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Keywords = cfHPV-DNA

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13 pages, 712 KB  
Review
Liquid Biopsy Biomarkers for Cervical Cancer: A Systematic Review
by Jesús Alejandro Pineda-Migranas, Juan Carlos Bravata-Alcántara, Iliana Alejandra Cortés-Ortíz, Enoc Mariano Cortés-Malagón, María de los Ángeles Romero-Tlalolini, Mónica Sierra-Martínez and Gustavo Acosta-Altamirano
Int. J. Mol. Sci. 2025, 26(21), 10503; https://doi.org/10.3390/ijms262110503 - 29 Oct 2025
Cited by 1 | Viewed by 1428
Abstract
Cervical cancer remains a significant public health priority, particularly in low- and middle-income countries. In this context, liquid biopsy has emerged as a minimally invasive method for detecting and monitoring molecular biomarkers, offering advantages over traditional screening approaches. This systematic review included 21 [...] Read more.
Cervical cancer remains a significant public health priority, particularly in low- and middle-income countries. In this context, liquid biopsy has emerged as a minimally invasive method for detecting and monitoring molecular biomarkers, offering advantages over traditional screening approaches. This systematic review included 21 studies published between 2015 and 2025 and was conducted in accordance with the PRISMA 2020 statement. The analysis examined the role of serum cytokines, circulating microRNAs (miRNAs), and circulating cell-free HPV DNA (cfHPV-DNA) in patients with cervical cancer or high-grade intraepithelial lesions. Circulating miRNAs—particularly miR-21, miR-29a, and miR-34a—are consistently associated with recurrence, tumor progression, and reduced survival. However, their immediate clinical translation remains limited by methodological variability and the lack of universal normalizers. In contrast, cfHPV-DNA, especially with ddPCR, exhibited the best study-level performance, with a specificity of 100% and a sensitivity of approximately 80–88%, across heterogeneous endpoints and analytic conditions. Consequently, cfHPV-DNA represents a promising tool for post-treatment surveillance and early detection of recurrence. Serum cytokines, such as TNF-α, IL-6, and IL-10, reflect inflammation and the tumor microenvironment. Nevertheless, their lack of standardization and variability across detection platforms restricts their reproducibility, positioning them as complementary rather than stand-alone markers. In conclusion, the evidence supports liquid biopsy as a promising tool in cervical cancer management; nonetheless, only cfHPV-DNA is currently ready for clinical application, whereas miRNAs and cytokines require multicenter validation and technical standardization before implementation. Full article
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14 pages, 2722 KB  
Article
Analytical Validation of NavDx+Gyn, a cfDNA-Based Fragmentomic Profiling Assay for HPV-Driven Gynecologic Cancers
by Joshua Hutcheson, David Conway, Sunil Kumar, Chloe Wiseman, Syandan Chakraborty, Evgeny Skrypkin, Michael Horan, Alicia Gunning, Cassin Kimmel Williams, Charlotte Kuperwasser, Stephen P. Naber and Piyush B. Gupta
Diagnostics 2025, 15(7), 825; https://doi.org/10.3390/diagnostics15070825 - 25 Mar 2025
Cited by 1 | Viewed by 2758
Abstract
Background/Objectives: The NavDx+Gyn blood test detects and quantifies fourteen HPV types in various sample types to provide a reliable means of detecting and monitoring HPV-driven gynecologic cancers. NavDx+Gyn is an extension of the NavDx assay, which identifies five high-risk HPV types. NavDx [...] Read more.
