Resources by Category: "Plasma"

NGS libraries from cell-free DNA containing molecular tags prepared with ThruPLEX® technology improve ability to detect rare alleles

Matthew Carroll1, Dmitry Goryunov1, Konstantinos Charizanis1, Fang Sun1, Maria Dinkelmann1, Edward Jan1, Kamran Shazand1, Emmanuel Kamberov1, Shawn Quinn2, John Langmore1 1Rubicon Genomics, Inc. • Ann Arbor, MI • 2 Curio Genomics, Inc. Dexter, MI Liquid biopsies provide a non-invasive method to acquire the genetic information provided in cell-free DNA. Next Generation Sequencing enables access to… Read more »

High-Efficiency Detection of Low-Frequency Alleles in Cell-Free DNA

K. Shazand, J. Ning, E. Ranghini, A. Popkie, and J.P. Jerome The ability to detect rare alleles is key to the discovery and characterization of mutations in cancer research. These mutations are found at low frequencies, mainly because of tumor heterogeneity and tumor DNA dilution in the germline background. Cell-free DNA (cfDNA) in plasma provides… Read more »

Inhibition of peroxisome proliferator-activated receptor Γ: a potential link between chronic maternal hypoxia and impaired fetal growth

Julian, Colleen G, Ivana V Yang, Vaughn a Browne, Enrique Vargas, Carmelo Rodriguez, Brent S Pedersen, Lorna G Moore, and David a Schwartz. 2013. “Inhibition of Peroxisome Proliferator-Activated Receptor Γ: a Potential Link Between Chronic Maternal Hypoxia and Impaired Fetal Growth.” FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology 28 (Published online… Read more »

ThruPLEX™ Technology Repairs Damage and Amplifies Small Amounts of Biofluid DNA for NGS, Microarrays and PCR

M. Mastronardi, T. Tesmer, E. Kamberov, J. Langmore Biofluid Challenges: Biofluids, including plasma, serum, urine and CSF, contain valuable biomarkers that are used in research and diagnostics. These matrices present many challenges to traditional sample preparation methods. Biofluid DNA is fragmented (100-200 bp) and very dilute (e.g., 1-20 ng/mL of plasma). Additionally, the biomarker-containing DNA… Read more »

Comparison of Two New Methods to Increase the Sensitivity of Next Generation Sequencing for ChIP-seq, Methyl-seq and other Sonicated DNA Applications as well as for Short DNA in Non-Invasive Prenatal and Cancer Diagnostics

American Society of Human Genetics  2011 (Poster – PDF) E. Kamberov, J. Langmore, T. Tesmer1, M. Mastronardi, (Rubicon Genomics, Ann Arbor), M. Luo, M. Jeong, D. Sun, W. Lei, L. White, G. Darlington (Baylor College of Medicine, Houston) There is an increasing need to sequence picogram quantities of short DNA for diagnostics and research. For example, 1) maternal… Read more »

Methods to simplify template preparations and increase sensitivity of next-generation sequencing of short DNA and cDNA for non-invasive prenatal and cancer diagnostics as well as for FFPE-seq, ChIP-seq, and methyl-seq

J. Langmore, E. Kamberov, T. Tesmer, M. Mastronardi (Rubicon Genomics, Ann Arbor), M. Luo, M. Jeong, D. Sun, W. Lei, L. White, G. Darlington (Baylor College of Medicine, Houston) Small amounts of degraded and/or rare DNA are useful for prenatal and cancer diagnostic sequencing. Unfortunately, conventional NGS preps require ng or mg amounts of starting… Read more »