{"doi":"10.1038/s41598-024-68229-6","title":"Binary classification of copy number alteration profiles in liquid biopsy with potential clinical impact in advanced NSCLC","abstract":null,"journal":"Scientific Reports","year":2024,"id":640819,"datarank":0.20794415416798362,"base_score":1.3862943611198906,"endowment":1.3862943611198906,"self_citation_contribution":0.20794415416798362,"citation_network_contribution":0.0,"self_endowment_contribution":0.20794415416798362,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":3,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1237818,"name":"Angela Grassi","orcid":"0000-0002-9955-5780","position":1,"is_corresponding":false},{"id":338278,"name":"Dominic Rose","orcid":null,"position":2,"is_corresponding":false},{"id":1665667,"name":"Loc Carlo Bao","orcid":null,"position":3,"is_corresponding":false},{"id":1665668,"name":"Elisabetta Zulato","orcid":null,"position":4,"is_corresponding":false},{"id":1665669,"name":"Chiara Dalle Fratte","orcid":null,"position":5,"is_corresponding":false},{"id":354490,"name":"Maurizio Polano","orcid":"0000-0002-6101-1382","position":6,"is_corresponding":false},{"id":288276,"name":"Paola Del Bianco","orcid":"0000-0002-6597-0265","position":7,"is_corresponding":false},{"id":1604753,"name":"Giulia Pasello","orcid":null,"position":8,"is_corresponding":false},{"id":303773,"name":"Valentina Guarneri","orcid":"0000-0002-2375-8397","position":9,"is_corresponding":false},{"id":267440,"name":"Stefano Indraccolo","orcid":"0000-0002-4810-7136","position":10,"is_corresponding":false},{"id":1604752,"name":"Laura Bonanno","orcid":null,"position":11,"is_corresponding":false},{"id":1665666,"name":"Valeria Tosello","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Binary classification of copy number alteration profiles in liquid biopsy with potential clinical impact in advanced NSCLC","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.","is_dataset_classified":null,"base_score":1.3862943611198906,"endowment":1.3862943611198906,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"39122833","pmcid":"PMC11316016","openalex_id":"https://openalex.org/W4401451185","authors":[],"funders":[{"funder_name":"Istituto Oncologico Veneto","grant_id":"2017-5x1000 (MAGIC-2)","title":null},{"funder_name":"Ministero della Salute","grant_id":"Ricerca corrente 2024","title":null}],"total_grants":2,"fwci":0.5445,"citation_percentile":0.63400348,"influential_citations":0,"citation_trend":[{"year":2025,"count":2},{"year":2026,"count":1}],"oa_status":"gold","license":"cc-by-nc-nd","oa_locations":[{"url":"https://doi.org/10.1038/s41598-024-68229-6","host_type":"journal"},{"url":"https://doi.org/10.1038/s41598-024-68229-6","host_type":"publisher"},{"url":"https://www.nature.com/articles/s41598-024-68229-6.pdf","host_type":"publisher"},{"url":"https://www.nature.com/articles/s41598-024-68229-6","host_type":"publisher"},{"url":"https://pubmed.ncbi.nlm.nih.gov/39122833","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11316016","host_type":"repository"},{"url":"https://hdl.handle.net/11577/3523183","host_type":"repository"},{"url":"https://doaj.org/article/aafccb68c79c428c82556566c94013f3","host_type":"repository"},{"url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11316016/pdf/41598_2024_Article_68229.pdf","host_type":"repository"},{"url":"https://www.research.unipd.it/bitstream/11577/3523183/2/s41598-024-68229-6.pdf","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC11316016","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC11316016?pdf=render","host_type":"Europe_PMC"}],"fields_of_study":["Cancer Genomics and Diagnostics","Lung Cancer Treatments and Mutations","Genetic factors in colorectal cancer","Humans","Carcinoma, Non-Small-Cell Lung","DNA Copy Number Variations","Lung Neoplasms","Male","Female","Liquid Biopsy","Aged","Middle Aged","Retrospective Studies","High-Throughput Nucleotide Sequencing","Immune Checkpoint Inhibitors","Aged, 80 and over","Support Vector Machine"],"mesh_terms":["Liquid Biopsy","Immune Checkpoint Inhibitors","Aged","Aged, 80 and over","Carcinoma, Non-Small-Cell Lung","Female","Humans","Lung Neoplasms","Male","Middle Aged","Retrospective Studies","DNA Copy Number Variations","High-Throughput Nucleotide Sequencing","Support Vector Machine"],"keywords":["Concordance","Lung cancer","Biopsy","Liquid biopsy","Medicine","Oncology","Internal medicine","Cancer","Bioinformatics","Pathology","Biology","Immunotherapy","Machine Learning","Copy Number Alterations","Tumor Fraction"],"sdg_mappings":[],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-08-07T14:07:02.779662Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}