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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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Nikos Kyrpides
… genomes and metagenomes (IMG). He became the Metagenomics Program head in 2010 and has the combined Microbial … genome analysis and Bioinformatics core at Integrated Genomics Inc. in Chicago, IL. He did his postdoctoral studies … . 39(4):499-509 Danko D, et al. 2021. A global metagenomic map of urban microbiomes and antimicrobial resistance. Cell …
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RegPrecise web services interface: programmatic access to the transcriptional regulatory interactions in bacteria reconstructed by comparative genomics
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Whole metagenome sequencing and 16S rRNA gene amplicon analyses reveal the complex microbiome responsible for the success of enhanced in-situ reductive dechlorination (ERD) of a tetrachloroethene-contaminated Superfund site
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Digging into Microbial Ecosystems Deep Underground
… deep underground, and before the pandemic, they took the JGI on a sampling field trip. One of the questions they’re … have tapped into the resources and capabilities of both the JGI and the Environmental Molecular Science Laboratory (EMSL) at Pacific Northwest National Laboratory. Letters of …
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Extracting the Secrets of Secondary Metabolites
… has historically been limited due to the lack of robust tools available for carrying CRISPR into microorganisms. … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … of a cre recombinase gene and mutually exclusive lox sites. Ultimately, this process enables researchers to …
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New Vision, New Mission, New Plan: The JGI’s Next Five Years
New 5-year strategic plan outlines how the JGI will advance the bioeconomy, leveraging partnerships to … released its newest 5-Year Strategic Plan: Innovating Genomics to Serve the Changing Planet (download a copy at … expect to offer our user community an exciting range of new tools and capabilities to support their scientific …
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JGI-Enabled Research Demonstrates the Existence of New Methane-Makers
… the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … .  Finding Methane-Making Microbes with Metagenomics  By leveraging metagenomics to sample the entirety of … (FICUS) with the Environmental Molecular Sciences Lab (EMSL), another DOE user facility located at Pacific …
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Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil
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An Integrated Dataset to Understand Ecosystem Interaction
… managed through human intervention. By leveraging metagenomics, scientists were able to analyze the DNA of microbes … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … The work builds off a longstanding partnership between the JGI and Oak Ridge National Laboratory, dating back to the …
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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… of meta-analyses boosted by AI and Machine Learning — JGI researchers and collaborators work to create FAIR … This group included Elisha Wood-Charlson, User Engagement Lead for the DOE Systems Biology Knowledgebase … this was the first workshop of its kind on SIP metagenomics,” Malmstrom said.  Increasingly, efforts like these …
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2024 Progress Report
The Integrative Genomics Building (IGB) seen above is home to the DOE Joint Genome Institute (JGI). Researchers from the DOE Systems Biology Knowledgebase … our planet encode these functions in their genomes, and the JGI is uniquely positioned to combine sequencing, DNA …
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