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Tag Archives: Pippin Prep
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 ddRADseq, genotyping, Illumina, Methods, NextSeq, Pippin Prep, Target Enrichment
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Circulating Extracellular RNA Markers of Liver Regeneration
July 2016 Authors: Irene K. Yan, Xue Wang, Yan W. Asmann, Hiroaki Haga, Tushar Patel Info: Mayo Clinic researchers performed partial hepatectomies in mice and then monitored RNA activity in serum samples to find a signature associated with liver regeneration. … more »
Posted in Citation
Tagged cfRNA, Illumina, MiSeq, Pippin Prep, RNA sequencing
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Genome-wide identification of enhancer elements
June 2016 Authors: Sarah Tulin, Julius C. Barsi, Carlo Bocconcelli, and Joel Smith Info: The authors (from Woods Hole and Cal Tech) present a genome-wide regulatory element database for the sea urchin embryo. To do this, they developed a new … more »
PI3K/AKT Signaling Regulates H3K4 Methylation in Breast Cancer
June 2016 Authors: Jennifer M. Spangle, Koen M. Dreijerink, Anna C. Groner, Hailing Cheng, Carolynn E. Ohlson, Jaime Reyes, Charles Y. Lin, James Bradner, Jean J. Zhao, Thomas M. Roberts, and Myles Brown Info: In this breast cancer research study, … more »
Posted in Citation
Tagged ChIP-Seq, Illumina, Pippin Prep
Comments Off on PI3K/AKT Signaling Regulates H3K4 Methylation in Breast Cancer
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 ddRADseq, genotyping, HiSeq, Illumina, Methods, Pippin Prep
Comments Off on PELE-seq Increases SNP Calling Accuracy by Reducing Sequencing Errors
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 ddRADseq, genotyping, HiSeq, Illumina, Pippin Prep
Comments Off on Urban Mice: NYC Study Sheds Light on Population Diversity and Changes
Urbanization shapes the demographic history of a native rodent (the white-footed mouse, Peromyscus leucopus) in New York City
April 2016 Authors: Stephen E. Harris, Alexander T. Xue, Diego Alvarado-Serrano, Joel T. Boehm, Tyler Joseph, Michael J. Hickerson, Jason Munshi-South Info: Researchers at the City University of New York studied populations of white-footed mice in New York City and … more »
Posted in Citation
Tagged ddRADseq, Pippin Prep
Comments Off on Urbanization shapes the demographic history of a native rodent (the white-footed mouse, Peromyscus leucopus) in New York City
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 genotyping, Illumina, Methods, MiSeq, Pippin Prep, RAD-seq
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Hybridization Capture Using RAD Probes (hyRAD), a New Tool for Performing Genomic Analyses on Collection Specimens
March 2016 Authors: Tomasz Suchan, Camille Pitteloud, Nadezhda S. Gerasimova, Anna Kostikova, Sarah Schmid, Nils Arrigo, Mila Pajkovic, Michał Ronikier, and Nadir Alvarez Info: Scientists present a new protocol based on the RAD-seq concept that works more effectively for samples … more »
Posted in Citation
Tagged Pippin Prep, RAD-seq
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Identification of Human Islet Amyloid Polypeptide as a BACE2 Substrate
February 2016 Authors: Ingrid C. Rulifson, Ping Cao, Li Miao, David Kopecky, Linda Huang, Ryan D. White, Kim Samayoa, Jonitha Gardner, Xiaosu Wu, Kui Chen, Trace Tsuruda, Oliver Homann, Helene Baribault, Harvey Yamane, Tim Carlson, Jed Wiltzius, Yang Li Info: … more »
Posted in Citation
Tagged HiSeq, Illumina, Pippin Prep, RNA sequencing
Comments Off on Identification of Human Islet Amyloid Polypeptide as a BACE2 Substrate