Noninvasive fetal genotyping using deep neural networks.

Authors: Schwammenthal, Yonathan^1,2 (AUTHOR), Rabinowitz, Tom^1,3,4 (AUTHOR), Basel-Salmon, Lina^1,5,6 (AUTHOR), Tomashov-Matar, Reut⁵ (AUTHOR), Shomron, Noam^1,3,4 (AUTHOR)

Source: Briefings in Bioinformatics. Jan2025, Vol. 26 Issue 1, p1-9. 9p.

Subject Terms: *Artificial neural networks, *Medical personnel, Cell-free DNA, Chromosome abnormalities, Whole genome sequencing

pH-responsive cationic polymer-functionalized poly-ε-caprolactone microspheres scavenge cell-free-DNA to alleviate intestinal ischemia/reperfusion injury by inhibiting M1 macrophage polarization.

Authors: Xie, Hanbin¹ (AUTHOR), Wei, Cong² (AUTHOR), Xiong, Chang¹ (AUTHOR), Huang, Ziyan³ (AUTHOR), Chen, Chaojin¹ (AUTHOR), Xiao, Xue¹ (AUTHOR), Zhang, Linan¹ (AUTHOR), Lin, Zhenjia¹ (AUTHOR), Yao, Weifeng¹ (AUTHOR) yaowf3@mail.sysu.edu.cn, Zhao, Tianyu² (AUTHOR) zhaoty25@mail.sysu.edu.cn, Hei, Ziqing^1,4 (AUTHOR) heizq@mail.sysu.edu.cn

Source: Journal of Nanobiotechnology. 2/28/2025, Vol. 23 Issue 1, p1-20. 20p.

Subject Terms: *INTESTINAL ischemia, *CELL-free DNA, *CATIONIC polymers, *REPERFUSION injury, *INTRAPERITONEAL injections

Genomic alterations and transcriptional phenotypes in circulating free DNA and matched metastatic tumor.

Authors: Takahashi, Nobuyuki^1,2 (AUTHOR), Pongor, Lorinc¹ (AUTHOR), Agrawal, Shivam P.³ (AUTHOR), Shtumpf, Mariya³ (AUTHOR), Gurjar, Ankita³ (AUTHOR), Rajapakse, Vinodh N.¹ (AUTHOR), Shafiei, Ahmad⁴ (AUTHOR), Schultz, Christopher W.¹ (AUTHOR), Kim, Sehyun^1,5 (AUTHOR), Roame, Diana⁶ (AUTHOR), Carter, Paula⁶ (AUTHOR), Vilimas, Rasa¹ (AUTHOR), Nichols, Samantha¹ (AUTHOR), Desai, Parth¹ (AUTHOR), Figg Sr., William Douglas⁶ (AUTHOR), Bagheri, Mohammad⁴ (AUTHOR), Teif, Vladimir B.³ (AUTHOR) vteif@essex.ac.uk, Thomas, Anish¹ (AUTHOR) anish.thomas@nih.gov

Source: Genome Medicine. 2/25/2025, Vol. 17 Issue 1, p1-16. 16p.

Subject Terms: *CELL-free DNA, *SMALL cell lung cancer, *TRANSCRIPTION factors, *WHOLE genome sequencing, *MEDICAL sciences, *CIRCULATING tumor DNA

The role of renal and liver function in clinical ctDNA testing.

Authors: Koudahl Conrad, Jens Bo^1,2 (AUTHOR), Vesterman Henriksen, Tenna^1,2 (AUTHOR), Berg Nors, Jesper^1,2,3 (AUTHOR), Heilskov Rasmussen, Mads^1,2 (AUTHOR), Worm Ørntoft, Mai-Britt^1,2,4 (AUTHOR), Hallundbæk Schlesinger, Nis⁵ (AUTHOR), Vadgaard Andersen, Per⁶ (AUTHOR), Andersson Gotschalck, Kåre^2,7 (AUTHOR), Andersen, Claus Lindbjerg^1,2 (AUTHOR) cla@clin.au.dk

Source: PLoS ONE. 2/25/2025, Vol. 20 Issue 2, p1-12. 12p.