Background/Objectives: The NavDx+Gyn blood test detects and quantifies fourteen HPV types in various sample types to provide a reliable means of detecting and monitoring HPV-driven gynecologic cancers. NavDx+Gyn is an extension of the NavDx assay, which identifies five high-risk HPV types. NavDx has been clinically validated in multiple independent studies for the surveillance of HPV-driven oropharyngeal cancer and has been integrated into clinical practice by over 1300 healthcare providers at over 500 medical sites in the US. The NavDx+Gyn assay incorporates an analysis of nine additional high-risk HPV types. Here, we report a detailed analytical validation of the NavDx+Gyn assay for use in cervical, vaginal, and vulvar cancer patients to detect fourteen high-risk HPV types related to HPV-driven gynecologic cancers. Methods: Parameters include specificity as measured by limits of blank (LoBs) and sensitivity illustrated via limits of detection and quantitation (LoDs and LoQs). Results: The LoBs were between 0 and 0.0926 copies/μL, LoDs were 0.1009 to 0.3147 copies/μL, and LoQs were 0.1009 to 0.3147 copies/μL, demonstrating the high analytic sensitivity and specificity provided by NavDx+Gyn. In-depth evaluations, including accuracy and intra- and inter-assay precision studies, were shown to be within acceptable ranges. Regression analysis revealed a high degree of correlation between expected and effective concentrations, demonstrating excellent linearity (R2 > 0.99) across a broad range of analyte concentrations. Conclusions: These results demonstrate that NavDx+Gyn accurately and reproducibly detects fourteen types of high-risk HPV, which aids in the diagnosis and surveillance of the vast majority of HPV-driven gynecologic cancers. Full article
(This article belongs to the Special Issue Advances in the Diagnosis and Management of Gynecological Oncology)
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15 pages, 2419 KB  
Article
The Role of cf-HPV DNA as an Innovative Biomarker for Predicting the Recurrence or Persistence of Cervical Cancer
by Márcia Poinho, Laura L. M. S. Dias, Layane S. Pinheiro, Flávia Níniver O. Gomes, Heidy H. M. F. Rondon, Mikele P. de Oliveira, Jhonnatan S. Souza, Higino F. Figueiredo, Daniel L. Lira, José E. Levi, Valquíria C. A. Martins and Kátia L. Torres
Viruses 2025, 17(3), 409; https://doi.org/10.3390/v17030409 - 13 Mar 2025
Cited by 3 | Viewed by 2582
Abstract
Background: Cervical cancer is highly prevalent among women in Amazonas, Brazil, mainly due to low screening coverage, and is diagnosed at a late stage, which compromises the treatment efficacy and survival rates. After treatment, recurrence is frequent, and there are few follow-up options [...] Read more.
Background: Cervical cancer is highly prevalent among women in Amazonas, Brazil, mainly due to low screening coverage, and is diagnosed at a late stage, which compromises the treatment efficacy and survival rates. After treatment, recurrence is frequent, and there are few follow-up options to detect it. This highlights the urgent need for less-invasive biomarkers to monitor affected patients. Methods: This study employed real-time PCR, targeting the E7 gene of HPV types 16 and 18 to analyze cell-free DNA from plasma samples from 39 cervical cancer patients treated at the Oncology Control Center Foundation in Amazonas, Brazil. Results: cf-HPV 16 DNA was detected in 54% of the samples before treatment. The socioeconomic and behavioral data showed that 46.2% of the patients had low educational levels, 77% reported having a low income, 79.5% experienced an early sexual activity onset, and 15.4% had never undergone cytological screening. Persistence or recurrence occurred in 30.8% of cases over 4–33 months of follow-up, with cf-HPV DNA detectable in 75% of these cases. Conclusions: cf-HPV DNA in plasma is a promising biomarker for post-treatment surveillance, facilitating the earlier detection of persistence/recurrence. Incorporating this biomarker into clinical protocols could enhance outcomes and survival, particularly in underserved regions like the Amazon, where the access to healthcare is limited. Full article
(This article belongs to the Special Issue HPV-Associated Cancers)
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14 pages, 1210 KB  
Article
Analytical Validation of NavDx, a cfDNA-Based Fragmentomic Profiling Assay for HPV-Driven Cancers
by Alicia Gunning, Sunil Kumar, Cassin Kimmel Williams, Barry M. Berger, Stephen P. Naber, Piyush B. Gupta, Catherine Del Vecchio Fitz and Charlotte Kuperwasser
Diagnostics 2023, 13(4), 725; https://doi.org/10.3390/diagnostics13040725 - 14 Feb 2023
Cited by 38 | Viewed by 8635
Abstract
The NavDx® blood test analyzes tumor tissue modified viral (TTMV)-HPV DNA to provide a reliable means of detecting and monitoring HPV-driven cancers. The test has been clinically validated in a large number of independent studies and has been integrated into clinical practice [...] Read more.
