Tag Archives: Featured

Methylation-capture and Next-Generation Sequencing of free circulating DNA from human plasma

June 2014 Authors: Kristina Warton, Vita Lin, Tina Navin, Nicola J Armstrong, Warren Kaplan, Kevin Ying, Brian Gloss, Helena Mangs, Shalima S Nair, Neville F Hacker, Robert L Sutherland, Susan J Clark and Goli Samimi1 Info: This study from the … more »

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SimRAD: a R package for simulation-based prediction of the number of loci expected in RADseq and similar genotyping by sequencing approaches

May 2014 (epub ahead of print) Authors: Olivier Lepais and Jason T Weir Info: This article from Molecular Ecology Resources describes a new software tool designed to help scientists optimize their double-digest RADseq (ddRADseq) experiments by accurately estimating the number … more »

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Improved Protocols for Illumina Sequencing

October 2013 Authors: Iraad F. Bronner, Michael A. Quail, Daniel J. Turner, and Harold Swerdlow Info: A comprehensive overview of the state-of-the state of Illumina sequencing, from the Wellcome Trust Sanger Institute and Oxford Nanopore Technologies. The value of narrow … more »

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Shining a Light on Dark Sequencing: Characterising Errors in Ion Torrent PGM Data

April 2013 Authors: Lauren M. Bragg, Glenn Stone, Margaret K. Butler, Philip Hugenholtz, Gene W. Tyson Info: The authors use the Pippin Prep as an alternative to gel purification for isolating PCR fragments. The authors note that manual gel purification … more »

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Evaluation and optimisation of preparative semi-automated electrophoresis systems for Illumina library preparation

November 2012 Authors: Michael A. Quail, Yong Gu, Harold Swerdlow, Matthew Mayho Info: An evaluation of semi-automated size selection systems for use in size-selection for NGS libraries at the Sanger Centre. A comparison to manual gel purification and magnetic beads. … more »

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Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: a rigorous assessment and optimization of the linker amplification method

September 2012 Authors: Melissa B. Duhaime, Li Deng, Bonnie T. Poulos, and Matthew B. Sullivan Info: A study of most reproducible and sample-efficient methods for sequencing meta-genomic samples with very low abundance samples (20 L ocean water ->1 pg to … more »

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Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

May 2012 Authors: Brant K. Peterson, Jesse N. Weber, Emily H. Kay, Heidi S. Fisher, Hopi E. Hoekstra Info: An NGS method that allows inexpensive HT genotyping at moderate depth without prior knowledge of any markers. A high impact paper. … more »

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