 2016. (12/07519-9, 09/53839-2, 12/10781-7)

PRADO RIBEIRO, ANA CAROLINA; CARLOS, ROMAN; SPEIGHT, PAUL M.; HUNTER, KEITH D.; SANTOS-SILVA, ALAN ROGER; DE ALMEIDA, OSLEI PAES; VARGAS, PABLO AGUSTIN. Peritrabecular clefting in fibrous dysplasia of the jaws: an important histopathologic feature for differentiating fibrous dysplasia from central ossifying fibroma. ORAL SURGERY ORAL MEDICINE ORAL PATHOLOGY ORAL RADIOLOGY, v. 114, n. 4, p. 503-508, OCT 2012. (09/53839-2)

ARAUJO, ANNA LUIZA DAMACENO; MORAES, MATHEUS CARDOSO; PEREZ-DI-OLIVEIRA, MARIA EDUARDA; DA SILVA, VIVIANE MARIANO; SALDIVIA-SIRACUSA, CRISTINA; PEDROSO, CAIQUE MARIANO; LOPES, MARCIO AJUDARTE; VARGAS, PABLO AGUSTIN; KOCHANNY, SARA; PEARSON, ALEXANDER; et al. Machine learning for the prediction of toxicities from head and neck cancer treatment: A systematic review with meta-analysis. Oral Oncology, v. 140, p. 15-pg., 2023-04-04. (22/07276-0, 21/14585-7, 09/53839-2)

ARAUJO, ANNA LUIZA DAMACENO; DA SILVA, VIVIANE MARIANO; MORAES, MATHEUS CARDOSO; DE AMORIM, HENRIQUE ALVES; FONSECA, FELIPE PAIVA; ST'ANA, MARIA SISSA PEREIRA; MESQUITA, RICARDO ALVES; MARIZ, BRUNO AUGUSTO LINHARES ALMEIDA; PONTES, HELDER ANTONIO REBELO; DE SOUZA, LUCAS LACERDA; et al. The use of deep learning state-of-the-art architectures for oral epithelial dysplasia grading: A comparative appraisal. JOURNAL OF ORAL PATHOLOGY & MEDICINE, v. N/A, p. 8-pg., 2023-09-15. (21/14585-7, 09/53839-2)

FERREIRA, BEATRIZ CARMONA; FREIRE, ALEXANDRE RODRIGUES; ARAUJO, RAFAEL; DO AMARAL-SILVA, GLEYSON KLEBER; OKAMOTO, ROBERTA; PRADO, FELIPPE BEVILACQUA; ROSSI, ANA CLAUDIA. beta-catenin and Its Relation to Alveolar Bone Mechanical Deformation - A Study Conducted in Rats With Tooth Extraction. FRONTIERS IN PHYSIOLOGY, v. 11, JUN 5 2020. (17/14380-0, 09/53839-2)

DAMACENO ARAUJO, ANNA LUIZA; DA SILVA, VIVIANE MARIANO; KUDO, MAIRA SUZUKA; CARLOS DE SOUZA, EDUARDO SANTOS; SALDIVIA-SIRACUSA, CRISTINA; GIRALDO-ROLDAN, DANIELA; LOPES, MARCIO AJUDARTE; VARGAS, PABLO AGUSTIN; KHURRAM, SYED ALI; PEARSON, ALEXANDER T.; et al. Machine learning concepts applied to oral pathology and oral medicine: A convolutional neural networks' approach. JOURNAL OF ORAL PATHOLOGY & MEDICINE, v. 52, n. 2, p. 10-pg., 2023-01-04. (09/53839-2, 21/14585-7)

ROSSI, ANA CLAUDIA; FREIRE, ALEXANDRE RODRIGUES; FERREIRA, BEATRIZ CARMONA; FAVERANI, LEONARDO PEREZ; OKAMOTO, ROBERTA; PRADO, FELIPPE BEVILACQUA. Effects of premature contact in maxillary alveolar bone in rats: relationship between experimental analyses and a micro scale FEA computational simulation study. CLINICAL ORAL INVESTIGATIONS, v. 25, n. 9, p. 5479-5492, SEP 2021. (14/14409-0, 09/53839-2)