Subject Terms: *CELL-free DNA, *CIRCULATING tumor DNA, *EARLY detection of cancer, *LIVER function tests, *COLORECTAL cancer

Integrating Donor Derived Cell-Free DNA Fraction and Absolute Quantification for Enhanced Rejection Diagnosis in Kidney Transplant Recipients.

Authors: Nie, Weijian¹ (AUTHOR) weacandnie@163.com, Wang, Yan² (AUTHOR) wyan29@mail.sysu.edu.cn, Fu, Qian¹ (AUTHOR) qf902@163.com, Wu, Chenglin¹ (AUTHOR) wuchlin7@mail.sysu.edu.cn, Deng, Ronghai¹ (AUTHOR) dengrh3@mail.sysu.edu.cn, Yu, Xiaolin³ (AUTHOR) xlyu@bfrbiotech.com.cn, Ye, Caiguo³ (AUTHOR) cgye@bfrbiotech.com.cn, Liu, Xiangjun³ (AUTHOR) xjliu@bfrbiotech.com.cn, Xu, Bowen¹ (AUTHOR) xubw8@mail.sysu.edu.cn, Sun, Pingping⁴ (AUTHOR) sunpp3@mail.sysu.edu.cn, Liu, Longshan^1,5,6 (AUTHOR) liulshan@mail.sysu.edu.cn, Li, Jun¹ (AUTHOR) lijun5@mail.sysu.edu.cn, Zhang, Huanxi^1,5,6 (AUTHOR) lijun5@mail.sysu.edu.cn, Wang, Changxi^1,5,6 (AUTHOR)

Source: Diagnostics (2075-4418). Feb2025, Vol. 15 Issue 3, p237. 11p.

Subject Terms: *KIDNEY transplantation, *CELL-free DNA, *RECEIVER operating characteristic curves, *GRAFT rejection, *APRIL Fools' Day

Circulating Cell-Free DNA Integrity for Breast and Prostate Cancer: What Is the Landscape for Clinical Management of the Most Common Cancers in Women and Men?

Authors: Sobhani, Navid¹ (AUTHOR) navid.sobhani@cantab.net, Tierno, Domenico² (AUTHOR) domenico.tierno@units.it, Pavan, Nicola³ (AUTHOR) nicola.pavan@unipa.it, Generali, Daniele^2,4 (AUTHOR) dgenerali@units.it, Grassi, Gabriele² (AUTHOR) ggrassi@units.it, Zanconati, Fabrizio² (AUTHOR) f.zanconati@fmc.units.it, Scaggiante, Bruna⁵ (AUTHOR) bscaggiante@units.it

Source: International Journal of Molecular Sciences. Feb2025, Vol. 26 Issue 3, p900. 20p.

Subject Terms: *CELL-free DNA, *NEEDLE biopsy, *PROSTATE biopsy, *PROSTATE cancer, *BREAST cancer, *CIRCULATING tumor DNA

Role of Cell-Free DNA in Relapsed Head and Neck Cancer.

Authors: Baa, Annie Kanchan¹ (AUTHOR), Sharma, Atul¹ (AUTHOR), Singh, Mayank¹ (AUTHOR), Gupta, Ashna¹ (AUTHOR), Biswas, Ahitagni² (AUTHOR), Bharti, Sacchidanand Jee³ (AUTHOR), Thakar, Alok⁴ (AUTHOR), Kumar, Rajeev⁴ (AUTHOR), Pramanik, Raja¹ (AUTHOR) drrajapramanik@gmail.com

Source: Indian Journal of Medical & Paediatric Oncology. Feb2025, Vol. 46 Issue 1, p87-92. 6p.

