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Category Archives: Citation
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 … more »
Posted in Citation
Tagged Pippin Pulse
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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 … more »
Posted in Citation
Tagged Pippin Prep
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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 … more »
Posted in Citation
Tagged BluePippin, PacBio
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A SINE insertion in ATP1B2 in Belgian Shepherd dogs affected by spongy degeneration with cerebellar ataxia (SDCA2)
August 2017 Authors: Nico Mauri, Miriam Kleiter, Elisabeth Dietschi, Michael Leschnik, et al. Info: Scientists in Europe and the US studied the genetic basis for a neurodegenerative disorder in dogs. Through whole genome sequencing data, they found a SINE insertion … more »
Dual redundant sequencing strategy: Full-length gene characterisation of 1056 novel and confirmatory HLA alleles
August 2017 Authors: Albrecht V, Zweiniger C, Surendranath V, Lang K, et al. Info: Scientists in Germany describe a high-throughput approach for characterizing novel HLA alleles. The method involves sequencing the full gene with PacBio and MiSeq. For PacBio sequencing, … more »
Posted in Citation
Tagged BluePippin, HLA, MiSeq, PacBio
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Intestinal Enteroendocrine Lineage Cells Possess Homeostatic and Injury-Inducible Stem Cell Activity
July 2017 Authors: Kelley Yan, Olivier Gevaert, Grace Zheng, Benedict Anchang, et al. Info: In this project from scientists at Stanford University School of Medicine and other institutions, comparative RNA-seq was used to analyze putative mouse intestinal stem cells. The … more »
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Tagged Pippin Prep, RNA-seq
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Differential regulation of miRNA and mRNA expression in the myocardium of Nrf2 knockout mice
July 2017 Authors: Justin Quiles, Madhusudhanan Narasimhan, Gobinath Shanmugam, Brett Milash, John Hoidal, and Namakkal Rajasekaran Info: Scientists from the University of Alabama at Birmingham and other institutions studied a gene previously associated with oxidative stress, analyzing differential expression in … more »
Posted in Citation
Tagged HiSeq, microRNA, Pippin Prep
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Transcriptome Profiling Using Single-Molecule Direct RNA Sequencing Approach for In-depth Understanding of Genes in Secondary Metabolism Pathways of Camellia sinensis
July 2017 Authors: Qingshan Xu, Junyan Zhu, Shiqi Zhao, Yan Hou, et al. Info: Scientists from Anhui Agricultural University in China performed long-read transcriptome sequencing of the tea plant Camellia sinensis to better understand its production of flavonoids, theanine, and … more »
Posted in Citation
Tagged BluePippin, PacBio, transcriptome
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Error rates, PCR recombination, and sampling depth in HIV-1 whole genome deep sequencing
July 2017 Authors: Fabio Zanini, Johanna Brodin, Jan Albert, Richard Neher Info: Researchers in Germany and Sweden expounded on a previous deep sequencing study of HIV-1 populations to evaluate challenges such as error profiles and proper controls. For the whole … more »
Posted in Citation
Tagged BluePippin
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The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly
June 2017 Authors: An-Yun Chang, Stephane Castel, Evan Ernst, Hyun Soo Kim, Robert Martienssen Info: Cold Spring Harbor Laboratory researchers studied the Rct1 protein in S. pombe and found that it is involved in processing pericentromeric transcripts into siRNAs. For … more »
Posted in Citation
Tagged BluePippin, MiSeq, siRNA
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