The NavDx® blood test analyzes tumor tissue modified viral (TTMV)-HPV DNA to provide a reliable means of detecting and monitoring HPV-driven cancers. The test has been clinically validated in a large number of independent studies and has been integrated into clinical practice by over 1000 healthcare providers at over 400 medical sites in the US. This Clinical Laboratory Improvement Amendments (CLIA), high complexity laboratory developed test, has also been accredited by the College of American Pathologists (CAP) and the New York State Department of Health. Here, we report a detailed analytical validation of the NavDx assay, including sample stability, specificity as measured by limits of blank (LOBs), and sensitivity illustrated via limits of detection and quantitation (LODs and LOQs). LOBs were 0–0.32 copies/μL, LODs were 0–1.10 copies/μL, and LOQs were <1.20–4.11 copies/μL, demonstrating the high sensitivity and specificity of data provided by NavDx. In-depth evaluations including accuracy and intra- and inter-assay precision studies were shown to be well within acceptable ranges. Regression analysis revealed a high degree of correlation between expected and effective concentrations, demonstrating excellent linearity (R2 = 1) across a broad range of analyte concentrations. These results demonstrate that NavDx accurately and reproducibly detects circulating TTMV-HPV DNA, which has been shown to aid in the diagnosis and surveillance of HPV-driven cancers. Full article
(This article belongs to the Section Pathology and Molecular Diagnostics)
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11 pages, 812 KB  
Article
Combined Liquid Biopsy Methylation Analysis of CADM1 and MAL in Cervical Cancer Patients
by Markus Leffers, Johanna Herbst, Jolanthe Kropidlowski, Katharina Prieske, Anna Lena Bohnen, Sven Peine, Anna Jaeger, Leticia Oliveira-Ferrer, Yvonne Goy, Barbara Schmalfeldt, Klaus Pantel, Linn Wölber, Katharina Effenberger and Harriet Wikman
Cancers 2022, 14(16), 3954; https://doi.org/10.3390/cancers14163954 - 16 Aug 2022
Cited by 21 | Viewed by 4666
Abstract
Cervical cancer is the fourth most common cancer in women, which is associated in >95% with a high-risk human papillomavirus (HPV) infection. Methylation of specific genes has been closely associated with the progress of cervical high-grade dysplastic lesions to invasive carcinomas. Therefore, DNA [...] Read more.
Cervical cancer is the fourth most common cancer in women, which is associated in >95% with a high-risk human papillomavirus (HPV) infection. Methylation of specific genes has been closely associated with the progress of cervical high-grade dysplastic lesions to invasive carcinomas. Therefore, DNA methylation has been proposed as a triage for women infected with high-risk HPV. Methylation analyses of cervical cancer tissue have shown that cell adhesion molecule 1 (CADM1) and myelin and lymphocyte protein (MAL) methylation are present in over 90% of all cervical high-grade neoplasias and invasive cervical cancers. Here, we established a liquid biopsy-based assay to detect MAL and CADM1 methylation in cell free (cf)DNA of cervical cancer. Methylation of the target gene was validated on bisulfite converted smear-DNA from cervical dysplasia patients and afterward applied to cfDNA using quantitative real-time PCR. In 52 smears, a combined analysis of CADM1 and/or MAL (CADM1/MAL) showed methylation in 86.5% of the cases. In cfDNA samples of 24 cervical cancer patients, CADM1/MAL methylation was detected in 83.3% of the cases. CADM1/MAL methylation was detected already in 81.8% of stage I-II patients showing the high sensitivity of this liquid biopsy assay. In combination with a specificity of 95.5% towards healthy donors (HD) and an area under the curve (AUC) of 0.872 in the receiver operating characteristic (ROC) analysis, CADM1/MAL cfDNA methylation detection might represent a novel and promising liquid biopsy marker in cervical cancer. Full article
(This article belongs to the Special Issue Therapies in Cervical Cancer)
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17 pages, 1133 KB  
Review
Circulating Virus–Host Chimera DNAs in the Clinical Monitoring of Virus-Related Cancers
by Chiao-Ling Li, Shiou-Hwei Yeh and Pei-Jer Chen
Cancers 2022, 14(10), 2531; https://doi.org/10.3390/cancers14102531 - 20 May 2022
Cited by 6 | Viewed by 3660
Abstract
The idea of using tumor-specific cell-free DNA (ctDNA) as a tumor biomarker has been widely tested and validated in various types of human cancers and different clinical settings. ctDNA can reflect the presence or size of tumors in a real-time manner and can [...] Read more.
