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Epigenetics, fragmentomics, and topology of cell-free DNA in liquid biopsies

Science (American Association for the Advancement of Science), 2021-04, Vol.372 (6538)

2021

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The Long and Short of Circulating Cell-Free DNA and the Ins and Outs of Molecular Diagnostics

Trends in genetics, 2016-06, Vol.32 (6), p.360-371

2016

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Bioinformatics Approaches for Fetal DNA Fraction Estimation in Noninvasive Prenatal Testing

International journal of molecular sciences, 2017-02, Vol.18 (2), p.453-453

2017

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Integrative single-cell and cell-free plasma RNA transcriptomics elucidates placental cellular dynamics

Proceedings of the National Academy of Sciences - PNAS, 2017-09, Vol.114 (37), p.E7786-E7795

2017

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Enhanced cancer detection from cell-free DNA

Nature biotechnology, 2022-04, Vol.40 (4), p.473-474

2022

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Lengthening and shortening of plasma DNA in hepatocellular carcinoma patients

Proceedings of the National Academy of Sciences - PNAS, 2015-03, Vol.112 (11), p.E1317-E1325

2015

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Identification and characterization of extrachromosomal circular DNA in maternal plasma

Proceedings of the National Academy of Sciences - PNAS, 2020-01, Vol.117 (3), p.1658-1665

2020

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Plasma DNA tissue mapping by genome-wide methylation sequencing for noninvasive prenatal, cancer, and transplantation assessments

Proceedings of the National Academy of Sciences - PNAS, 2015-10, Vol.112 (40), p.E5503-E5512

2015

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Molecular Support for Heterogonesis Resulting in Sesquizygotic Twinning

The New England journal of medicine, 2019-02, Vol.380 (9), p.842-849

2019

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Genome-wide detection of cytosine methylation by single molecule real-time sequencing

Proceedings of the National Academy of Sciences - PNAS, 2021-02, Vol.118 (5), p.1-11

2021

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Inhibition of miR-29 by TGF-beta-Smad3 signaling through dual mechanisms promotes transdifferentiation of mouse myoblasts into myofibroblasts

PloS one, 2012-03, Vol.7 (3), p.e33766-e33766

2012

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Plasma DNA End-Motif Profiling as a Fragmentomic Marker in Cancer, Pregnancy, and Transplantation

Cancer discovery, 2020-05, Vol.10 (5), p.664-673

2020

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Size-tagged preferred ends in maternal plasma DNA shed light on the production mechanism and show utility in noninvasive prenatal testing

Proceedings of the National Academy of Sciences - PNAS, 2018-05, Vol.115 (22), p.E5106-E5114

2018

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

Genome research, 2019-03, Vol.29 (3), p.418-427

2019

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Deep machine learning for the PANDA software trigger

The European physical journal. C, Particles and fields, 2023-04, Vol.83 (4), p.337-13, Article 337

2023

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Maternal plasma DNA sequencing reveals the genome-wide genetic and mutational profile of the fetus

Science translational medicine, 2010-12, Vol.2 (61), p.61ra91

2010

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A novel wnt regulatory axis in endometrioid endometrial cancer

Cancer research (Chicago, Ill.), 2014-09, Vol.74 (18), p.5103-5117

2014

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A Novel Target of MicroRNA-29, Ring1 and YY1-binding Protein (Rybp), Negatively Regulates Skeletal Myogenesis

The Journal of biological chemistry, 2012-07, Vol.287 (30), p.25255-25265

2012

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Noninvasive detection of cancer-associated genome-wide hypomethylation and copy number aberrations by plasma DNA bisulfite sequencing

Proceedings of the National Academy of Sciences - PNAS, 2013-11, Vol.110 (47), p.18761-18768

2013

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IL-37 Ameliorating Allergic Inflammation in Atopic Dermatitis Through Regulating Microbiota and AMPK-mTOR Signaling Pathway-Modulated Autophagy Mechanism

Frontiers in immunology, 2020-04, Vol.11, p.752

2020

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Noninvasive Prenatal Diagnosis of Congenital Adrenal Hyperplasia Using Cell-Free Fetal DNA in Maternal Plasma

The journal of clinical endocrinology and metabolism, 2014-06, Vol.99 (6), p.E1022-E1030

2014

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Cancer genome scanning in plasma: detection of tumor-associated copy number aberrations, single-nucleotide variants, and tumoral heterogeneity by massively parallel sequencing

Clinical chemistry (Baltimore, Md.), 2013-01, Vol.59 (1), p.211-224

2013

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Fragmentomics of urinary cell-free DNA in nuclease knockout mouse models

PLoS genetics, 2022-07, Vol.18 (7), p.e1010262-e1010262

2022

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Sequencing-based counting and size profiling of plasma Epstein–Barr virus DNA enhance population screening of nasopharyngeal carcinoma

Proceedings of the National Academy of Sciences - PNAS, 2018-05, Vol.115 (22), p.E5115-E5124

2018

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Size-based molecular diagnostics using plasma DNA for noninvasive prenatal testing

Proceedings of the National Academy of Sciences - PNAS, 2014-06, Vol.111 (23), p.8583-8588

2014

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Epigenetics, fragmentomics, and topology of cell-free DNA in liquid biopsies

The Long and Short of Circulating Cell-Free DNA and the Ins and Outs of Molecular Diagnostics

Bioinformatics Approaches for Fetal DNA Fraction Estimation in Noninvasive Prenatal Testing

Integrative single-cell and cell-free plasma RNA transcriptomics elucidates placental cellular dynamics

Enhanced cancer detection from cell-free DNA

Lengthening and shortening of plasma DNA in hepatocellular carcinoma patients

Identification and characterization of extrachromosomal circular DNA in maternal plasma

Plasma DNA tissue mapping by genome-wide methylation sequencing for noninvasive prenatal, cancer, and transplantation assessments

Molecular Support for Heterogonesis Resulting in Sesquizygotic Twinning

Genome-wide detection of cytosine methylation by single molecule real-time sequencing

Inhibition of miR-29 by TGF-beta-Smad3 signaling through dual mechanisms promotes transdifferentiation of mouse myoblasts into myofibroblasts

Plasma DNA End-Motif Profiling as a Fragmentomic Marker in Cancer, Pregnancy, and Transplantation

Size-tagged preferred ends in maternal plasma DNA shed light on the production mechanism and show utility in noninvasive prenatal testing

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

Deep machine learning for the PANDA software trigger

Maternal plasma DNA sequencing reveals the genome-wide genetic and mutational profile of the fetus

A novel wnt regulatory axis in endometrioid endometrial cancer

A Novel Target of MicroRNA-29, Ring1 and YY1-binding Protein (Rybp), Negatively Regulates Skeletal Myogenesis

Noninvasive detection of cancer-associated genome-wide hypomethylation and copy number aberrations by plasma DNA bisulfite sequencing

IL-37 Ameliorating Allergic Inflammation in Atopic Dermatitis Through Regulating Microbiota and AMPK-mTOR Signaling Pathway-Modulated Autophagy Mechanism

Noninvasive Prenatal Diagnosis of Congenital Adrenal Hyperplasia Using Cell-Free Fetal DNA in Maternal Plasma

Cancer genome scanning in plasma: detection of tumor-associated copy number aberrations, single-nucleotide variants, and tumoral heterogeneity by massively parallel sequencing

Fragmentomics of urinary cell-free DNA in nuclease knockout mouse models

Sequencing-based counting and size profiling of plasma Epstein–Barr virus DNA enhance population screening of nasopharyngeal carcinoma

Size-based molecular diagnostics using plasma DNA for noninvasive prenatal testing

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