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Relevant bibliographies by topics / Fragmentomics

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Academic literature on the topic 'Fragmentomics'

Author: Grafiati

Published: 2 June 2025

Last updated: 31 July 2025

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Journal articles on the topic "Fragmentomics"

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Kohabir, Kavish, Rob Wolthuis, and Erik A. Sistermans. "Fragmentomic cfDNA Patterns in Noninvasive Prenatal Testing and Beyond." Journal of Biomedicine and Translational Research 7, no. 1 (2021): 38–47. http://dx.doi.org/10.14710/jbtr.v7i1.10229.

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The release of fetoplacental cell-free DNA (cfDNA) into the maternal bloodstream opened up new avenues towards noninvasive prenatal testing (NIPT) for aneuploidies, hereditary DNA mutations and other pregnancy-related developmental disorders. Increasingly, cfDNA catches interest for its noninvasive screening value in other areas as well, including oncology. Although there are indications that cfDNA fragmentation is a non-random process, the etiology and different structural aspects of cfDNA are still not well known. The emerging field of cfDNA fragmentomics investigates the existence of tissue

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Ding, Spencer C., and Y. M. Dennis Lo. "Cell-Free DNA Fragmentomics in Liquid Biopsy." Diagnostics 12, no. 4 (2022): 978. http://dx.doi.org/10.3390/diagnostics12040978.

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Cell-free DNA (cfDNA) in bodily fluids has rapidly transformed the development of noninvasive prenatal testing, cancer liquid biopsy, and transplantation monitoring. Plasma cfDNA consists of a mixture of molecules originating from various bodily tissues. The study of the fragmentation patterns of cfDNA, also referred to as ‘fragmentomics’, is now an actively pursued area of biomarker research. Clues that cfDNA fragmentation patterns might carry information concerning the tissue of origin of cfDNA molecules have come from works demonstrating that circulating fetal, tumor-derived, and transplant

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Yang, Yin, Tao Zhang, Jingbo Wang, et al. "Abstract 5400: Predicting disease progression in inoperable localized NSCLC patients using cfDNA fragmentomics assay." Cancer Research 83, no. 7_Supplement (2023): 5400. http://dx.doi.org/10.1158/1538-7445.am2023-5400.

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Abstract Background: There is an urgent clinical need to accurately predict the risk for disease progression in post-treatment NSCLC patients. However, the current ctDNA mutation profiling approaches were limited by low sensitivity, while the cfDNA fragmentomics profiling has shown an excellent capability for cancer early detection in NSCLC and therefore exhibits great potential for predicting disease progression. In this retrospective study, we aim to develop a non-invasive liquid biopsy assay utilizing cfDNA fragmentomics profiling for predicting disease progression in inoperable localized N

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Zhao, Huan, Shuang Gan, Hang Dong, et al. "Use of urinary cell-free DNA fragmentomics in urothelial carcinoma diagnosis." Journal of Clinical Oncology 43, no. 5_suppl (2025): 846. https://doi.org/10.1200/jco.2025.43.5_suppl.846.

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846 Background: Traditional diagnostic procedures for urothelial carcinoma (UC) are often limited by patient burden and reduced sensitivity, impacting diagnostic accuracy. Liquid biopsy-based molecular detection, particularly through fragmentomics analysis, offers a promising supplement to clinical applications. Fragmentomics, which examines the unique fragmentation patterns of tumor DNA, can provide crucial insights into tumor origin and behavior. This study aims to leverage urinary cell-free DNA (ucfDNA) fragmentomics patterns to enhance the diagnostic capabilities for urothelial carcinoma.

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Cobb, Meagan S., Philippe Jolivet, Kristen N. Ganjoo, Deirdre A. Lum, Matt van de Rijn, and Joanna Przybyl. "Abstract 3678: Liquid biopsy fragmentomics approach for the diagnosis of uterine tumors." Cancer Research 85, no. 8_Supplement_1 (2025): 3678. https://doi.org/10.1158/1538-7445.am2025-3678.