Subject Terms: *CELL-free DNA, *HEAD & neck cancer, *DISEASE relapse, *CLINICAL trials, *NECK tumors

Decoding the mechanisms behind second primary cancers.

Authors: Zeng, Meiyuan¹ (AUTHOR), Lin, Anqi¹ (AUTHOR), Jiang, Aimin² (AUTHOR), Qiu, Zhengang³ (AUTHOR), Zhang, Hongman¹ (AUTHOR), Chen, Shifu^4,5 (AUTHOR), Xu, Mingyan⁴ (AUTHOR), Liu, Zaoqu⁶ (AUTHOR), Cheng, Quan^7,8 (AUTHOR) chengquan@csu.edu.cn, Zhang, Jian¹ (AUTHOR) zhangjian@i.smu.edu.cn, Luo, Peng¹ (AUTHOR) luopeng@smu.edu.cn

Source: Journal of Translational Medicine. 1/24/2025, Vol. 23 Issue 1, p1-18. 18p.

Subject Terms: *CELL-free DNA, *HORMONE receptors, *GENE expression, *CYTOLOGY, *PHENOTYPIC plasticity

Visualization using NIPTviewer support the clinical interpretation of noninvasive prenatal testing results.

Authors: Smeds, Patrik^1,2 (AUTHOR), Baranowska Körberg, Izabella^1,3 (AUTHOR), Melin, Malin^1,2 (AUTHOR), Ladenvall, Claes^1,2 (AUTHOR) claes.ladenvall@scilifelab.uu.se

Source: BMC Medical Genomics. 1/20/2025, Vol. 18 Issue 1, p1-6. 6p.

Subject Terms: *WEB-based user interfaces, *CELL-free DNA, *PRENATAL diagnosis, *REPORT writing, *PATHOLOGICAL laboratories

High-throughput methylation sequencing reveals novel biomarkers for the early detection of renal cell carcinoma.

Authors: Guo, Wenhao^1,2 (AUTHOR), Chen, Weiwu^1,3 (AUTHOR), Zhang, Jie¹ (AUTHOR), Li, Mingzhe¹ (AUTHOR), Huang, Hongyuan⁴ (AUTHOR), Wang, Qian⁵ (AUTHOR), Fei, Xiaoyi⁵ (AUTHOR), Huang, Jian⁶ (AUTHOR), Zheng, Tongning⁷ (AUTHOR), Fan, Haobo^1,3 (AUTHOR), Wang, Yunfei⁵ (AUTHOR), Gu, Hongcang⁶ (AUTHOR) gu_hongcang@cmpt.ac.cn, Ding, Guoqing¹ (AUTHOR) 3196014@zju.edu.cn, Chen, Yicheng¹ (AUTHOR) chenyicheng@zju.edu.cn

Source: BMC Cancer. 1/16/2025, Vol. 25 Issue 1, p1-14. 14p.

Subject Terms: *RENAL cell carcinoma, *CELL-free DNA, *DNA methylation, *PROGNOSTIC models, *RANDOM forest algorithms

Detection of Circulating Tumor DNA in Liquid Biopsy: Current Techniques and Potential Applications in Melanoma.

Authors: Martínez-Vila, Clara^1,2,3 (AUTHOR) cmartinezv@althaia.cat, Teixido, Cristina^4,5 (AUTHOR) faya@clinic.cat, Aya, Francisco^5,6 (AUTHOR) robertomartinhuertas@outlook.com, Martín, Roberto^5,6 (AUTHOR) aegonzal@clinic.cat, González-Navarro, Europa Azucena^5,7 (AUTHOR), Alos, Llucia^4,5 (AUTHOR) lalos@clinic.cat, Castrejon, Natalia⁴ (AUTHOR) castrejon@clinic.cat, Arance, Ana^5,6 (AUTHOR) amarance@clinic.cat

Source: International Journal of Molecular Sciences. Jan2025, Vol. 26 Issue 2, p861. 42p.

