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Identification of candidate genes in Arabidopsis and Populus cell wall biosynthesis using text-mining, co-expression network analysis and comparative genomics
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In marine Bacteroidetes the bulk of glycan degradation during algae blooms is mediated by few clades using a restricted set of genes
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Decomposing a San Francisco estuary microbiome using long-read metagenomics reveals species- and strain-level dominance from picoeukaryotes to viruses
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What Happens Underground Influences Global Nutrient Cycles
… being conducted through the  Belowground Biogeochemistry Scientific Focus Area (SFA), supported by the Terrestrial … are not expected to be expert users on all of the scientific instruments. Instead, members of the scientific staff from both user facilities work with the …
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From Intern to Published Scientist: The Journey of a JGI-UC Merced Intern
… of their work into a written report that is published in a scientific journal is the ultimate achievement. To get to … a gene sequence-based predictor of gene expression levels using machine learning tools. “This was very exciting to see …
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Building Sphagnum Genomic Resources
… a number of resources to build up Sphagnum as a plant model system focused on carbon cycling studies, rather than … Laboratory make the case for  sphagnum as “an unparalleled model system for ecological and evolutionary genomics .” … strengthen the case for Sphagnum as a versatile model system for studies of carbon cycling in diverse …
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A Natural Mechanism Can Turbocharge Viral Evolution
For a virus with a “head-tail” morphology, this means using proteins on its tail fibers to latch onto a specific … research used resources of the National Energy Research Scientific Computing Center (NERSC), a U.S. Department of …
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The ectomycorrhizal fungus Paxillus involutus converts organic matter in plant litter using a trimmed brown‐rot mechanism involving Fenton chemistry
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Len Pennacchio
… epilepsy and subsequently generated one of the first mouse models for this common neurological disorder. In 1999, he … technical JGI directions for DOE User science. … Complete Publications Genomic Technologies Program Defining the vast … Berkeley Laboratory Director’s Award for Exceptional Scientific Achievement 2017-  Adjunct Professor UC-Berkeley …
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Accelerating Metagenomics Discoveries with Deep Learning
… that low sequence identity may belie. The technology he’s using is magical; transform any length of amino acid … costly approaches such as BLAST and hidden Markov models (HMMs), “You just compute the distance between two … and computational analysis that enable systems-based scientific approaches to these challenges.  DOE’s Office of …
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A Collaboration to Improve Plant Genome Annotations Across Species
… on a few species like Arabidopsis or rice as homology models for computational function predictions and also due … from two ecotypes of  Panicum hallii and multiple switchgrass ( Panicum virgatum ) experimental data. Sarah:  How … We did so by analyzing this huge sample set specifically using results from tissue and condition-specific expression …
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Examining the Relationship Between the Testate Amoeba Hyalosphenia papilio (Arcellinida, Amoebozoa) and its Associated Intracellular Microalgae Using Molecular and Microscopic Methods
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