Citations

Glutamine methylation in histone H2A is an RNA-polymerase-I-dedicated modification

January 2014

Authors:
Peter Tessarz, Helena Santos-Rosa, Sam C. Robson, Kathrine B. Sylvestersen, Christopher J. Nelson1, Michael L. Nielsen and Tony Kouzarides

Info:
The authors describe a new class of histone modification, methylation of glutamine, occurring on yeast histone H2A. The data suggests that this is the first histone epigenetic mark dedicated to a specific RNA polymerase. Pippin Prep was used to size select ChIP seq libraries prior to Illumina sequencing.

Citation:
Nature, 505 (23) January 2014

http://dx.doi.org/10.1038/nature12819

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Clinical and pathological heterogeneity of a congenital disorder of glycosylation manifesting as a myasthenic/myopathic syndrome

January 2014

Authors:
Dorota M. Monies, Hindi N. Al-Hindi, Mohamed A. Al-Muhaizea, Dyala J. Jaroudi, Banan Al-Younes, Ewa A. Naim, Salma M. Wakil, Brian F. Meyer, Saeed Bohlega

Info:
Collaborators at the King Faisal Specialist Hospital and the Kink Abdulaziz City for Science and Technology, Saudi Arabia, identify an homozygous mutation of ALG2 that is related to congenital muscle weakness disorders. The Pippin Prep was used in sample prep for whole exome sequencing (TargetSeq) on the Ion Torrent Proton

Citation:
Neuromuscul Disord (2014)

http://dx.doi.org/10.1016/j.nmd.2013.12.010

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Epigenetic Regulation of the DLK1-MEG3 MicroRNA Cluster in Human Type 2 Diabetic Islets

January 2014

Authors:
Vasumathi Kameswaran, Nuria C. Bramswig, Lindsay B. McKenna, Melinda Penn, Jonathan Schug, Nicholas J. Hand, Ying Chen, Inchan Choi, Anastassios Vourekas, Kyoung-Jae Won, Chengyang Liu, Kumar Vivek, Ali Naji, Joshua R. Friedman, and Klaus H. Kaestner

Info:
Researchers at the University of Pennsylvania and the Children’s Hospital of Philadelphia compared small RNAs from tissue samples taken from people with and without type 2 diabetes mellitus. They found evidence that a specific cluster of microRNAs was downregulated in diabetes patients, with the promoter of that locus hypermethylated. Pippin Prep was used to size-select microRNAs for sequencing.

Citation:

Cell Metabolism (2014)

doi:10.1016/j.cmet.2013.11.016

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Molecular indexing enables quantitative targeted RNA sequencing and reveals poor efficiencies in standard library preparations

January 2014

Authors:
Glenn K. Fu, Weihong Xu, Julie Wilhelmy, Michael N. Mindrinos, Ronald W. Davis, Wenzhong Xiao, and Stephen P. A. Fodor

Info:
Scientists from Cellular Research and Stanford University describe a method for improving the use of RNA-seq for absolute quantification of gene expression by barcoding cDNA molecules. This molecular indexing method allowed the team to perform deep sampling and to quantify rare transcripts. Pippin Prep was used for sizing of the cDNA sample as well as for size selection in the digital PCR validation protocol.

Citation:
PNAS 2014 111 (5) 1891–1896

doi:10.1073/pnas.1323732111

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Variant calling in low-coverage whole genome sequencing of a Native American population sample

January 2014

Authors:
Chris Bizon, Michael Spiegel, Scott A Chasse, Ian R Gizer, Yun Li, Ewa P Malc, Piotr A Mieczkowski, Josh K Sailsbery, Xiaoshu Wang, Cindy L Ehlers and Kirk C Wilhelmsen

Info:
Scientists from the University of North Carolina at Chapel Hill tested Thunder, a linkage disequilibrium-aware variant caller, on a community sample of Native Americans and determined that low-coverage whole genome sequencing is better at finding novel variants and associations than fixed-content genotyping arrays. They used Pippin Prep to select fragments of 300 base pairs for sequencing on the HiSeq 2000.

Citation:
BMC Genomics 2014, 15:85

doi:10.1186/1471-2164-15-85

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