2023

1. 

   The impact of COVID-19 pandemic on outcomes of women with breast cancer recurrence

   Lindson Mühlmann, Franklin Fernandes Pimentel, Daniel Guimarães Tiezzi, and 3 more authors

   May 2023

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   The COVID-19 pandemic has impacted the management of several diseases. Our goal was to assess the outcomes of women diagnosed with relapsed breast cancer during the pandemic period.

   @article{Mhlmann2023,
     doi = {10.21203/rs.3.rs-2898368/v1},
     url = {https://doi.org/10.21203/rs.3.rs-2898368/v1},
     year = {2023},
     month = may,
     dimensions = {true},
     publisher = {Research Square Platform {LLC}},
     author = {M\"{u}hlmann, Lindson and Pimentel, Franklin Fernandes and Tiezzi, Daniel Guimar{\~{a}}es and Carrara, H{\'{e}}lio Humberto Angotti and de Andrade, Jurandyr Moreira and dos Reis, Francisco Jose Candido},
     title = {The impact of {COVID}-19 pandemic on outcomes of women with breast cancer recurrence},
   }

2. 

   197P Computational pathology pipeline enables quantification of intratumor heterogeneity and tumor-infiltrating lymphocyte score

   D.G. Tiezzi, A. Fröhlich, F. Chahud, and 1 more author

   Immuno-Oncology and Technology, Dec 2023

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   Tumor mutation burden, intratumor heterogeneity and the cancer related immune infiltrate are associated with response to target and immune therapies in several cancer types. The aim of this study is to establish a computational pathology (CPath) pipeline for investigating useful histopathological features in hematoxylin and eosin (H&E) whole slide images (WSIs). The pipeline allows for the segmentation and classification of nuclei. As an application, a machine learning approach is used to quantify intratumor heterogeneity (ITH) and tumor-infiltrating lymphocyte (TIL) scores.

   @article{Tiezzi2023,
     title = {197P Computational pathology pipeline enables quantification of intratumor heterogeneity and tumor-infiltrating lymphocyte score},
     volume = {20},
     issn = {2590-0188},
     url = {http://dx.doi.org/10.1016/j.iotech.2023.100656},
     doi = {10.1016/j.iotech.2023.100656},
     journal = {Immuno-Oncology and Technology},
     publisher = {Elsevier BV},
     author = {Tiezzi, D.G. and Fr\"{o}hlich, A. and Chahud, F. and Pagnota, S.},
     year = {2023},
     month = dec,
     pages = {100656},
     dimensions = {true},
   }

2022

1. 

   MicroRNAs miR-629-3p, miR-1202 and miR-1225-5p as potential diagnostic and surgery outcome biomarkers for mesial temporal lobe epilepsy with hippocampal sclerosis

   D. Gattás, F.S.L. Neto, P. Freitas-Lima, and 10 more authors

   Neurochirurgie, Dec 2022

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   Mesial temporal lobe epilepsy (MTLE) is a symptomatic epilepsy syndrome clinically characterized by high prevalence, pharmacoresistance, good surgical prognosis and hippocampal sclerosis (HS); however, no singular criteria can be considered sufficient for the MTLE-HS diagnosis. MicroRNAs (miRNAs) are small non-coding molecules that act as important gene-expression regulators at post-transcriptional level. Evidences on the involvement of miRNAs in epilepsy pathogenesis as well as their potential to be employed as biomarkers claim for investigations on miRNAs’ applicability as epilepsy diagnosis and prognosis biomarkers. Consequently, the present study aimed to evaluate the applicability of three specific miRNAs as biomarkers of diagnosis and surgical outcomes in adult patients with MTLE-HS.

   @article{Gatts2022,
     doi = {10.1016/j.neuchi.2022.06.002},
     url = {https://doi.org/10.1016/j.neuchi.2022.06.002},
     year = {2022},
     month = dec,
     publisher = {Elsevier {BV}},
     volume = {68},
     number = {6},
     pages = {583--588},
     dimensions = {true},
     author = {Gatt{\'{a}}s, D. and Neto, F.S.L. and Freitas-Lima, P. and Bonfim-Silva, R. and de Almeida, S. Malaquias and de Assis Cirino, M.L. and Tiezzi, D. Guimar{\~{a}}es and Tirapelli, L.F. and Velasco, T.R. and Sakamoto, A.C. and Matias, C.M. and Carlotti, C.G. and Tirapelli, D.P.C.},
     title = {{MicroRNAs} {miR}-629-3p,  {miR}-1202 and {miR}-1225-5p as potential diagnostic and surgery outcome biomarkers for mesial temporal lobe epilepsy with hippocampal sclerosis},
     journal = {Neurochirurgie},
   }

2. 