Subject Terms: *CELL-free DNA, *IMMUNE checkpoint inhibitors, *POLYMERASE chain reaction, *CIRCULATING tumor DNA, *BIOMATERIALS, *PROGNOSIS, *DACARBAZINE

Non-Invasive Determination of the Paternal Inheritance in Pregnancies at Risk for β-Thalassaemia by Analyzing Cell-Free Fetal DNA Using Targeted Next-Generation Sequencing.

Authors: Byrou, Stefania¹ (AUTHOR) stefaniab@cing.ac.cy, Brouwer, Rutger W. W.^2,3 (AUTHOR) rutger.brouwer@futurefacts.nl, Tomazou, Marios¹ (AUTHOR) stellat@cing.ac.cy, Tamana, Stella¹ (AUTHOR) petrosk@cing.ac.cy, Kountouris, Petros¹ (AUTHOR) lederer@cing.ac.cy, Lederer, Carsten W.¹ (AUTHOR) miranda@cing.ac.cy, Petrou, Miranda¹ (AUTHOR) marinakl@cing.ac.cy, Ozgur, Zeliha^2,3 (AUTHOR) z.ozgur@erasmusmc.nl, den Dekker, Xander^2,3 (AUTHOR) a.dendekker@erasmusmc.nl, Azmani, Zakia^2,3 (AUTHOR) z.azmani@erasmusmc.nl, Christou, Soteroula⁴ (AUTHOR) snchrthalcl@cytanet.com.cy, Makariou, Christiana⁵ (AUTHOR) chmakariou@gmail.com, Kleanthous, Marina¹ (AUTHOR), IJcken, Wilfred F. J. van^2,3 (AUTHOR) w.vanijcken@erasmusmc.nl, Papasavva, Thessalia¹ (AUTHOR) w.vanijcken@erasmusmc.nl

Source: International Journal of Molecular Sciences. Jan2025, Vol. 26 Issue 2, p570. 21p.

Subject Terms: *GENETIC variation, *CELL-free DNA, *SAMPLING (Process), *HAPLOTYPES, *PRENATAL diagnosis

Evaluation of a biomarker for amyotrophic lateral sclerosis derived from a hypomethylated DNA signature of human motor neurons.

Authors: Harvey, Calum¹ (AUTHOR), Nowak, Alicja¹ (AUTHOR), Zhang, Sai² (AUTHOR), Moll, Tobias¹ (AUTHOR), Weimer, Annika K³ (AUTHOR), Barcons, Aina Mogas¹ (AUTHOR), Souza, Cleide Dos Santos¹ (AUTHOR), Ferraiuolo, Laura¹ (AUTHOR), Kenna, Kevin⁴ (AUTHOR), Zaitlen, Noah⁵ (AUTHOR), Caggiano, Christa⁵ (AUTHOR), Shaw, Pamela J¹ (AUTHOR), Snyder, Michael P³ (AUTHOR), Mill, Jonathan⁶ (AUTHOR), Hannon, Eilis⁶ (AUTHOR), Cooper-Knock, Johnathan¹ (AUTHOR) j.cooper-knock@sheffield.ac.uk

Source: BMC Medical Genomics. 1/14/2025, Vol. 18 Issue 1, p1-14. 14p.

Subject Terms: *AMYOTROPHIC lateral sclerosis, *CELL-free DNA, *WHOLE genome sequencing, *LIFE sciences, *MOTOR neurons

Dynamics and Half-Life of Cell-Free DNA After Exercise: Insights from a Fragment Size-Specific Measurement Approach.

