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Author Archives: Alex
At AGBT, Scientists Offer Data on Size Selection for HMW DNA
Even Orlando’s sky-high humidity can’t get us down during a fast-paced AGBT meeting where size selection and HMW DNA have been front and center since the opening session. Last night we enjoyed a plenary talk from Ami Bhatt, a scientist … more »
SageELF Enables Targeted RenSeq Capture for PacBio Sequencing
We’ve had targeted capture on the brain lately as we work with collaborators to put the finishing touches on our HLS-CATCH method for selecting large genomic elements using Cas9 guides and the SageHLS system. So today, we wanted to revisit … more »
Genomics of Corynebacterium striatum, an emerging multidrug-resistant pathogen of immunocompromised patients
January 2018 Authors: K. Nudel, X. Zhao, S. Basu, X. Dong, et al. Info: Scientists from Harvard Medical School and other institutions used whole genome sequencing and MALDI/TOF to analyze seven C. striatum infections, all resistant to multiple drugs. They … more »
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Tagged BluePippin, PacBio
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Isoform Sequencing and State-of-Art Applications for Unravelling Complexity of Plant Transcriptomes
January 2018 Authors: Dong An, Hieu X. Cao, Changsheng Li, Klaus Humbeck and Wenqin Wang Info: In this paper, researchers offer best practices for using the Iso-Seq method with PacBio sequencing to analyze plant transcriptomes. They recommend BluePippin for size … more »
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Finding Nemo: Hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the Clownfish (Amphiprion ocellaris) genome assembly
January 2018 Authors: Mun Hua Tan, Christopher Austin, Michael Hammer, Yin Peng Lee, Laurence Croft, Han Ming Gan Info: This paper presents the first hybrid genome assembly of Amphiprion ocellaris, the clown anemonefish. The team combined data from Illumina and … more »
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Tagged BluePippin, ONT
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Characterization of plasmids harboring blaCTX-M and blaCMY genes in E. coli from French broilers
January 2018 Authors: Fabrice Touzain, Laetitia Le Devendec, Claire de Boisséson, Sandrine Baron, et al. Info: In this study of avian E. coli collected from slaughterhouses or diseased broilers, scientists analyzed resistance to extended-spectrum cephalosporins. Sequencing was performed with Illumina … more »
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Tagged BluePippin, PacBio
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Fireworks, Genomics, and HLS-CATCH at AGBT in Orlando
The regular Super Bowl may have gone down last weekend, but the genomics Super Bowl is still to come with next week’s Advances in Genome Biology & Technology meeting in Orlando. The Sage Science team can’t wait. AGBT is our … more »
Expert Q&A: Smithsonian Scientists on Evaluating DNA Quality
With the rapid adoption of long-read sequencing and other technologies that require high molecular weight DNA input, there is rising demand for high-quality samples from biorepositories around the world. To accommodate this, scientists at the Smithsonian Institution’s National Museum of … more »
San Diego Is Calling: Are You Ready for PAG?
It’s the start of a bright, shiny new year. If you’ve been in the genomics field long enough, you know that can mean only one thing: we’re getting ready for PAG! Officially the Plant and Animal Genome XXVI Conference, this … more »
New Mosquito Assembly to Accelerate Science and Insect Control
There’s a lot to love about the new preprint announcing the first-ever truly high-quality reference genome assembly for the Aedes aegypti mosquito. The large consortium of scientists — the paper features a total of 72 co-authors — came together on … more »
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