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MVP: a modular viromics pipeline to identify, filter, cluster, annotate, and bin viruses from metagenomes.
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NeLLi — Symposium on New Lineages of Life
… 2023 Symposium” delving into the most recent expansions of the Tree of Life and latest discoveries toward the … Schulz,  New Lineages of Life Lead Emiley Eloe-Fadrosh, Metagenome Program Tanja Woyke, Microbial Program Robert … User Project Coordination Rekha Seshadri,  Functional Annotation Group Natalia Ivanova, Functional Annotation Lead …
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Endogenous short RNAs generated by Dicer 2 and RNA-dependent RNA polymerase 1 regulate mRNAs in the basal fungus Mucor circinelloides
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Improved Assemblies Using a Source-Agnostic Pipeline for MetaGenomic Assembly by Merging (MeGAMerge) of Contigs
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Katherine Louie
… efforts to expand the metabolomics capabilities and product offerings for JGI users.  Using cutting-edge mass … metabolomics with genomic data (MAGI) for functional annotation and identifying unknown compounds (Pactolus). … … Sci Rep. 2013;3: 1656. … Education … Selected Publications …
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Hybrid error correction and de novo assembly of single-molecule sequencing reads
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Accurate, multi-kb reads resolve complex populations and detect rare microorganisms
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Counting dots or counting reads? Complementary approaches to estimate virus-to-microbe ratios
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A Collaboration to Improve Plant Genome Annotations Across Species
… which specializes in genome improvement for plants. As part of that partnership, the JGI and HudsonAlpha researchers led … plant species. It was developed to improve plant genome annotations at the US Department of Energy (DOE) Joint … We did so by analyzing this huge sample set specifically using results from tissue and condition-specific expression …
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Natural Prodcast Episode 4: Nancy Keller
… … DAN: You’re listening to the US Department of Energy Joint Genome Institute’s “Natural Prodcast,” a podcast about the science and scientists of secondary metabolism.  DAN: Welcome back to Natural … some conversations we had with scientists in the field of natural products. So, it’s a departure from the previous …
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Plotting a Model for Virus-Host Warfare Deep Below Ground
Science Altiarchaea are carbon-fixing microbes and targets of multiple viruses in Earth’s deep subsurface. They are … attempts at virus infections. Their genomes include short DNA sequences that code for CRISPR systems, which help … Huber and Sebastien Ferreira-Cerca, and sequencing of MSI metagenomes within the Census of Deep Life Sequencing call …
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A New Actinobacterial Chapter in the Genomic Encyclopedia of Bacteria and Archaea
Large-scale comparative analysis leads to identification of biosynthetic gene clusters for novel secondary … senior author of the study and head of the JGI’s Microbiome Annotation Group. Many of these bacterial and archaeal … resource, but also yielding and supporting many high-impact publications ,” emphasized Markus Göker, who managed the …
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