Author Archives: Alex

Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning

Posted on March 12, 2018 by Alex

February 2018 Authors: Bradley Colquitt, David Mets, and Michael Brainard Info: Scientists generated a high-quality draft genome and gene annotation for Bengalese finch, which has a more variable song than other finches, making it an important model for sensorimotor learning. … more »

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Ribonuclease Inhibitor 1 regulates erythropoiesis by controlling GATA1 translation

Posted on March 12, 2018 by Alex

February 2018 Authors: Vijaykumar Chennupati, Diogo Veiga, Kendle Maslowski, Nicola Andina, et al. Info: Scientists studying the ribonuclease inhibitor protein found that it controls translation of GATA1 and thereby regulates erythropoiesis, helping to explain anemia-associated diseases caused by mutations in … more »

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Oligomeric proanthocyanidins (OPCs) target cancer stem-like cells and suppress tumor organoid formation in colorectal cancer

Posted on March 12, 2018 by Alex

February 2018 Authors: Shusuke Toden, Preethi Ravindranathan, Jinghua Gu, Jacob Cardenas, Madelaine Yuchang & Ajay Goel Info: Scientists from Baylor University Medical Center studied the chemoprotective role of oligomeric proanthocyanidins, finding that they inhibited cellular proliferation and spurred apoptosis. RNA … more »

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Identification of a precursor processing protease from the spider Cupiennius saleiessential for venom neurotoxin maturation

Posted on March 12, 2018 by Alex

February 2018 Authors: Nicolas Langenegger, Dominique Koua, Stefan Schürch, Manfred Heller, Wolfgang Nentwig and Lucia Kuhn-Nentwig Info: In this paper, scientists from the University of Bern and collaborators report the identification and purification of a protease that’s an important neurotoxin … more »

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Transcription-associated mutation promotes RNA complexity in highly expressed genes — a major new source of selectable variation

Posted on March 12, 2018 by Alex

February 2018 Authors: Shengkai Pan, Michael Bruford, Yusong Wang, Zhenzhen Lin, et al. Info: In this project, researchers studied transcriptomes in falcons, mice, and chickens and found that highly expressed genes are more likely to alternatively spliced. They also studied … more »

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Podcast: Blogger Keith Robison on the State of Sequencing

Posted on February 27, 2018 by Alex

A new podcast from Mendelspod takes a look at the state of sequencing in 2018. It’s a lively and interesting discussion about the current and future landscape of genomics between host Theral Timpson and Keith Robison, founder of the Omics! … more »

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Assembly and RNA‐free annotation of highly heterozygous genomes: The case of the thick‐billed murre (Uria lomvia)

Posted on February 27, 2018 by Alex

January 2018 Authors: Anna Tigano, Timothy Sackton, and Vicki Friesen Info: Researchers at Queen’s University and Harvard teamed up for an effort to assemble the highly heterozygous genome of an arctic colonial seabird. The found that the platanus assembler outperformed … more »

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At AGBT, Scientists Offer Data on Size Selection for HMW DNA

Posted on February 13, 2018 by Alex

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 »

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SageELF Enables Targeted RenSeq Capture for PacBio Sequencing

Posted on February 13, 2018 by Alex

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 »

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Genomics of Corynebacterium striatum, an emerging multidrug-resistant pathogen of immunocompromised patients

Posted on February 12, 2018 by Alex

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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