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Binary classification of copy number alteration profiles in liquid biopsy with potential clinical impact in advanced NSCLC.
Tosello, Valeria; Grassi, Angela; Rose, Dominic; Bao, Loc Carlo; Zulato, Elisabetta; Dalle Fratte, Chiara; Polano, Maurizio; Del Bianco, Paola; Pasello, Giulia; Guarneri, Valentina; Indraccolo, Stefano; Bonanno, Laura.
Afiliación
  • Tosello V; Basic and Translational Oncology Unit, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Grassi A; Clinical Research Unit, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Rose D; Sequencing Solutions, Roche Diagnostics Deutschland GmbH, Mannheim, Germany.
  • Bao LC; Department of Surgery, Oncology, Gastroenterology, University of Padova, Padua, Italy.
  • Zulato E; Medical Oncology 2, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Dalle Fratte C; Basic and Translational Oncology Unit, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Polano M; Basic and Translational Oncology Unit, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Del Bianco P; Experimental and Clinical Pharmacology Unit, Centro di Riferimento Oncologico di Aviano IRCCS, Aviano, Italy.
  • Pasello G; Clinical Research Unit, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Guarneri V; Department of Surgery, Oncology, Gastroenterology, University of Padova, Padua, Italy.
  • Indraccolo S; Medical Oncology 2, Veneto Institute of Oncology IOV-IRCCS, Padua, Italy.
  • Bonanno L; Department of Surgery, Oncology, Gastroenterology, University of Padova, Padua, Italy.
Sci Rep ; 14(1): 18545, 2024 08 09.
Article en En | MEDLINE | ID: mdl-39122833
ABSTRACT
Liquid biopsy has recently emerged as an important tool in clinical practice particularly for lung cancer patients. We retrospectively evaluated cell-free DNA analyses performed at our Institution by next generation sequencing methodology detecting the major classes of genetic alterations. Starting from the graphical representation of chromosomal alterations provided by the analysis software, we developed a support vector machine classifier to automatically classify chromosomal profiles as stable (SCP) or unstable (UCP). High concordance was found between our binary classification and tumor fraction evaluation performed using shallow whole genome sequencing. Among clinical features, UCP patients were more likely to have ≥ 3 metastatic sites and liver metastases. Longitudinal assessment of chromosomal profiles in 33 patients with lung cancer receiving immune checkpoint inhibitors (ICIs) showed that only patients that experienced early death or hyperprogressive disease retained or acquired an UCP within 3 weeks from the beginning of ICIs. UCP was not observed following ICIs among patients that experienced progressive disease or clinical benefit. In conclusion, our binary classification, applied to whole copy number alteration profiles, could be useful for clinical risk stratification during systemic treatment for non-small cell lung cancer patients.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Carcinoma de Pulmón de Células no Pequeñas / Variaciones en el Número de Copia de ADN / Neoplasias Pulmonares Límite: Aged / Aged80 / Female / Humans / Male / Middle aged Idioma: En Revista: Sci Rep Año: 2024 Tipo del documento: Article País de afiliación: Italia

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Carcinoma de Pulmón de Células no Pequeñas / Variaciones en el Número de Copia de ADN / Neoplasias Pulmonares Límite: Aged / Aged80 / Female / Humans / Male / Middle aged Idioma: En Revista: Sci Rep Año: 2024 Tipo del documento: Article País de afiliación: Italia