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Genome-wide cell-free DNA fragmentation in patients with cancer.

Cristiano S, Leal A, Phallen J, Fiksel J, Adleff V, Bruhm DC, Jensen SØ, Medina JE, Hruban C, White JR, Palsgrove DN, Niknafs N, Anagnostou V, Forde P, Naidoo J, Marrone K, Brahmer J, Woodward BD, Husain H, van Rooijen KL, Ørntoft MW, Madsen AH, van de Velde CJH, Verheij M, Cats A, Punt CJA, Vink GR, van Grieken NCT, Koopman M, Fijneman RJA, Johansen JS, Nielsen HJ, Meijer GA, Andersen CL, Scharpf RB, Velculescu VE.

Nature. 2019 Jun;570(7761):385-389. doi: 10.1038/s41586-019-1272-6. Epub 2019 May 29.


A new approach to epigenome-wide discovery of non-invasive methylation biomarkers for colorectal cancer screening in circulating cell-free DNA using pooled samples.

Gallardo-Gómez M, Moran S, Páez de la Cadena M, Martínez-Zorzano VS, Rodríguez-Berrocal FJ, Rodríguez-Girondo M, Esteller M, Cubiella J, Bujanda L, Castells A, Balaguer F, Jover R, De Chiara L.

Clin Epigenetics. 2018 Apr 16;10:53. doi: 10.1186/s13148-018-0487-y. eCollection 2018.


Cell-Free DNA Provides a Good Representation of the Tumor Genome Despite Its Biased Fragmentation Patterns.

Ma X, Zhu L, Wu X, Bao H, Wang X, Chang Z, Shao YW, Wang Z.

PLoS One. 2017 Jan 3;12(1):e0169231. doi: 10.1371/journal.pone.0169231. eCollection 2017.


Diagnosis of pancreatico-biliary malignancy: detection of gene mutations in plasma and stool.

Mulcahy H, Farthing MJ.

Ann Oncol. 1999;10 Suppl 4:114-7. Review.


Non-random fragmentation patterns in circulating cell-free DNA reflect epigenetic regulation.

Ivanov M, Baranova A, Butler T, Spellman P, Mileyko V.

BMC Genomics. 2015;16 Suppl 13:S1. doi: 10.1186/1471-2164-16-S13-S1. Epub 2015 Dec 16.


Utility of cfDNA Fragmentation Patterns in Designing the Liquid Biopsy Profiling Panels to Improve Their Sensitivity.

Ivanov M, Chernenko P, Breder V, Laktionov K, Rozhavskaya E, Musienko S, Baranova A, Mileyko V.

Front Genet. 2019 Mar 12;10:194. doi: 10.3389/fgene.2019.00194. eCollection 2019.


Early Epigenetic Markers for Precision Medicine.

Dumitrescu RG.

Methods Mol Biol. 2018;1856:3-17. doi: 10.1007/978-1-4939-8751-1_1. Review.


A Novel Method to Detect Early Colorectal Cancer Based on Chromosome Copy Number Variation in Plasma.

Xu JF, Kang Q, Ma XY, Pan YM, Yang L, Jin P, Wang X, Li CG, Chen XC, Wu C, Jiao SZ, Sheng JQ.

Cell Physiol Biochem. 2018;45(4):1444-1454. doi: 10.1159/000487571. Epub 2018 Feb 16. Erratum in: Cell Physiol Biochem. 2018;47(5):2185.


Circulating cell-free DNA-based epigenetic assay can detect early breast cancer.

Uehiro N, Sato F, Pu F, Tanaka S, Kawashima M, Kawaguchi K, Sugimoto M, Saji S, Toi M.

Breast Cancer Res. 2016 Dec 19;18(1):129.


Novel serum nucleosomics biomarkers for the detection of colorectal cancer.

Holdenrieder S, Dharuman Y, Standop J, Trimpop N, Herzog M, Hettwer K, Simon K, Uhlig S, Micallef J.

Anticancer Res. 2014 May;34(5):2357-62.


Circulating fragmented nucleosomal DNA and caspase-3 mRNA in patients with lymphoma and myeloma.

Deligezer U, Erten N, Akisik EE, Dalay N.

Exp Mol Pathol. 2006 Feb;80(1):72-6. Epub 2005 Jun 15.


Chromosomal Instability in Cell-Free DNA as a Highly Specific Biomarker for Detection of Ovarian Cancer in Women with Adnexal Masses.

Vanderstichele A, Busschaert P, Smeets D, Landolfo C, Van Nieuwenhuysen E, Leunen K, Neven P, Amant F, Mahner S, Braicu EI, Zeilinger R, Coosemans A, Timmerman D, Lambrechts D, Vergote I.

Clin Cancer Res. 2017 May 1;23(9):2223-2231. doi: 10.1158/1078-0432.CCR-16-1078. Epub 2016 Nov 14.


Peripheral blood immune cell methylation profiles are associated with nonhematopoietic cancers.

Koestler DC, Marsit CJ, Christensen BC, Accomando W, Langevin SM, Houseman EA, Nelson HH, Karagas MR, Wiencke JK, Kelsey KT.

Cancer Epidemiol Biomarkers Prev. 2012 Aug;21(8):1293-302. doi: 10.1158/1055-9965.EPI-12-0361. Epub 2012 Jun 19.


Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin.

Sun K, Jiang P, Cheng SH, Cheng THT, Wong J, Wong VWS, Ng SSM, Ma BBY, Leung TY, Chan SL, Mok TSK, Lai PBS, Chan HLY, Sun H, Chan KCA, Chiu RWK, Lo YMD.

Genome Res. 2019 Mar;29(3):418-427. doi: 10.1101/gr.242719.118.


Early Colorectal Cancer Detected by Machine Learning Model Using Gender, Age, and Complete Blood Count Data.

Hornbrook MC, Goshen R, Choman E, O'Keeffe-Rosetti M, Kinar Y, Liles EG, Rust KC.

Dig Dis Sci. 2017 Oct;62(10):2719-2727. doi: 10.1007/s10620-017-4722-8. Epub 2017 Aug 23. Erratum in: Dig Dis Sci. 2017 Nov 27;:.


Genomic analyses based on pulmonary adenocarcinoma in situ reveal early lung cancer signature.

Li D, Yang W, Zhang Y, Yang JY, Guan R, Xu D, Yang MQ.

BMC Med Genomics. 2018 Nov 20;11(Suppl 5):106. doi: 10.1186/s12920-018-0413-3.


A Targeted Q-PCR-Based Method for Point Mutation Testing by Analyzing Circulating DNA for Cancer Management Care.

Thierry AR.

Methods Mol Biol. 2016;1392:1-16. doi: 10.1007/978-1-4939-3360-0_1.


Abnormal plasma DNA profiles in early ovarian cancer using a non-invasive prenatal testing platform: implications for cancer screening.

Cohen PA, Flowers N, Tong S, Hannan N, Pertile MD, Hui L.

BMC Med. 2016 Aug 24;14(1):126. doi: 10.1186/s12916-016-0667-6.


DNA promoter hypermethylation profiles in breast duct fluid.

Twelves D, Nerurkar A, Osin P, Dexter T, Ward A, Gui GP, Isacke CM.

Breast Cancer Res Treat. 2013 Jun;139(2):341-50. doi: 10.1007/s10549-013-2544-8. Epub 2013 May 15.


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