DAMACENO ARAUJO, ANNA LUIZA; ARISTIZABAL ARBOLEDA, LADY PAOLA; PALMIER, NATALIA RANGEL; FONSECA, JESSICA MONTENEGRO; PAGLIONI, MARIANA DE PAULI; GOMES-SILVA, WAGNER; PRADO RIBEIRO, ANA CAROLINA; BRANDAO, THAIS BIANCA; SIMONATO, LUCIANA ESTEVAM; SPEIGHT, PAUL M.; et al. The performance of digital microscopy for primary diagnosis in human pathology: a systematic review. Virchows Archiv, v. 474, n. 3, p. 269-287, MAR 2019. (09/53839-2)

DAMACENO ARAUJO, ANNA LUIZA; AMARAL-SILVA, GLEYSON KLEBER; FONSECA, FELIPE PAIVA; PALMIER, NATALIA RANGEL; LOPES, MARCIO AJUDARTE; SPEIGHT, PAUL M.; DE ALMEIDA, OSLEI PAES; VARGAS, PABLO AGUSTIN; SANTOS-SILVA, ALAN ROGER. Validation of digital microscopy in the histopathological diagnoses of oral diseases. Virchows Archiv, v. 473, n. 3, p. 321-327, SEP 2018. (09/53839-2)

ARAUJO, ANNA LUIZA DAMACENO; DO AMARAL-SILVA, GLEYSON KLEBER; PEREZ-DE-OLIVEIRA, MARIA EDUARDA; GALLAGHER, KAREN PATRICIA DOMINGUEZ; LOPEZ DE CACERES, CINTHIA VERONICA BARDALEZ; ROZA, ANA LUIZA OLIVEIRA CORREA; LEITE, AMANDA ALMEIDA; MARIZ, BRUNO AUGUSTO LINHARES ALMEIDA; RODRIGUES-FERNANDES, CARLA ISABELLY; FONSECA, FELIPE PAIVA; et al. Fully digital pathology laboratory routine and remote reporting of oral and maxillofacial diagnosis during the COVID-19 pandemic: a validation study. Virchows Archiv, v. 479, n. 3, p. 585-595, SEP 2021. (09/53839-2)

DO AMARAL-SILVA, GLEYSON KLEBER; DIAS, LARYSSA MOURA; LINHARES ALMEIDA MARIZ, BRUNO AUGUSTO; FONSECA, FELIPE PAIVA; CARRINHO AYROZA RANGEL, ANA LUCIA; ZANELLA, VIRGILIO GONZALES; CASTILHO, ROGERIO MORAES; MARTINS, MANOELA DOMINGUES; VARGAS, PABLO AGUSTIN; WAGNER, VIVIAN PETERSEN. MutS alpha expression predicts a lower disease-free survival in malignant salivary gland tumors: an immunohistochemical study. MEDICINA ORAL PATOLOGIA ORAL Y CIRUGIA BUCAL, v. 27, n. 2, p. 10-pg., 2022-03-01. (09/53839-2, 17/08995-2, 18/12435-5, 15/21520-8, 16/21785-4, 18/24715-2)

ARAUJO, ANNA LUIZA DAMACENO; DO AMARAL-SILVA, GLEYSON KLEBER; PEREZ-DE-OLIVEIRA, MARIA EDUARDA; GALLAGHER, KAREN PATRICIA DOMINGUEZ; LOPEZ DE CACERES, CINTHIA VERONICA BARDALEZ; ROZA, ANA LUIZA OLIVEIRA CORREA; LEITE, AMANDA ALMEIDA; MARIZ, BRUNO AUGUSTO LINHARES ALMEIDA; RODRIGUES-FERNANDES, CARLA ISABELLY; FONSECA, FELIPE PAIVA; et al. Fully digital pathology laboratory routine and remote reporting of oral and maxillofacial diagnosis during the COVID-19 pandemic: a validation study. Virchows Archiv, MAR 2021. (09/53839-2)

ROSSI, ANA CLAUDIA; FREIRE, ALEXANDRE RODRIGUES; FERREIRA, BEATRIZ CARMONA; FAVERANI, LEONARDO PEREZ; OKAMOTO, ROBERTA; PRADO, FELIPPE BEVILACQUA. Effects of premature contact in maxillary alveolar bone in rats: relationship between experimental analyses and a micro scale FEA computational simulation study. CLINICAL ORAL INVESTIGATIONS, FEB 2021. (14/14409-0, 09/53839-2)