Authors: Yamamoto, Ryutaro¹ (AUTHOR) yamaminto@pop.med.hokudai.ac.jp, Asano, Hiroshi¹ (AUTHOR), Tamaki, Ryo¹ (AUTHOR), Saito, Yoshihiro¹ (AUTHOR), Hosokawa, Ami¹ (AUTHOR), Watari, Hidemichi¹ (AUTHOR), Umazume, Takeshi¹ (AUTHOR) takeuma@med.hokudai.ac.jp

Source: Diagnostics (2075-4418). Jan2025, Vol. 15 Issue 1, p109. 10p.

Subject Terms: *BASE pairs, *CELL-free DNA, *TREADMILL exercise, *TREADMILLS, *COOLDOWN

Quantification of Free Circulating DNA and Differential Methylation Profiling of Selected Genes as Novel Non-Invasive Biomarkers for Endometriosis Diagnosis.

Authors: Benkhalifa, Moncef¹ (AUTHOR) benkhalifamoncef78@gmail.com, Menoud, Pierre Alain² (AUTHOR) pamenoud@gmail.com, Piquemal, David³ (AUTHOR) piquemal@acobiom.com, Hazout, Jack Y.⁴ (AUTHOR) jack.hazout@icloud.com, Mahjoub, Sami⁵ (AUTHOR) docteursamimahjoub@yahoo.fr, Zarquaoui, Mohammed⁶ (AUTHOR) mozar92@gmail.com, Louanjli, Noureddine⁶ (AUTHOR) n.louanjli@gmail.com, Cabry, Rosalie¹ (AUTHOR), Hazout, Andre⁴ (AUTHOR) hazout.andre@hotmail.fr

Source: Biomolecules (2218-273X). Jan2025, Vol. 15 Issue 1, p69. 14p.

Subject Terms: *CELL-free DNA, *NONINVASIVE diagnostic tests, *DNA methylation, *PELVIS, *ENDOMETRIOSIS

An appropriate DNA input for bisulfite conversion reveals LINE-1 and Alu hypermethylation in tissues and circulating cell-free DNA from cancers.

Authors: Tran, Trang Thi Quynh^1,2 (AUTHOR), Pham, Tung The¹ (AUTHOR), Nguyen, Than Thi^1,3 (AUTHOR), Hien Do, Trang¹ (AUTHOR), Luu, Phuong Thi Thu¹ (AUTHOR), Nguyen, Uyen Quynh² (AUTHOR), Vuong, Linh Dieu⁴ (AUTHOR), Nguyen, Quang Ngoc⁴ (AUTHOR), Ho, Son Van³ (AUTHOR), Dao, Hang Viet⁵ (AUTHOR), Hoang, Tong Van⁶ (AUTHOR), Vo, Lan Thi Thuong^1,2 (AUTHOR) vothithuonglan@hus.edu.vn

Source: PLoS ONE. 12/30/2024, Vol. 19 Issue 12, p1-20. 20p.

Subject Terms: *CELL-free DNA, *DNA methylation, *HUMAN genome, *COLON cancer, *LUNG cancer, *BREAST, *CIRCULATING tumor DNA

Therapy response monitoring in blood plasma from esophageal adenocarcinoma patients using cell-free DNA methylation profiling.

Authors: Schoofs, Kathleen^1,2,3 (AUTHOR), Ferro Dos Santos, Maísa R.^1,3 (AUTHOR), De Wilde, Jilke^1,2,4 (AUTHOR), Roelandt, Sofie¹ (AUTHOR), Van de Velde, Sofie¹ (AUTHOR), Decruyenaere, Philippe^2,5 (AUTHOR), Meuris, Leander⁶ (AUTHOR), Thas, Olivier^7,8,9 (AUTHOR), Philippron, Annouck^3,10 (AUTHOR), Depypere, Lieven¹¹ (AUTHOR), Nafteux, Philippe¹¹ (AUTHOR), Vanommeslaeghe, Hanne¹⁰ (AUTHOR), Van Daele, Elke¹⁰ (AUTHOR), Pattyn, Piet^10,12 (AUTHOR), Vandesompele, Jo^2,3 (AUTHOR), De Preter, Katleen^1,3 (AUTHOR) Katleen.DePreter@UGent.be

Source: Scientific Reports. 12/28/2024, Vol. 14 Issue 1, p1-11. 11p.

