Tag Archives: Pippin System

Improved Protocols for Illumina Sequencing

October 2013 Authors: Iraad F. Bronner, Michael A. Quail, Daniel J. Turner, and Harold Swerdlow Info: A comprehensive overview of the state-of-the state of Illumina sequencing, from the Wellcome Trust Sanger Institute and Oxford Nanopore Technologies. The value of narrow … more »

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In Skin Microbiome Study, Scientists Find Host Genotype Influences Bacterial Populations

A paper that came out in the Journal of Innate Immunity this summer reports that a person’s genotype affects which microbes will colonize his or her skin, which in turn may alter that person’s defense mechanisms against pathogenic organisms. “Skin … more »

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See You at BioConference Live: Genetics and Genomics

This week brings a new experience for us: Sage is participating in a virtual conference! For those of you not yet familiar with it, BioConference Live runs several meetings each year, all 100 percent online. Attendees can tune in for … more »

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De novo transcriptome assembly of drought tolerant CAM plants, Agave deserti and Agave tequilana

August 2013 Authors: Stephen M Gross, Jeffrey A Martin, June Simpson, María Jazmín Abraham-Juarez, Zhong Wang and Axel Visel Info: Agave is an interesting plant for bioenergy study. This paper provides transcriptome data of two strains. The Pippin Prep was … more »

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Skin Microbiome Imbalance in Patients with STAT1/STAT3 Defects Impairs Innate Host Defense Responses

Authors: Sanne P. Smeekens, c Curtis Huttenhower, Anca Riza, Frank L. van de Veerdonk, Patrick L.J.M. Zeeuwen, Joost Schalkwijk, Jos W.M. van der Meer, Ramnik J. Xavier, Mihai G. Netea, Dirk Gevers Info: Genomic DNA was subjected to 16S PCR … more »

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A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology

June 2013 Authors: A. Murat Eren, Joseph H. Vineis., Hilary G. Morrison, Mitchell L. Sogin Info: The authors present a method of library preparation for overlapping paired-end sequencing on the Illumina platform, and improved analysis software, to reduce the error … more »

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Deciphering the Growth Behaviour of Mycobacterium africanum

May 2013 Authors: Florian Gehre, Jacob Otu, Kathryn DeRiemer, Paola Florez de Sessions, Martin L. Hibberd, Wim Mulders, Tumani Corrah, Bouke C. de Jong, Martin Antonio Info: The Pippin Prep was used to size select libraries prepared with the New … more »

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FOXO1 regulates expression of a microRNA cluster on X chromosome

May 2013 Authors: Ruchi Singhal, Jonathan E. Bard, Norma J. Nowak, Michael J.Buck, and Eugene S. Kandel Info: The Pippin Prep was used in size selection with the Illumina TruSeq Small RNA sequencing protocol. Citation: AGING 5(5): 347-356 http://www.impactaging.com/papers/v5/n5/full/100558.html

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Shining a Light on Dark Sequencing: Characterising Errors in Ion Torrent PGM Data

April 2013 Authors: Lauren M. Bragg, Glenn Stone, Margaret K. Butler, Philip Hugenholtz, Gene W. Tyson Info: The authors use the Pippin Prep as an alternative to gel purification for isolating PCR fragments. The authors note that manual gel purification … more »

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At TGAC, Pippin-Aided Sequencing Gives Quality Boost to Genome Assemblies

Before a new technology is deployed at The Genome Analysis Centre in Norwich, UK, it must run the gauntlet of Matthew Clark’s lab. Clark is the sequencing technology development leader at TGAC, where part of his role involves testing out … more »

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