SAULO GABRIEL MOREIRA FALCI; ANA TEREZINHA MARQUES MESQUITA; BRUNO AUGUSTO BENEVENUTO DE ANDRADE; JOAO LUIZ DE MIRANDA; JORGE ESQUICHE LEÓN; OSLEI PAES DE ALMEIDA; CÁSSIO ROBERTO ROCHA DOS SANTOS. FASN expression, angiogenesis and lymphangiogenesis in central and peripheral giant cell lesions. Journal of Applied Oral Science, v. 22, n. 2, p. 131-137, 2014-04-00. (09/53839-2)

KAWAHARA, REBECA; MEIRELLES, GABRIELA V.; HEBERLE, HENRY; DOMINGUES, ROMENIA R.; GRANATO, DANIELA C.; YOKOO, SAMI; CANEVAROLO, RAFAEL R.; WINCK, FLAVIAV.; RIBEIRO, ANA CAROLINA P.; BRANDAO, THAIS BIANCA; et al. Integrative analysis to select cancer candidate biomarkers to targeted validation. ONCOTARGET, v. 6, n. 41, p. 43635-43652, DEC 22 2015. (11/22421-2, 09/54067-3, 09/53839-2, 10/19278-0)

FONSECA, FELIPE PAIVA; BINGLE, LYNNE; SANTOS-SILVA, ALAN ROGER; LOPES, MARCIO AJUDARTE; COLETTA, RICARDO D.; BENEVENUTO DE ANDRADE, BRUNO AUGUSTO; MARIANO, FERNANDA VIVIANE; KOWALSKI, LUIZ PAULO; CARRINHO AYROZA RANGEL, ANA LUCIA; MARTINS, MANOELA DOMINGUES; et al. Immunoexpression of hoxb7 and hoxb9 in salivary gland tumours. JOURNAL OF ORAL PATHOLOGY & MEDICINE, v. 45, n. 9, p. 672-681, OCT 2016. (12/10781-7, 12/07519-9, 09/53839-2)

FLORES, ISADORA L.; KAWAHARA, REBECA; MIGUEL, MARCIA C. C.; GRANATO, DANIELA C.; DOMINGUES, ROMENIA R.; MACEDO, CAROLINA C. S.; CARNIELLI, CAROLINA M.; YOKOO, SAMI; RODRIGUES, PRISCILA C.; MONTEIRO, BARBARA V. B.; et al. EEF1D modulates proliferation and epithelial-mesenchymal transition in oral squamous cell carcinoma. Clinical Science, v. 130, n. 10, p. 785-799, MAY 1 2016. (11/22421-2, 09/53839-2, 09/54067-3, 13/01607-6, 10/19278-0)

RIVERA, CESAR; GONZALEZ-ARRIAGADA, WILFREDO A.; LOYOLA-BRAMBILLA, MARCO; DE ALMEIDA, OSLEL PAES; DELLA COLETTA, RICARDO; VENEGAS, BERNARDO. Clinicopathological and immunohistochemical evaluation of oral and oropharyngeal squamous cell carcinoma in Chilean population. INTERNATIONAL JOURNAL OF CLINICAL AND EXPERIMENTAL PATHOLOGY, v. 7, n. 9, p. 5968-5977, 2014. (09/53839-2)

PAIVA-FONSECA, FELIPE; DE-ALMEIDA, OSLEI-PAES; AYROZA-RANGEL, ANA-LUCIA-CARRINHO; AGUSTIN-VARGAS, PABLO. Tissue microarray construction for salivary gland tumors study. MEDICINA ORAL PATOLOGIA ORAL Y CIRUGIA BUCAL, v. 18, n. 1, p. E1-E6, JAN 2013. (09/53839-2)

BENEVENUTO DE ANDRADE, BRUNO AUGUSTO; RAMIREZ-AMADOR, VELIA; ANAYA-SAAVEDRA, GABRIELA; MARTINEZ-MATA, GUILLERMO; FONSECA, FELIPE P.; GRANER, EDGARD; DE ALMEIDA, OSLEI PAES. Expression of PROX-1 in oral Kaposi's sarcoma spindle cells. JOURNAL OF ORAL PATHOLOGY & MEDICINE, v. 43, n. 2, p. 132-136, FEB 2014. (09/53839-2)

