Citations

Transcriptome Analysis in Venom Gland of the Predatory Giant Ant Dinoponera quadriceps: Insights into the Polypeptide Toxin Arsenal of Hymenopterans

January 2014

Authors:
Alba F. C. Torres, Chen Huang, Cheong-Meng Chong, Siu Wai Leung, Alvaro R. B. Prieto-da-Silva, Alexandre Havt, Yves P. Quinet, Alice M. C. Martins, Simon M. Y. Lee, and Gandhi Radis-Baptista

Info:
Scientists from Brazil and Macao performed a transcriptome analysis of Dinoponera quadriceps, a predatory giant ant, to learn more about its venom. They found novel sequences that contribute to knowledge about the function and biological makeup of the venom’s toxins. The team used Pippin Prep to target 330 bp fragments, which were then sequenced on the Ion Torrent PGM.

Citation:
PLoS ONE 9(1): e87556. doi:10.1371/journal.pone.0087556

10.1371/journal.pone.0087556

Posted in Citation | Tagged , , | Comments Off on Transcriptome Analysis in Venom Gland of the Predatory Giant Ant Dinoponera quadriceps: Insights into the Polypeptide Toxin Arsenal of Hymenopterans

Semiconductor-based DNA sequencing of histone modification states

October 2013

Authors:
Christine S. Cheng, Kunal Rai, Manuel Garber, Andrew Hollinger, Dana Robbins, Scott Anderson, Alyssa Macbeth, Austin Tzou, Mauricio O. Carneiro, Raktima Raychowdhury, Carsten Russ, Nir Hacohen, Jeffrey E. Gershenwald, Niall Lennon, Chad Nusbaum, Lynda Chin, Aviv Regev & Ido Amit

Info:
Researchers at the Broad Institute and collaborators at several institutions provide optimized sample preparation protocols for the generation of ChIP-seq libraries on the Ion Torrent PGM. They showed that Pippin size selection was required to generate usable libraries, even down to sub-nanogram input. Results were comparable to results from Illumina Chip-Seq workflow.

Citation:
Nature Communications 4:2672

http://dx.doi.org/10.1038/ncomms3672

Posted in Citation | Tagged , , | Comments Off on Semiconductor-based DNA sequencing of histone modification states

Mitochondrial Sequence Variation in African-American Primary Open-Angle Glaucoma Patients

October 2013

Authors:
David W. Collins, Harini V. Gudiseva, Benjamin T. Trachtman, Matthew Jerrehian, Thomasine Gorry, William T. Merritt III, Allison L. Rhodes, Prithvi S. Sankar, Meredith Regina, Eydie Miller-Ellis, Joan M.
O’Brien

Info:
Researchers at the University of Pennsylvania deep-sequenced mitochondrial DNA of patients with primary open-angle glaucoma, plus a control group for comparison. They testing a theory implicating variation in mtDNA in this disease, but it could not be confirmed. Pippin Prep was used for size selection of Ion PGM libraries, per the Ion Express protocol.

Citation:
PLoS ONE 8(10): e76627

http://dx.doi.org/10.1371/journal.pone.0076627

Posted in Citation | Tagged , , | Comments Off on Mitochondrial Sequence Variation in African-American Primary Open-Angle Glaucoma Patients

Genetic Basis for the Biosynthesis of the Pharmaceutically Important Class of Epoxyketone Proteasome Inhibitors

October 2013

Authors:
Michelle Schorn, Judith Zettler, Joseph P. Noel, Pieter C. Dorrestein, Bradley S. Moore, and Leonard Kaysser

Info:
Scientists from California and Germany teamed up to study genes that encode for the biosynthesis of an important component of certain proteasome inhibitors used for cancer treatment. The Ion PGM was used to sequence gene clusters in two microbial strains, reporting the first successful characterization of a region producing natural peptidyl-epoxyketones. For this project, libraries were prepared from genomic DNA sheared to 100 bp to 250 bp, after which sequencing material was separated and extracted using Pippin Prep.

Citation:
ACS Chem. Biol. October 2013

http://dx.doi.org/10.1021/cb400699p

Posted in Citation | Tagged , , | Comments Off on Genetic Basis for the Biosynthesis of the Pharmaceutically Important Class of Epoxyketone Proteasome Inhibitors

Genetic Basis for the Biosynthesis of the Pharmaceutically Important Class of Epoxyketone Proteasome Inhibitors

October 2013

Authors:
Michelle Schorn, Judith Zettler, Joseph P. Noel, Pieter C. Dorrestein, Bradley S. Moore, and Leonard Kaysser

Info:
Collaborators in the U.S. and Germany report on the genetic pathway for the production of epoxyketone proteasome inhibitors, used as anti-cancer therapeutic agents, in bacterial strains. The Pippin Prep was used to size select DNA prior to Ion Torrent sequencing.

Citation:
ACS Chem. Biol. 2014, 9, 301−309

doi:10.1021/cb400699p

Posted in Citation | Tagged , , , | Comments Off on Genetic Basis for the Biosynthesis of the Pharmaceutically Important Class of Epoxyketone Proteasome Inhibitors