The idea of using tumor-specific cell-free DNA (ctDNA) as a tumor biomarker has been widely tested and validated in various types of human cancers and different clinical settings. ctDNA can reflect the presence or size of tumors in a real-time manner and can enable longitudinal monitoring with minimal invasiveness, allowing it to be applied in treatment response assessment and recurrence monitoring for cancer therapies. However, tumor detection by ctDNA remains a great challenge due to the difficulty in enriching ctDNA from a large amount of homologous non-tumor cell-free DNA (cfDNA). Only ctDNA with nonhuman sequences (or rearrangements) can be selected from the background of cfDNA from nontumor DNAs. This is possible for several virus-related cancers, such as hepatitis B virus (HBV)-related HCC or human papillomavirus (HPV)-related cervical or head and neck cancers, which frequently harbor randomly integrated viral DNA. The junction fragments of the integrations, namely virus–host chimera DNA (vh-DNA), can represent the signatures of individual tumors and are released into the blood. Such ctDNA can be enriched by capture with virus-specific probes and therefore exploited as a circulating biomarker to track virus-related cancers in clinical settings. Here, we review virus integrations in virus-related cancers to evaluate the feasibility of vh-DNA as a cell-free tumor marker and update studies on the development of detection and applications. vh-DNA may be a solution to the development of specific markers to manage virus-related cancers in the future. Full article
(This article belongs to the Special Issue Clinical Perspective and Translational Oncology of Liquid Biopsy)
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18 pages, 3929 KB  
Article
Cell-Free HPV-DNA as a Biomarker for Oropharyngeal Squamous Cell Carcinoma—A Step Towards Personalized Medicine?
by Nora Wuerdemann, Rishabh Jain, Anne Adams, Ernst-Jan M. Speel, Steffen Wagner, Simon A. Joosse and Jens P. Klussmann
Cancers 2020, 12(10), 2997; https://doi.org/10.3390/cancers12102997 - 15 Oct 2020
Cited by 42 | Viewed by 7453
Abstract
Global incidences of oropharyngeal squamous cell carcinoma (OPSCC) are rising due to an association with high-risk human papillomavirus (HPV). Although there is an improved overall survival of HPV-related OPSCC; up to 25% of the patients develop recurrent or distant metastatic disease with a [...] Read more.
Global incidences of oropharyngeal squamous cell carcinoma (OPSCC) are rising due to an association with high-risk human papillomavirus (HPV). Although there is an improved overall survival of HPV-related OPSCC; up to 25% of the patients develop recurrent or distant metastatic disease with a fatal outcomes. Biomarkers to monitor this disease are not established. This meta-analysis reviews the role of cell-free HPV DNA in liquid biopsy (LB) as a biomarker for HPV-related OPSCC. Pubmed, Livivo, and Cochrane Library databases were searched from inception to August, 2020. All studies were analyzed by Meta-DiSc 1.4 and Stata 16.0 statistical software. In total, 16 studies were considered for systematic review, whereas 11 studies met inclusion criteria for meta-analysis, respectively. Pooled sensitivity of cfHPV-DNA at first diagnosis and during follow-up was 0.81 (95% CI; 0.78–0.84) and 0.73 (95% CI; 0.57–0.86), while pooled specificity was 0.98 (95% CI; 0.96–0.99) and 1 (95% CI; 0.99–1). The diagnostic odds ratio (DOR) at first diagnosis was 200.60 (95% CI; 93.31–431.22) and 300.31 (95% CI; 60.94–1479.88) during follow-up. The area under the curve (AUC) of summary receiver operating characteristic (SROC) was 0.99 at first diagnosis and 1.00 during follow-up, respectively. In conclusion, cfHPV-DNA presents a potential biomarker with high specificity in patients with HPV-related OPSCC. Full article
(This article belongs to the Special Issue Advances in Head and Neck Squamous Cell Carcinoma (HNSCC))
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