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 used to size select cDNAs at 250 or 500 bp, followed by TrueSeq library construction and sequencing on the Illumina HiSeq.
Citation:
BMC Genomics 2013 14:563
Comparative genomics of Campylobacter concisus isolates reveals genetic diversity and provides insights into disease association
August 2013
Authors:
Nandan P Deshpande, Nadeem O Kaakoush, Marc R Wilkins and Hazel M Mitchell
Info:
Collaborators at the University of New South Wales sequence several strains of Campylobacter concisus from healthy and diseased (Crohn’s disease and gastroenteritis) individuals for a comparative study. Results showed genetice diversity and identified pathways that may be associated with the diseases. Pippin Prep was used to size select libraries for Illumina HiSeq.
Citation:
BMC Genomics 2013 14:585
A quantitative reference transcriptome for Nematostella vectensis early embryonic development: a pipeline for de novo assembly in emerging model systems
June 2013
Authors:
Sarah Tulin, Derek Aguiar, Sorin Istrail, and Joel Smith
Info:
Scientists from the Marine Biological Laboratory and Brown University developed a new pipeline for de novo transcriptome assembly that can be used with organisms lacking a well-annotated reference genome. The paper describes library preparation and computational analysis processes. Pippin Prep was used for size selection in a standard Illumina workflow and also in conjunction with an Epicentre ScriptSeq™ kit.
Citation:
EvoDevo 2013 4:16
Phylogeographic Origin of Helicobacter pylori Determines Host-Adaptive Responses upon Coculture with Gastric Epithelial Cells
July 2013
Authors:
Alexander Sheh, Rupesh Chaturvedi, D. Scott Merrell, Pelayo Correa, Keith T. Wilson, James G. Fox
Info:
A study of gene expression comparing several strains of H. pylori. The BluePippin was used to size-select fragments to construct paired-end libraries for Illumina MiSeq.
Citation:
Infection and Immunity, July 2013 Volume 81 Number 7
The new sequencer on the block: comparison of Life Technology’s Proton sequencer to an Illumina HiSeq for whole-exome sequencing
June 2013
Authors:
Joseph F. Boland, Charles C. Chung, David Roberson, Jason Mitchell, Xijun Zhang, Kate M. Im, Ji He, Stephen J. Chanock, Meredith Yeager, Michael Dean
Info:
An exome-sequencing study from the NIH comparing Illumina/Nimblegen to Ion Torrent/TargetSeq. Pippin size selection was used for library construction for Ion Proton sequencing.
Citation:
Hum Genet (2013) 132:1153–1163