Improved risk stratification of nasopharyngeal cancer by targeted sequencing of Epstein–Barr virus DNA in post-treatment plasma

Chan, D.C.T.; Lam, Wah‐Kit; Hui, Edwin P.; Ma, Brigette; Chan, Charles Ming Lok; Lee, Vicky C.T.; Cheng, Suk Hang; Gai, Wanxia; Jiang, Peiyong; Wong, Kenneth C.W.; Mo, Frankie; Zee, Benny; King, Ann D.; Le, Quynh‐Thu; Chan, Anthony Tak Cheung; Chan, Ka‐Kui; Lo, Y.M. Dennis

doi:10.1016/j.annonc.2022.04.068

Cited by 19 publications

(17 citation statements)

References 33 publications

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“…Nasopharyngeal carcinoma is a malignant tumor closely related to genetic predispositions, epstein-Barr virus infection, occupational hazards, and environmental factors (11,12). The incidence of NPC is regionally significant, with most occurring in Southeast Asia (13).…”

Section: Discussionmentioning

confidence: 99%

High proportion of Circulating CD8+CD28- senescent T cell in an independent predictor of distant metastasis in Nasopharyngeal Cancer after radiotherapy

Wei

Xiao

et al. 2022

Preprint

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Background: Nasopharyngeal Cancer is a kind of epithelial carcinoma, and common in east and southeast Asia. Distant metastasis after radiotherapy remains the main cause of treatment failure and immune system function. Methods: To explore the immune-related prognostic factors, in our study we explored the immune cells in peripheral blood from total 332 nasopharyngeal carcinoma patients, in these immune cells, we include the CD8+CD28− T cells which is a unique T cells immunosenescent subset increased in human peripheral blood with increasing age and declining immune function. We first divided our cohort into training and validation cohort, and utilized flow cytometry to investigate the immune cells in peripheral blood of patients with nasopharyngeal carcinoma. Based on the results and clinical information, we utilized Cox regression and LASSO regression model to screen the PFS and DMFS prognostic factors in training cohort and used validation cohort to verify the results. Results: Based on the prognostic factors we built nomograms to predict PFS and DMFS after radiotherapy and validated. Post treated EBV and the proportion of CD8+CD28-T cells were selected to predict PFS. Post treated EBV, the proportion of CD8+CD28-T cells and N stage were selected to predict DMFS. We also explored the expression in the different stage and the correlation between the proportion of CD8+CD28-T cells and systemic inflammation, post-treated immunosuppression. Conclusion: All nomograms model we build have good predictive value. Proportion of CD8+CD28-T cells is a candidate prognostic biomarker for nasopharyngeal carcinoma.

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Section: Discussionmentioning

confidence: 99%

High proportion of Circulating CD8+CD28- senescent T cell in an independent predictor of distant metastasis in Nasopharyngeal Cancer after radiotherapy

Wei

Xiao

et al. 2022

Preprint

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“…Furthermore, the longitudinal analysis of ctDNA may be extended after completion of treatment and may also serve as a means of detecting postsurgical minimal residual disease (MRD) in patients with clinically undetectable disease. Several groups have explored using postoperative ctDNA to identify patients with MRD and continued to optimize technologies [79,129,130] . A fraction of malignancies is associated with human viral infection.…”

Section: Liquid Biopsy In Cancermentioning

confidence: 99%

Expanded knowledge of cell-free DNA biology: potential to broaden the clinical utility

Che¹,

Stanley²,

Jatsenko³

et al. 2022

Extracell Vesicles Circ Nucleic Acids

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Noninvasive sampling of an individual’s body fluids is an easy means to capture circulating cell-free DNA (cfDNA). These small fragments of DNA carry information on the contributing cell’s genome, epigenome, and nuclease content. Analysis of cfDNA for the assessment of genetic risk has already revolutionized clinical practice, and a compendium of increasingly higher-resolution approaches based on epigenetic and fragmentomic cfDNA signatures continues to expand. Profiling cfDNA has unlocked a wealth of molecular information that can be translated to the clinic. This review covers the biological characteristics of cfDNA, recent advances in liquid biopsy and the clinical utility of cfDNA.

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“…Esfahani et al recently demonstrated that using the size variability of the cfDNA fragments surrounding the transcription start sites (TSS) helped predict the expression levels of genes [22] . The transcriptionally active regions tended to have decreased nucleosome occupancies, conferring more random cleavages and higher DNA fragment length variability.…”

Section: Short Cfdna Moleculesmentioning

confidence: 99%

“…PFE was found to be strongly correlated with RNA expression levels. To further evaluate the clinical utility of PFE, Esfahani et al used targeted deep sequencing of selected biomarker gene promoters that had tumorspecific RNA expression profiles, called "epigenetic expression inference from cell-free DNA-sequencing" (EPIC-seq) [22] . This method could distinguish lung carcinoma subtypes, with the area under the receiver operating characteristic curve (AUC) values of 0.91 and 0.83 in the training and validation datasets, respectively, for distinguishing individuals with non-small cell lung cancer from controls.…”

Section: Short Cfdna Moleculesmentioning

confidence: 99%

“…Notably, 90% of the patients were detected at the late stage of cancer (stage III or IV) for PFE-based EPICseq data analysis. Moreover, many recent studies have demonstrated that fragmentation patterns could serve as biomarkers for predicting treatment outcomes, such as recurrences of nasopharyngeal carcinoma (NPC) [23] , treatment outcomes of diffuse large B-cell lymphoma (DLBCL) [24] , and response to immunotherapy [22] .…”

Section: Short Cfdna Moleculesmentioning

confidence: 99%

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Emerging frontiers of cell-free DNA fragmentomics

2022

Extracell Vesicles Circ Nucleic Acids

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Analysis of cell-free DNA (cfDNA) in the blood has shown promise for monitoring a variety of biological processes. Plasma cfDNA is a mixture comprising DNA molecules released from various bodily tissues, mediated by characteristic DNA fragmentations occurring during cell death. Fragmentation of cfDNA is non-random and contains tissue-of-origin information, which has been demonstrated in circulating fetal, tumoral, and transplanted organ-derived cfDNA molecules. Many studies have elucidated a plurality of fragmentomic markers for noninvasive prenatal, cancer, and organ transplantation assessment, such as fragment sizes, fragment ends, end motifs, and nucleosome footprints. Recently, researchers have further revealed the large population of previously unidentified long cfDNA molecules (kilobases in size) in the plasma DNA pool. This review focuses on the emerging biological properties of cfDNA, together with a discussion on its potential clinical implications.

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Improved risk stratification of nasopharyngeal cancer by targeted sequencing of Epstein–Barr virus DNA in post-treatment plasma

Cited by 19 publications

References 33 publications

High proportion of Circulating CD8+CD28- senescent T cell in an independent predictor of distant metastasis in Nasopharyngeal Cancer after radiotherapy

High proportion of Circulating CD8+CD28- senescent T cell in an independent predictor of distant metastasis in Nasopharyngeal Cancer after radiotherapy

Expanded knowledge of cell-free DNA biology: potential to broaden the clinical utility

Emerging frontiers of cell-free DNA fragmentomics

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