DNA Methods (Oxford)

Leveraging modern DNA assembly techniques for rapid, markerless genome modification

Ilya B. TikhJames C. Samuelson

Published: 27 December 2016

…–300 ng of total DNA, at manufacturer’s recommended ratios in a total volume of 10 µl. Sequencing of individual clones generated from each of the HiFi DNA assemblies confirmed a very low error rate. Results are shown in Supplementary Table S2 . Figure 2 Schematic overview of the genome…


EpiHRMAssay, in tube and in silico combined approach for the scanning and epityping of heterogeneous DNA methylation

Marco CirilliInes DelfinoEmilia CaboniRosario Muleo

Published: 25 January 2017

…Marco Cirilli; Ines Delfino; Emilia Caboni; Rosario Muleo Sequence mutations, such as single nucleotide polymorphisms, might affect the prediction of methylation status, due to their effect on thermodynamic properties of DNA with the consequent effect on the melting profile and T m value…


A method for the efficient and selective identification of 5-hydroxymethyluracil in genomic DNA

Whitney BullardRudo KieftRobert Sabatini

Published: 25 January 2017

… dsDNA substrates containing matched 5hmU (5hmU:A) ( Fig. 2 A). The other natural, but minor, form of 5hmU in mammalian genomic DNA is such that it is paired with G as a result of deamination of 5hmC [ 52 , 53 ]. We now report that JGT has the ability to also modify substrates containing mismatched…


qPCR-based characterization of DNA fragmentation efficiency of Tn5 transposomes

Vera RykalinaAlexey ShadrinHans LehrachTatiana Borodina

Published: 09 March 2017

…Vera Rykalina; Alexey Shadrin; Hans Lehrach; Tatiana Borodina The principle of the approach is depicted in Fig. 1 . Here, the fragmentation efficiency of a tagmentation reaction is estimated relative to a non-tagmented DNA control. Tagmentation is performed on a reference tagmentation template…

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