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Conserved unique peptide patterns (CUPP) online platform 2.0: implementation of +1000 JGI fungal genomes.
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JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom
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The Megadata of Lake Mendota - Part 2: Souped Up Computing
… is the story of a giant metagenome assembly from Wisconsin’s Lake Mendota. In this episode: a look at the supercomputing that stitches together large datasets with the assembler program MetaHipMer2. Oak Ridge National Lab is home to two …
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IMG/VR
… JGI's Simon Roux describes the structure and content of the IMG/VR v3 database (img.jgi.doe.gov/vr), the latest release of IMG database dedicated to … through the more than 2 million viral sequences available in IMG/VR v3. …
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Steven Wilson
… Since 2018, Mr. Wilson has served as the Systems Engineering Group lead.   The group is responsible for … the JGI as an Instrumentation Engineer where he added structure and process to the group by developing SOPs for … BS in BioEngineering, University of California, Berkeley …
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2025 Progress Report
… Mi Yan, Deanna Beatty)    Vision  Lead AI-driven genomic innovation to advance biotechnology. Mission  As a U.S. … supported by the Biological and Environmental Research program, the Joint Genome Institute provides advanced genomic capabilities, …
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First Monoploid Reference Sequence of Sugarcane
… and have two sets of chromosomes, one from each parent. In contrast, many crops have multiple sets of chromosomes … on a genotype with two identical sets of chromosomes to produce a monoploid reference sequence. For the highly polyploid … and maize, sugarcane can grow on nutrient-poorer soils and does not need to be planted annually. The modern sugarcane …
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Calculating the Costs of Multiple Switchgrass Gene Copies
… led by researchers at the University of Texas (UT) at Austin, the HudsonAlpha Institute for Biotechnology … (HudsonAlpha), and the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science … and as a feedstock for biomass-based biofuel production. As seen with many commonly cultivated commercial …
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Accelerating Metagenomics Discoveries with Deep Learning
… Berkeley National Laboratory (Berkeley Lab) and other institutions shared their works-in-progress with 86 … a computational biologist at the US Department of Energy (DOE) Joint Genome Institute (JGI), presented on generating … vector representations of proteins in order to conduct more efficient protein sequence alignments. He also aims …
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An Automated Tool for Assessing Virus Data Quality
… fragments and data quality. The Science Through advances in sequencing technologies and computational approaches, … The microbes that play key roles in cycling nutrients such as carbon, nitrogen and sulfur are themselves regulated … Biotechnology , a team from the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science …
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Duplications and losses of genes encoding known elements of the stress defence system of the Aspergilli contribute to the evolution of these filamentous fungi but do not directly influence their environmental stress tolerance
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An Addiction Crucial to a Fungus’ Reproduction
… relies on bacteria to regulate key components of its reproductive machinery The Science To better understand how beneficial … University and scientists at the Joint Genome Institute, a DOE Office of Science User Facility was conducted to … and the National Institutes of Health. The work conducted by the U.S. Department of Energy Joint Genome …
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