   10-year opportunistic mammographic screening scenario in Brazil and its impact on breast cancer early detection: a nationwide population-based study

   Isabela Campeti Cuoghi, Mariana Furlani Silva Soares, Gustavo Motta Cabello Santos, and 6 more authors

   Journal of Global Health, Oct 2022

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   Mammographic screening has been used to reduce breast cancer mortality worldwide and remains the main modality for the early detection of this disease. Women from low- and middle-income countries still lack access to periodic mammograms and efficient health care. This cross-sectional study aimed to explore opportunistic mammographic coverage in Brazil, while considering the privately insured population and its association with early breast cancer (EBC) detection.

   @article{Cuoghi2022,
     doi = {10.7189/jogh.12.04061},
     url = {https://doi.org/10.7189/jogh.12.04061},
     year = {2022},
     month = oct,
     publisher = {International Society of Global Health},
     volume = {12},
     author = {Cuoghi, Isabela Campeti and da Silva Soares, Mariana Furlani and dos Santos, Gustavo Motta Cabello and dos-Reis, Francisco Jos{\'{e}} Candido and Poli-Neto, Omero Benedicto and de Andrade, Jurandyr Moreira and Bosquesi, Priscila Longhin and Orlandini, Leonardo Fleury and Tiezzi, Daniel Guimar{\~{a}}es},
     title = {10-year opportunistic mammographic screening scenario in Brazil and its impact on breast cancer early detection: a nationwide population-based study},
     journal = {Journal of Global Health},
     dimensions = {true},
   }

2021

1. 

   Axillary ultrasound and fine-needle aspiration cytology to predict clinically relevant nodal burden in breast cancer patients

   I.P.C. Buzatto, F.J.C. Reis, J.M. Andrade, and 1 more author

   World J. Surg. Onc., Sep 2021

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   Axillary lymph node involvement is one important prognostic factor in breast cancer, but the way to access this information has been modified over the years. This study evaluated if axillary ultrasound (US) coupled with fine-needle aspiration cytology (FNAC) can accurately predict clinically relevant node metastasis in patients with breast cancer, and thus assist clinical decisions

   @article{WJS0,
     title = {Axillary ultrasound and fine-needle aspiration cytology to predict clinically relevant nodal burden in breast cancer patients},
     author = {Buzatto, I.P.C. and dos Reis, F.J.C. and de Andrade, J.M. and et al.},
     journal = {World J. Surg. Onc.},
     volume = {19},
     issue = {10},
     pages = {292},
     numpages = {0},
     year = {2021},
     month = sep,
     publisher = {World Journal of Surgical Oncology,},
     doi = {10.1186/s12957-021-02391-3},
     url = {https://wjso.biomedcentral.com/articles/10.1186/s12957-021-02391-3#citeas},
     dimensions = {true},
   }

2020

1. 

   Transcriptome meta-analysis reveals differences of immune profile between eutopic endometrium from stage I-II and III-IV endometriosis independently of hormonal milieu

   Omero Benedicto Poli-Neto, Juliana Meola, Julio Cesar Rosa-e-Silva, and 1 more author

