Tag Archives: genotyping

RADcap: sequence capture of dual-digest RADseq libraries with identifiable duplicates and reduced missing data

August 2016 Authors: Hoffberg SL, Kieran TJ, Catchen JM, Devault A, Faircloth BC, Mauricio R, Glenn TC Info: In this methods paper, scientists combine double-digest RAD-seq with capture technology to reduce costs and increase efficiency. The protocol, which was validated … more »

Posted in Citation | Tagged , , , , , , | Comments Off on RADcap: sequence capture of dual-digest RADseq libraries with identifiable duplicates and reduced missing data

PELE-seq Increases SNP Calling Accuracy by Reducing Sequencing Errors

Scientists at the University of Oregon have published a new method to detect PCR and sequencing errors that should help other researchers track rare SNPs with greater accuracy. PELE-seq, which gets our vote for best new protocol name, can be … more »

Posted in Blog | Tagged , , , , , | Comments Off on PELE-seq Increases SNP Calling Accuracy by Reducing Sequencing Errors

Double Pippin for Optimized RAD-seq

Scientists in China and the UK recently published an open-access optimized protocol for RAD-seq in the Theoretical and Applied Genetics journal. The method is targeted at large studies of plants and enables users to specify sequence coverage parameters. From lead … more »

Posted in Blog | Tagged , , , , | Comments Off on Double Pippin for Optimized RAD-seq

Urban Mice: NYC Study Sheds Light on Population Diversity and Changes

They may make subway riders shudder, but New York City mice are the stars of a cool new paper outlining their evolutionary history during a rapid period of urbanization. Scientists from the City University of New York used ddRAD-seq to … more »

Posted in Blog | Tagged , , , , | Comments Off on Urban Mice: NYC Study Sheds Light on Population Diversity and Changes

New hyRAD Method Expands Use of RAD-seq to Degraded Samples

Since RAD-seq was first developed, we’ve seen a number of new versions and approaches from an enthusiastic scientific community. The latest was recently published in PLoS One and demonstrates a RAD-based method suitable for analyzing degraded DNA, an essential step … more »

Posted in Blog | Tagged , , , , , | Comments Off on New hyRAD Method Expands Use of RAD-seq to Degraded Samples

A first genetic map of date palm (Phoenix dactylifera) reveals long-range genome structure conservation in the palms

April 2014 Authors: Lisa S Mathew, Manuel Spannagl, Ameena Al-Malki, Binu George, Maria F Torres, Eman K Al-Dous, Eman K Al-Azwani, Emad Hussein, Sweety Mathew, Klaus FX Mayer, Yasmin Ali Mohamoud, Karsten Suhre and Joel A Malek Info: The first … more »

Posted in Citation | Tagged , , , | Comments Off on A first genetic map of date palm (Phoenix dactylifera) reveals long-range genome structure conservation in the palms

Variant calling in low-coverage whole genome sequencing of a Native American population sample

January 2014 Authors: Chris Bizon, Michael Spiegel, Scott A Chasse, Ian R Gizer, Yun Li, Ewa P Malc, Piotr A Mieczkowski, Josh K Sailsbery, Xiaoshu Wang, Cindy L Ehlers and Kirk C Wilhelmsen Info: Scientists from the University of North … more »

Posted in Citation | Tagged , , | Comments Off on Variant calling in low-coverage whole genome sequencing of a Native American population sample