An Y, Zhao X, Zhang Z et al (2023) DNA methylation analysis explores the molecular basis of plasma cell-free DNA fragmentation. Nat Commun 14:287. https://doi.org/10.1038/s41467-023-35959-6
Article CAS PubMed PubMed Central Google Scholar
Bianchi NO (2009) Y chromosome structural and functional changes in human malignant diseases. Mutation Res/rev Mutation Res 682:21–27. https://doi.org/10.1016/j.mrrev.2009.02.001
Chan KCA, Zhang J, Hui ABY et al (2004) Size distributions of maternal and fetal DNA in maternal plasma. Clin Chem 50:88–92. https://doi.org/10.1373/clinchem.2003.024893
Article CAS PubMed Google Scholar
Chandrananda D, Thorne NP, Bahlo M (2015) High-resolution characterization of sequence signatures due to non-random cleavage of cell-free DNA. BMC Med Genomics 8:29. https://doi.org/10.1186/s12920-015-0107-z
Article CAS PubMed PubMed Central Google Scholar
Duijf PHG, Schultz N, Benezra R (2013) Cancer cells preferentially lose small chromosomes. Int J Cancer 132:2316–2326. https://doi.org/10.1002/ijc.27924
Article CAS PubMed Google Scholar
Forsberg LA (2017) Loss of chromosome Y (LOY) in blood cells is associated with increased risk for disease and mortality in aging men. Hum Genet 136:657–663. https://doi.org/10.1007/s00439-017-1799-2
Article CAS PubMed PubMed Central Google Scholar
Guizard S, Piégu B, Bigot Y (2016) DensityMap: a genome viewer for illustrating the densities of features. BMC Bioinform 17:204. https://doi.org/10.1186/s12859-016-1055-0
Han DSC, Ni M, Chan RWY et al (2020) The biology of cell-free DNA fragmentation and the roles of DNASE1, DNASE1L3, and DFFB. Am J Hum Genet 106:202–214. https://doi.org/10.1016/j.ajhg.2020.01.008
Article CAS PubMed PubMed Central Google Scholar
Hauer MH, Seeber A, Singh V et al (2017) Histone degradation in response to DNA damage enhances chromatin dynamics and recombination rates. Nat Struct Mol Biol 24:99–107. https://doi.org/10.1038/nsmb.3347
Article CAS PubMed Google Scholar
Hunter S, Gramlich T, Abbott K, Varma V (1993) Y chromosome loss in esophageal carcinoma: an in situ hybridization study. Genes Chromosom Cancer 8:172–177. https://doi.org/10.1002/gcc.2870080306
Article CAS PubMed Google Scholar
Jacobs PA, Brunton M, Court Brown WM et al (1963) Change of human chromosome count distribution with age: evidence for a sex differences. Nature 197:1080–1081. https://doi.org/10.1038/1971080a0
Article CAS PubMed Google Scholar
Jahr S, Hentze H, Englisch S et al (2001) DNA fragments in the blood plasma of cancer patients: quantitations and evidence for their origin from apoptotic and necrotic cells. Cancer Res 61:1659–1665
Koyama R, Arai T, Kijima M et al (2016) DNase γ, DNase I and caspase-activated DNase cooperate to degrade dead cells. Genes Cells 21:1150–1163. https://doi.org/10.1111/gtc.12433
Article CAS PubMed Google Scholar
Kumar D, Upadhya D, Uppangala S et al (2013) Nuclear DNA fragmentation negatively affects zona binding competence of Y bearing mouse spermatozoa. J Assist Reprod Genet 30:1611–1615. https://doi.org/10.1007/s10815-013-0123-x
Article PubMed PubMed Central Google Scholar
Li G, Wang C, Guan X, et al (2022) Age-related DNA methylation on Y chromosome and their associations with total mortality among Chinese males. Aging Cell 21:e13563. https://doi.org/10.1111/acel.13563
Lo YM, Corbetta N, Chamberlain PF et al (1997) Presence of fetal DNA in maternal plasma and serum. Lancet 350:485–487. https://doi.org/10.1016/S0140-6736(97)02174-0
Article CAS PubMed Google Scholar
Lui YYN, Chik K-W, Chiu RWK et al (2002) Predominant hematopoietic origin of cell-free DNA in plasma and serum after sex-mismatched bone marrow transplantation. Clin Chem 48:421–427
Article CAS PubMed Google Scholar
Meddeb R, Pisareva E, Thierry AR (2019) Guidelines for the preanalytical conditions for analyzing circulating cell-free DNA. Clin Chem 65:623–633. https://doi.org/10.1373/clinchem.2018.298323
