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Tag Archives: Pippin Prep
The Use of NexGen Sequencing and Junction Sequence Analysis Bioinformatics to Achieve Molecular Characterization of Crops Improved Through Modern Biotechnology
October 2012 Authors: David Kovalic, Carl Garnaat, Liang Guo, Yongpan Yan, Jeanna Groat, Andre Silvanovich, Lyle Ralston, Mingya Huang, Qing Tian, Allen Christian, Nordine Cheikh, Jerry Hjelle, Stephen Padgette and Gary Bannon Info: Materials and Methods: Illumina TruSeq paired-end library … more »
Posted in Citation
Tagged DNA Sequencing, Illumina, Paired-end Sequencing, Pippin Prep
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Draft Genome Sequence of Flavobacterium sp. Strain F52, Isolated from the Rhizosphere of Bell Pepper (Capsicum annuum L. cv. Maccabi)
October 2012 Authors: Max Kolton, Stefan J. Green, Yael Meller Harel, Noa Sela, Yigal Elad, and Eddie Cytryna Info: A brief report of whole genome sequence of a novel Flavobacterium. The bacterial library was created with the EpiCentre Nextera kit. … more »
Posted in Citation
Tagged DNA Sequencing, Illumina, Pippin Prep, Pippin System
Comments Off on Draft Genome Sequence of Flavobacterium sp. Strain F52, Isolated from the Rhizosphere of Bell Pepper (Capsicum annuum L. cv. Maccabi)
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 »
Posted in Citation
Tagged DNA Sequencing, Featured, Illumina, Pippin Prep, Pippin System
Comments Off on Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: a rigorous assessment and optimization of the linker amplification method
Scientists Use Pippin in Sequencing Effort for Seven Cholera Isolates
A paper published this month in BMC Genomics discusses findings from a collaborative project to sequence cholera samples linked to the 2010 outbreak in Haiti — and we’re pleased to report that the Pippin platform from Sage Science was used … more »
Posted in Blog
Tagged DNA Sequencing, Pippin Prep
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High depth, whole-genome sequencing of cholera isolates from Haiti and the Dominican Republic
September 2012 Authors: Rachel Sealfon, Stephen Gire, Crystal Ellis, Stephen Calderwood, Firdausi Qadri, Lisa Hensley, Manolis Kellis, Edward T Ryan, Regina C LaRocque, Jason B Harris, Pardis C Sabeti Info: Study performs high-depth NGS on V. cholerae strains from Haiti … more »
Posted in Citation
Tagged DNA Sequencing, Illumina, Pippin Prep
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Mapping the Hallmarks of Lung Adenocarcinoma with Massively Parallel Sequencing
September 2012 Authors: Marcin Imielinski et al. Info: A landmark study of lung cancer genomes with 183 tumor/normal genomes compared. Sequencing was carried out mainly by the Broad Illumina Platform (8 Pippins in production). The Pippin Prep is cited in … more »
Posted in Citation
Tagged DNA Sequencing, Illumina, Paired-end Sequencing, Pippin Prep
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Publication: Spike-In Standards for Managing Systematic Sequencing Errors
Here’s a paper worth checking out: “Synthetic Spike-in Standards Improve Run-Specific Systematic Error Analysis for DNA and RNA Sequencing” from lead author Justin Zook at the National Institute of Standards and Technology. Published in PLoS One last month, the paper … more »
Posted in Blog
Tagged DNA Sequencing, Pippin Prep, Pippin System, RNA-seq
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Selective Depletion of rRNA Enables Whole Transcriptome Profiling of Archival Fixed Tissue
August 2012 Authors: John D. Morlan, Kunbin Qu, Dominick V. Sinicropi Info: After selective depletion of rRNA by RNAse H digestion (following hybridization to rDNA probes), undigested RNA was prepared for NGS sequencing using Illumina TruSeq or Epicentre Script-seq kits. … more »
Posted in Citation
Tagged Pippin Prep, Pippin System, RNA-seq
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For NRC Team, Pippin Platform Leads to Higher-Quality Assemblies
At the DNA Technologies Laboratory at the National Research Council of Canada, scientists are using the Pippin size selection platform to improve the quality of their genome assemblies. Andrew Sharpe, Research Officer and Group Leader of the Saskatoon-based laboratory, got … more »
Posted in Blog
Tagged BluePippin, DNA Sequencing, Illumina, Mate-pair Sequencing, Paired-end Sequencing, Pippin Prep, Pippin System
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Synthetic Spike-in Standards Improve Run-Specific Systematic Error Analysis for DNA and RNA Sequencing
July 2012 Authors: Justin M. Zook, Daniel Samarov, Jennifer McDaniel, Shurjo K. Sen, Marc Salit Info: New approach to discovery of systematic sequencing errors by use of spike in RNA or DNA control DNAs. Pippin Prep used for RNA-seq library … more »
Posted in Citation
Tagged DNA Sequencing, Illumina, Pippin Prep, Pippin System, RNA-seq
Comments Off on Synthetic Spike-in Standards Improve Run-Specific Systematic Error Analysis for DNA and RNA Sequencing