KAWAHARA, REBECA; LIMA, RENATO NIYAMA; DOMINGUES, ROMENIA R.; PAULETTI, BIANCA ALVES; MEIRELLES, GABRIELA V.; ASSIS, MICHELLE; MIGLIORINI FIGUEIRA, ANA CAROLINA; PAES LEME, ADRIANA FRANCO. Deciphering the Role of the ADAM17-Dependent Secretome in Cell Signaling. JOURNAL OF PROTEOME RESEARCH, v. 13, n. 4, p. 2080-2093, APR 2014. (11/22421-2, 09/54067-3, 09/53839-2, 10/19278-0)

GRANATO, DANIELA C.; ZANETTI, MARIANA R.; KAWAHARA, REBECA; YOKOO, SAMI; DOMINGUES, ROMENIA R.; ARAGAO, ANNELIZE Z.; AGOSTINI, MICHELLE; CARAZZOLLE, MARCELO F.; VIDAL, RAMON O.; FLORES, ISADORA L.; et al. Integrated Proteomics Identified Up-Regulated Focal Adhesion-Mediated Proteins in Human Squamous Cell Carcinoma in an Orthotopic Murine Model. PLoS One, v. 9, n. 5, MAY 23 2014. (11/22421-2, 11/02267-9, 09/53839-2, 09/54067-3, 10/19278-0)

FONSECA, FELIPE PAIVA; BENEVENUTO DE ANDRADE, BRUNO AUGUSTO; COLETTA, RICARDO D.; VARGAS, PABLO AGUSTIN; LOPES, MARCIO AJUDARTE; DE ALMEIDA, OSLEI PAES; SANTOS-SILVA, ALAN ROGER. Clinicopathological and immunohistochemical analysis of 19 cases of oral eosinophilic ulcers. ORAL SURGERY ORAL MEDICINE ORAL PATHOLOGY ORAL RADIOLOGY, v. 115, n. 4, p. 532-540, APR 2013. (09/53839-2)

GIRALDO-ROLDAN, DANIELA; FERNANDES, DIEGO TETZNER; LOUREDO, BRENDO VINICIUS RODRIGUES; PENAFORT, PAULO VICTOR MENDES; ROZA, ANA LUIZA OLIVEIRA CORREA; SANTOS-SILVA, ALAN ROGER; VARGAS, PABLO AGUSTIN. An ulcerative nodule on the dorsal tongue in an 8-year-old boy. ORAL SURGERY ORAL MEDICINE ORAL PATHOLOGY ORAL RADIOLOGY, v. 136, n. 2, p. 6-pg., 2023-08-01. (22/01257-4, 09/53839-2, 20/03818-8)

ARAUJO, ANNA LUIZA DAMACENO; DE SOUZA, EDUARDO SANTOS CARLOS; FAUSTINO, ISABEL SCHAUSLTZ PEREIRA; SALDIVIA-SIRACUSA, CRISTINA; BRITO-SARRACINO, TAMIRES; ADUDURATE LOPES, MARCIO; VARGAS, PABLO AGUSTIN; PEARSON, ALEXANDER T.; KOWALSKI, LUIZ PAULO; DE CARVALHO, ANDRE CARLOS PONCE DE LEON FERREIRA; et al. Clinicians' perception of oral potentially malignant disorders: a pitfall for image annotation in supervised learning. ORAL SURGERY ORAL MEDICINE ORAL PATHOLOGY ORAL RADIOLOGY, v. 136, n. 3, p. 7-pg., 2023-09-01. (22/07276-0, 21/14585-7, 09/53839-2)

FONSECA, FELIPE-PAIVA; SANTOS-SILVA, ALAN-ROGER; LOPES, MARCIO-AJUDARTE; DE ALMEIDA, OSLEI-PAES; VARGAS, PABLO-AGUSTIN. Transition from glass to digital slide microscopy in the teaching of oral pathology in a Brazilian dental school. MEDICINA ORAL PATOLOGIA ORAL Y CIRUGIA BUCAL, v. 20, n. 1, p. 6-pg., 2015-01-01. (09/53839-2)