Article CAS PubMed Google Scholar
Moss J, Magenheim J, Neiman D et al (2018) Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease. Nat Commun. https://doi.org/10.1038/s41467-018-07466-6
Article PubMed PubMed Central Google Scholar
Mouliere F, Robert B, Arnau Peyrotte E et al (2011) High fragmentation characterizes tumour-derived circulating DNA. PLoS ONE 6:e23418. https://doi.org/10.1371/journal.pone.0023418
Article CAS PubMed PubMed Central Google Scholar
Park S-J, Jeong S-Y, Kim HJ (2006) Y chromosome loss and other genomic alterations in hepatocellular carcinoma cell lines analyzed by CGH and CGH array. Cancer Genet Cytogenet 166:56–64. https://doi.org/10.1016/j.cancergencyto.2005.08.022
Article CAS PubMed Google Scholar
Pisareva E, Mihalovičová L, Pastor B et al (2022) Neutrophil extracellular traps have auto-catabolic activity and produce mononucleosome-associated circulating DNA. Genome Medicine 14:135. https://doi.org/10.1186/s13073-022-01125-8
Article CAS PubMed PubMed Central Google Scholar
Reinhold K, Engqvist L (2013) The variability is in the sex chromosomes. Evolution 67:3662–3668. https://doi.org/10.1111/evo.12224
Sanchez C, Snyder MW, Tanos R et al (2018) New insights into structural features and optimal detection of circulating tumor DNA determined by single-strand DNA analysis. NPJ Genom Med 3:31. https://doi.org/10.1038/s41525-018-0069-0
Article CAS PubMed PubMed Central Google Scholar
Sanchez C, Roch B, Mazard T et al (2021) Circulating nuclear DNA structural features, origins, and complete size profile revealed by fragmentomics. JCI Insight 6:144561. https://doi.org/10.1172/jci.insight.144561
Skaletsky H, Kuroda-Kawaguchi T, Minx PJ et al (2003) The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature 423:825–837. https://doi.org/10.1038/nature01722
Article CAS PubMed Google Scholar
Snyder MW, Kircher M, Hill AJ et al (2016) Cell-free DNA comprises an in vivo nucleosome footprint that informs its tissues-of-origin. Cell 164:57–68. https://doi.org/10.1016/j.cell.2015.11.050
Article CAS PubMed PubMed Central Google Scholar
Sun K, Jiang P, Chan KCA et al (2015) Plasma DNA tissue mapping by genome-wide methylation sequencing for noninvasive prenatal, cancer, and transplantation assessments. Proc Natl Acad Sci USA 112:E5503-5512. https://doi.org/10.1073/pnas.1508736112
Article CAS PubMed PubMed Central Google Scholar
Thierry AR (2023) Circulating DNA fragmentomics and cancer screening. Cell Genomics 3:100242. https://doi.org/10.1016/j.xgen.2022.100242
Article CAS PubMed PubMed Central Google Scholar
Thierry AR, El Messaoudi S, Gahan PB et al (2016) Origins, structures, and functions of circulating DNA in oncology. Cancer Metastasis Rev 35:347–376. https://doi.org/10.1007/s10555-016-9629-x
Article CAS PubMed PubMed Central Google Scholar
Xue Y, Zhao G, Qiao L et al (2020) Sequencing shorter cfDNA fragments decreases the false negative rate of non-invasive prenatal testing. Front Genet 11:280. https://doi.org/10.3389/fgene.2020.00280
Article PubMed PubMed Central Google Scholar
Yates AD, Achuthan P, Akanni W et al (2020) Ensembl 2020. Nucleic Acids Res 48:D682–D688. https://doi.org/10.1093/nar/gkz966
Article CAS PubMed Google Scholar
You Y-A, Kwon W-S, Saidur Rahman M et al (2017) Sex chromosome-dependent differential viability of human spermatozoa during prolonged incubation. Hum Reprod 32:1183–1191. https://doi.org/10.1093/humrep/dex080
Article CAS PubMed Google Scholar
Zheng YWL, Chan KCA, Sun H et al (2012) Nonhematopoietically derived DNA is shorter than hematopoietically derived DNA in plasma: a transplantation model. Clin Chem 58:549–558. https://doi.org/10.1373/clinchem.2011.169318
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