Subject Terms: *MEDICAL sciences, *CELL-free DNA, *CARCINOEMBRYONIC antigen, *DNA methylation, *POSITRON emission tomography computed tomography, *BLOOD plasma

Potential role of circulating tumor cells and cell-free DNA as biomarkers in oral squamous cell carcinoma: A prospective single-center study.

Authors: Eboshida, Natsuki¹ (AUTHOR), Hamada, Atsuko¹ (AUTHOR) hamaco@hiroshima-u.ac.jp, Higaki, Mirai¹ (AUTHOR), Obayashi, Fumitaka¹ (AUTHOR), Ito, Nanako¹ (AUTHOR), Yamasaki, Sachiko¹ (AUTHOR), Tani, Ryouji¹ (AUTHOR), Shintani, Tomoaki² (AUTHOR), Koizumi, Koichi¹ (AUTHOR), Yanamoto, Souichi¹ (AUTHOR)

Source: PLoS ONE. 12/27/2024, Vol. 19 Issue 12, p1-15. 15p.

Subject Terms: *CELL-free DNA, *SQUAMOUS cell carcinoma, *COLORECTAL cancer, *PROGNOSTIC models, *GENETIC mutation

Performance of cell free DNA as a screening tool based on the results of first trimester screening.

Authors: Motevasselian, Mahtab¹ (AUTHOR), Omrani, Mohammad Amin² (AUTHOR), Saleh Gargari, Soraya³ (AUTHOR) soraya_saleh2000@yahoo.co.uk, Younesi, Sarang⁴ (AUTHOR), Taheri Amin, Mohammad Mahdi⁴ (AUTHOR), Saadati, Pourandokht⁴ (AUTHOR), Jamali, Soudabeh⁴ (AUTHOR), Modarresi, Mohammad-Hossein⁵ (AUTHOR), Savad, Shahram⁵ (AUTHOR), Rahmani, Majid⁴ (AUTHOR), Amidi, Saloomeh⁴ (AUTHOR), Delshad, Saeed⁴ (AUTHOR), Navidpour, Fariba⁴ (AUTHOR), Chagheri, Samira⁴ (AUTHOR), Mohammadi, Yalda⁴ (AUTHOR), Khalilian, Sheyda⁶ (AUTHOR), Eslami, Solat^7,8 (AUTHOR), Ghafouri-Fard, Soudeh⁶ (AUTHOR) s.ghafourifard@sbmu.ac.ir

Source: Molecular Cytogenetics (17558166). 12/21/2024, Vol. 17 Issue 1, p1-8. 8p.

Subject Terms: *SEX chromosome abnormalities, *CELL-free DNA, *INVASIVE diagnosis, *MEDICAL screening, *FETAL abnormalities

MicroRNA-Based Liquid Biopsy for Cervical Cancer Diagnostics and Treatment Monitoring.

Authors: Kepsha, Maria A.¹ (AUTHOR) silachevdn@belozersky.msu.ru, Timofeeva, Angelika V.¹ (AUTHOR), Chernyshev, Vasiliy S.¹ (AUTHOR) v_chernyshev@oparina4.com, Silachev, Denis N.¹ (AUTHOR), Mezhevitinova, Elena A.¹ (AUTHOR), Sukhikh, Gennadiy T.¹ (AUTHOR)

Source: International Journal of Molecular Sciences. Dec2024, Vol. 25 Issue 24, p13271. 21p.

Subject Terms: *CELL-free DNA, *HUMAN papillomavirus, *CERVICAL cancer diagnosis, *EXTRACELLULAR vesicles, *PRECANCEROUS conditions, *PAPILLOMAVIRUSES