Tag Archives: genotyping

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

Posted on August 31, 2016 by Alex

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

Posted on July 27, 2016 by Alex

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

Posted on July 13, 2016 by Alex

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

Posted on May 12, 2016 by Alex

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

Posted on March 31, 2016 by Alex

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

Posted on April 7, 2014 by Alex

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

Posted on January 5, 2014 by Alex

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