   Scientific Reports, Jan 2020

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   Eutopic endometrium appears to be crucial for endometriosis development. Despite of the evident importance, data regarding the cellular microenvironment remain unclear. Our objective was to explore the tissue microenvironment heterogeneity, transcripts, and pathways that are enriched in all phases of the menstrual cycle by analysing publicly deposited data derived from whole transcriptome microarrays of eutopic endometria of women with and without endometriosis. A meta-analysis of the transcriptome microarrays was performed using raw data available from a public database. Eligibility criteria included eutopic endometrium samples from women with endometriosis and healthy controls without any pathological condition reported the presence of an adequately reported normal menstrual phase, and samples containing both glandular and stromal components. Raw data were processed using a robust multiarray average method to provide background correction, normalisation, and summarisation. The batch effect was estimated by principal variant component analysis and removed using an empirical Bayes method. Cellular tissue heterogeneity was inferred using the xCell package. Differentially expressed genes were identified based on a 5% adjusted p value and a 2.0-fold change. Pathways were identified by functional enrichment based on the Molecular Signatures Database, a p value of < 5%, and an FDR q value of ≤ 25%. Genes that were more frequently found in pathways were identified using leading edge analysis. In a manner independent of cycle phase, the subpopulations of activated dendritic cells, CD4 T effector memory phenotype cells, eosinophils, macrophages M1, and natural killer T cells (NKT) were all higher in stage I-II endometriosis compared to those in healthy controls. The subpopulations of M2 macrophages and natural killer T cells were elevated in eutopic endometriums from women with stage III-IV endometriosis, and smooth muscle cells were always more prevalent in healthy eutopic endometriums. Among the differently expressed genes, FOS, FOSB, JUNB, and EGR1 were the most frequently mapped within the interaction networks, and this was independent of stage and cycle phase. The enriched pathways were directly related to immune surveillance, stem cell self-renewal, and epithelial mesenchymal transition. PI3K AKT mTOR, TGF signalling, and interferon alpha/gamma responses were enriched exclusively in stage III-IV endometriosis. The cellular microenvironments and immune cell profiles were different between eutopic endometriums from women with stage I-II and stage III-IV endometriosis, and these differences were independent of the hormonal milieu. Specifically, a pro-inflammatory profile was predominant in stage I-II endometriosis, and M1-M2 polarization into eutopic endometrium may be crucial for the progression of the disease. The higher prevalence of NKT cells in eutopic endometriums from women with endometriosis that was independent of cycle phase or staging suggested a sustained stress and/or damage to these eutopic endometriums. Based on this, the results of this meta-analysis are important for identifying challenges and opportunities for future research.

   @article{PoliNeto2020,
     doi = {10.1038/s41598-019-57207-y},
     url = {https://www.nature.com/articles/s41598-019-57207-y},
     year = {2020},
     month = jan,
     publisher = {Springer Science and Business Media {LLC}},
     volume = {10},
     number = {1},
     author = {Poli-Neto, Omero Benedicto and Meola, Juliana and Rosa-e-Silva, Julio Cesar and Tiezzi, Daniel},
     title = {Transcriptome meta-analysis reveals differences of immune profile between eutopic endometrium from stage I-{II} and {III}-{IV} endometriosis independently of hormonal milieu},
     journal = {Scientific Reports},
   }

2017

1. 

   Integrated genomic and molecular characterization of cervical cancer

   The Cancer Genome Atlas Research Network

   Nature, Jan 2017

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   Cervical cancer remains one of the leading causes of cancer-related deaths worldwide. Reported here is an extensive molecular characterization of 228 primary cervical cancers, the largest comprehensive genomic study of cervical cancer to date. We observed striking APOBEC mutagenesis patterns and identified SHKBP1, ERBB3, CASP8, HLA-A, and TGFBR2 as novel significantly mutated genes in cervical cancer. We also discovered novel amplifications in immune targets CD274/PD-L1 and PDCD1LG2/PD-L2, and the BCAR4 lncRNA that has been associated with response to lapatinib. HPV integration was observed in all HPV18-related cases and 76% of HPV16-related cases, and was associated with structural aberrations and increased target gene expression. We identified a unique set of endometrial-like cervical cancers, comprised predominantly of HPV-negative tumors with high frequencies of KRAS, ARID1A, and PTEN mutations. Integrative clustering of 178 samples identified Keratin-low Squamous, Keratin-high Squamous, and Adenocarcinoma-rich subgroups. These molecular analyses reveal new potential therapeutic targets for cervical cancers.

   @article{2017,
     doi = {10.1038/nature21386},
     url = {https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5354998/},
     year = {2017},
     month = jan,
     publisher = {Springer Science and Business Media {LLC}},
     volume = {543},
     number = {7645},
     pages = {378--384},
     title = {Integrated genomic and molecular characterization of cervical cancer},
     journal = {Nature},
     author = {Network, The Cancer Genome Atlas Research},
   }