Citations

Spread of Chikungunya Virus East/Central/South African Genotype in Northeast Brazil

October 2017

Authors:
Antonio Charlys da Costa, Julien Thézé, Shirley Cavalcante Vasconcelos Komninakis, Rodrigo Lopes Sanz-Duro, et al.

Info:
Scientists in Brazil and collaborators in the U.S. and Europe traced the transmission path of a recent chikungunya virus outbreak. They determined the point of origin to be previously undetected transmissions within the country, rather than a new introduction of the virus. The team used Pippin Prep in its metagenomic sequencing pipeline.

Citation:
Emerging Infectious Diseases
Volume 23, Number 10
DOI: 10.3201/eid2310.170307

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Micro RNA’s (miRNA’s) may help explain expression of multiple genes in Alzheimer’s Frontal Cortex

September 2017

Authors:
James Bennett and Paula Keeney


Info:

Scientists from Neurodegeneration Therapeutics used RNA-seq to compare microRNAs found in Alzheimer’s brain samples and controls. They identified 55 up-regulated genes and 191 down-regulated genes in the Alzheimer’s samples. PippinHT was used for small RNA size selection ahead of sequencing on an Illumina NextSeq500.

Citation:
Journal of Systems and Integrative Neuroscience
http://www.oatext.com/micro-rnas-mirnas-may-help-explain-expression-of-multiple-genes-in-alzheimers-frontal-cortex.php#Article

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Rapid and affordable size-selected PacBio single-molecule real-time sequencing template library construction using the bead-beating DNA extraction method

September 2017

Authors:
Kengo Kato, Masanori Hashino, Tamaki Ito, Mari Matsui, et al.

Info:
Researchers developed and validated a streamlined protocol for PacBio sequencing sample prep. The method involves bead-beating for DNA isolation. For the project, the team used Pippin Pulse to perform automated electrophoresis.

Citation:
J Biol Methods 2017;4(3):e79.
doi: 10.14440/jbm.2017.169

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Single molecule counting and assessment of random molecular tagging errors with transposable giga-scale error-correcting barcodes

September 2017

Authors:
Billy Lau and Hanlee Ji

Info:
Scientists aimed to address errors that occur with conventional molecular barcodes for RNA-seq workflows. They developed transposable error-correcting barcodes with tens of billions of unique labels and found that this approach mitigates such problems. They validated the approach in a project that incorporated Pippin Prep to remove PCR products smaller than 500 bp.

Citation:
BMC Genomics 201718:745
doi: 10.1186/s12864-017-4141-4

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Complete Genome Sequences of Seven Strains Composing a Model Bacterial Community of Maize Roots

September 2017

Authors:
Ben Niu and Roberto Kolter

Info:
Scientists from Harvard Medical School released the full genome sequences of seven bacterial species they chose for a model community to understand microbial effects on the growth of maize root. They found that these bacteria have protective effects, suppressing the growth of pathogens. Sequencing was performed on the PacBio RS II with BluePippin sizing for 20 Kb libraries.

Citation:
Genome Announc. 2017 Sep; 5(36): e00997-17.
doi: 10.1128/genomeA.00997-17

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