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Category Archives: Citation
Generation of Full-Length Class I Human Leukocyte Antigen Gene Consensus Sequences for Novel Allele Characterization
December 2016 Authors: Peter M. Clark, Jamie L. Duke, Deborah Ferriola, Valia Bravo-Egana, Tunde Vago, Aniqa Hassan, Anna Papazoglou, and Dimitri Monos Info: Scientists from The Children’s Hospital of Philadelphia evaluated an NGS-based HLA typing kit from Omixon. They analyzed … more »
Posted in Citation
Tagged HLA, MiSeq, Pippin Prep
Comments Off on Generation of Full-Length Class I Human Leukocyte Antigen Gene Consensus Sequences for Novel Allele Characterization
Plasmids from Shiga Toxin-Producing Escherichia coli Strains with Rare Enterohemolysin Gene (ehxA) Subtypes Reveal Pathogenicity Potential and Display a Novel Evolutionary Path
November 2016 Authors: Sandra C. Lorenz, Steven R. Monday, Maria Hoffmann, Markus Fischer and Julie A. Kase Info: Scientists from the US FDA and the University of Hamburg used PacBio sequencing to characterize plasmids associated with heightened virulence in Shiga … more »
Posted in Citation
Tagged BluePippin, PacBio
Comments Off on Plasmids from Shiga Toxin-Producing Escherichia coli Strains with Rare Enterohemolysin Gene (ehxA) Subtypes Reveal Pathogenicity Potential and Display a Novel Evolutionary Path
Very Short Mitochondrial DNA Fragments and Heteroplasmy in Human Plasma
November 2016 Authors: Ruoyu Zhang, Kiichi Nakahira, Xiaoxian Guo, Augustine M.K. Choi & Zhenglong Gu Info: Scientists at Cornell University studied cell-free mitochondrial DNA found in plasma samples collected from sepsis patients. Along the way, they optimized sample prep protocols … more »
Posted in Citation
Tagged BluePippin
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Depletion of tRNA-halves enables effective small RNA sequencing of low-input murine serum samples
November 2016 Authors: Alan Van Goethem, Nurten Yigit, Celine Everaert, Myrthala Moreno-Smith, et al. Info: Scientists at Ghent University and Baylor College of Medicine evaluated protocols for depleting abundant RNAs from blood and serum samples to improve the ability to … more »
Posted in Citation
Tagged microRNA, Pippin Prep
Comments Off on Depletion of tRNA-halves enables effective small RNA sequencing of low-input murine serum samples
Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome
November 2016 Authors: Eileen P Hamilton, Aurélie Kapusta, Piroska E Huvos, Shelby L Bidwell, et al. Info: A large team of scientists in Asia, Europe, and the U.S. collaborated for this study of Tetrahymena thermophile, for which they produced a complete sequence assembly. They … more »
Posted in Citation
Tagged HiSeq, Pippin Prep
Comments Off on Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome
Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data
September 2016 Authors: Jianwei Zhang, Ling-Ling Chen, Shuai Sun, et al. Info: In this paper, researchers report generating two reference-quality genome assemblies for Oryza sativa subspecies. They publicly released both assemblies, which were built using PacBio and Illumina sequencing technology. … more »
Posted in Citation
Tagged BluePippin, PacBio
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Production of the Bioactive Compounds Violacein and Indolmycin Is Conditional in a maeA Mutant of Pseudoalteromonas luteoviolaceaS4054 Lacking the Malic Enzyme
September 2016 Authors: Mariane S. Thøgersen, Marina W. Delpin, Jette Melchiorsen, Mogens Kilstrup, Maria Månsson, Boyke Bunk, Cathrin Spröer, Jörg Overmann, Kristian F. Nielsen, and Lone Gram Info: A team of scientists analyzed biological compounds produced by Pseudoalteromonas luteoviolacea, a … more »
Posted in Citation
Tagged BluePippin, PacBio
Comments Off on Production of the Bioactive Compounds Violacein and Indolmycin Is Conditional in a maeA Mutant of Pseudoalteromonas luteoviolaceaS4054 Lacking the Malic Enzyme
The two chromosomes of the mitochondrial genome of a sugarcane cultivar: assembly and recombination analysis using long PacBio reads
August 2016 Authors: Jeremy R. Shearman, Chutima Sonthirod, Chaiwat Naktang, Wirulda Pootakham, Thippawan Yoocha, Duangjai Sangsrakru, Nukoon Jomchai, Somvong Tragoonrung, and Sithichoke Tangphatsornruang Info: Scientists in Thailand used long-read sequencing to assemble the mitochondrial genome of a sugarcane cultivar from … more »
Posted in Citation
Tagged BluePippin, PacBio
Comments Off on The two chromosomes of the mitochondrial genome of a sugarcane cultivar: assembly and recombination analysis using long PacBio reads
A draft genome of the brown alga, Cladosiphon okamuranus, S-strain: a platform for future studies of ‘mozuku’ biology
August 2016 Authors: Koki Nishitsuji, Asuka Arimoto, Kenji Iwai, Yusuke Sudo, Kanako Hisata, Manabu Fujie, Nana Arakaki, Tetsuo Kushiro, Teruko Konishi, Chuya Shinzato, Noriyuki Satoh and Eiichi Shoguchi Info: Scientists from Japan sequenced the genome of Cladosiphon okamuranus, an edible … more »
Posted in Citation
Tagged BluePippin, DNA Sequencing, HiSeq, Illumina, MiSeq
Comments Off on A draft genome of the brown alga, Cladosiphon okamuranus, S-strain: a platform for future studies of ‘mozuku’ biology
DSBCapture: in situ capture and sequencing of DNA breaks
August 2016 Authors: Stefanie V Lensing, Giovanni Marsico, Robert Hänsel-Hertsch, Enid Y Lam, David Tannahill & Shankar Balasubramanian Info: Scientists at Cancer Research UK developed and validated a new sequencing-based protocol to spot double-stranded DNA breaks in situ; these regions … more »
Posted in Citation
Tagged BluePippin, DNA Sequencing, Illumina, Methods, NextSeq
Comments Off on DSBCapture: in situ capture and sequencing of DNA breaks