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Abstract Background: Leiomyomas (LM), also known as fibroids, are common benign tumors of the smooth muscle of the uterus that can cause pain, infertility, and abnormal menstrual bleeding. Diagnosing LM is challenging using clinical indications alone, as they share symptoms with leiomyosarcoma (LMS), a rare, aggressive uterine malignancy with a ∼50% disease-specific survival. Pre-operative distinction between LM and LMS is difficult because these tumors are rarely biopsied before surgery. We hypothesize that a non-invasive circulating tumor DNA (ctDNA) test based on LMS- and LM-specific molecu

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Pan, Alex C., Russell Taylor Sundby, Jeffrey J. Szymanski, et al. "Abstract 997: Cell-free DNA fragmentomics distinguish between benign, pre-malignant and malignant peripheral nerve sheath tumors in neurofibromatosis type 1." Cancer Research 83, no. 7_Supplement (2023): 997. http://dx.doi.org/10.1158/1538-7445.am2023-997.

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Abstract Background: Malignant peripheral nerve sheath tumors (MPNST) are aggressive soft tissue sarcomas that, in the setting of neurofibromatosis type 1 (NF1), arise within pre-malignant atypical neurofibroma (AN) and benign plexiform neurofibroma (PN). Early surgical resection improves prognosis, however, early detection by imaging and tissue biopsies is challenging due to tissue heterogeneity. In this multi-institutional study we analyze fragmentomic profiles of plasma cell free DNA (cfDNA) to non-invasively distinguish between NF1 associated PN, AN and MPNST. Accurate classification would

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Qi, Ting, Min Pan, Huajuan Shi, Liangying Wang, Yunfei Bai, and Qinyu Ge. "Cell-Free DNA Fragmentomics: The Novel Promising Biomarker." International Journal of Molecular Sciences 24, no. 2 (2023): 1503. http://dx.doi.org/10.3390/ijms24021503.

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Cell-free DNA molecules are released into the plasma via apoptotic or necrotic events and active release mechanisms, which carry the genetic and epigenetic information of its origin tissues. However, cfDNA is the mixture of various cell fragments, and the efficient enrichment of cfDNA fragments with diagnostic value remains a great challenge for application in the clinical setting. Evidence from recent years shows that cfDNA fragmentomics’ characteristics differ in normal and diseased individuals without the need to distinguish the source of the cfDNA fragments, which makes it a promising nove

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Zamyatnin, A. A. "Fragmentomics of natural peptide structures." Biochemistry (Moscow) 74, no. 13 (2009): 1575–85. http://dx.doi.org/10.1134/s0006297909130100.

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Wang, Mengchi, Jin Mo Ahn, Junnam Lee, et al. "Abstract 4928: REFINE Method: Novel strategy for signal enhancement." Cancer Research 84, no. 6_Supplement (2024): 4928. http://dx.doi.org/10.1158/1538-7445.am2024-4928.

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Abstract Fragmentomics has emerged as a powerful tool in the detection of early cancer malignancies. One of the challenges for fragmentomics is the low signal to noise ratio in early stage cancer samples. Fragmentomic sequencing data is also inherently noisy and susceptible to batch effects. Common strategies to address these challenges include using normalization methods, such as frequency or Z-score normalization, to scale data. However, these existing methods struggle to differentiate true signals from noise and are susceptible to experimental bias. To address the need for a strategy that r

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Zamyatnin, A. A. "Fragmentomics of proteins and natural oligopeptides." Biophysics 53, no. 5 (2008): 329–35. http://dx.doi.org/10.1134/s0006350908050011.

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Conference papers on the topic "Fragmentomics"

1

Mazzone, P. J., K. K. Wong, J. J. Tsay, et al. "Prospective Evaluation of cfDNA Fragmentomes for Lung Cancer Detection." In American Thoracic Society 2023 International Conference, May 19-24, 2023 - Washington, DC. American Thoracic Society, 2023. http://dx.doi.org/10.1164/ajrccm-conference.2023.207.1_meetingabstracts.a5975.

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Alipanahi, Bahar, Lavanya Sivapalan, Jamie E. Medina, et al. "34 Monitoring response to immunotherapy in lung cancer using cell-free DNA fragmentomes." In SITC 39th Annual Meeting (SITC 2024) Abstracts. BMJ Publishing Group Ltd, 2024. http://dx.doi.org/10.1136/jitc-2024-sitc2024.0034.

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