Tag Archives: Pippin Prep

Publication: Spike-In Standards for Managing Systematic Sequencing Errors

Posted on August 28, 2012 by Alex

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 »

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Selective Depletion of rRNA Enables Whole Transcriptome Profiling of Archival Fixed Tissue

Posted on August 23, 2012 by Alex

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 »

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For NRC Team, Pippin Platform Leads to Higher-Quality Assemblies

Posted on July 24, 2012 by Alex

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 »

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Synthetic Spike-in Standards Improve Run-Specific Systematic Error Analysis for DNA and RNA Sequencing

Posted on July 23, 2012 by Alex

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 »

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Broad Institute Teams with Sage Science for Automated Sizing

Posted on June 20, 2012 by Alex

Don’t miss this great blog post from the Broad Institute (“A Sage partnership”) describing collaborative work between their genome sequencing team and Sage Science to design a better size selection process for the Broad’s sequencing pipeline. Headed up by Sheila … more »

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Automated Size Selection Key for RADseq: PLoS One Publication

Posted on June 11, 2012 by Alex

Congratulations to Sage Science customer Hopi Hoekstra and her team at Harvard University for their recent publication in PLoS One! Dr. Hoekstra, who works in the Organismic & Evolutionary Biology and the Molecular & Cellular Biology departments at Harvard, reports … more »

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Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

Posted on May 23, 2012 by Alex

May 2012 Authors: Brant K. Peterson, Jesse N. Weber, Emily H. Kay, Heidi S. Fisher, Hopi E. Hoekstra Info: An NGS method that allows inexpensive HT genotyping at moderate depth without prior knowledge of any markers. A high impact paper. … more »

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At Emory, Size Selection Saves Time for NGS Prep

Posted on May 17, 2012 by Alex

At the genome center at Emory University, scientists credit the Pippin Prep with shaving almost a full day off the sample prep process for Illumina’s mate-pair library prep. Chad Haase, laboratory manager at the Emory GRA Genome Center, says that … more »

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New Cassettes Use Internal Standards

Posted on April 27, 2012 by Alex

We’ve just released new dye-free cassettes for the BluePippin and Pippin Prep that use dye-labeled DNA markers* as internal standards, instead of typical external marker set. In the new product, the labeled markers will come premixed wi th the Ficoll … more »

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“Overflow Detection” definition on the Pippin Prep to be eliminated

Posted on April 17, 2012 by Alex

| | Pippin Prep users are likely familiar with our “overflow detection” cassette definitions that are found in the “Cassette Type” drop down menu of the Protocol Editor. We use these definitions because Pippin cassettes exhibit a phenomenon where the … more »

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