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Nikos Kyrpides
… 6(7):960-970. Nayfach S, et al. (2021) CheckV assesses the quality and completeness of metagenome-assembled viral … . 8674:00585-7. Nayfach S et al. 2021. CheckV assesses the quality and completeness of metagenome-assembled viral …
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Simon Roux
… Dr. Roux joined the JGI in 2017 to lead viral genomics research as part of the … development of novel computational tools to identify virus sequences, the design of new experimental approaches to link viruses to their host(s), collaboration with JGI users for analyzing viral datasets, and the organization …
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User Executive Committee Charter
… The JGI User Executive Committee (UEC) represents the JGI user community and is responsible for providing input and advice on JGI policies and practices that affect users and their …
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Doubling Down on Known Protein Families
… the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … replicating a whole community is impossible.  Metagenomic sequencing allows researchers to study the entire genetic … with at least 100 members.  “If you have 100 sequences, the quality of the cluster is significantly higher because it is …
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Simon Roux Named 2025 ASM Microbiome Data Prize Awardee
… to US Department of Energy (DOE) Joint Genome Institute (JGI) staff scientist Simon Roux , who was recently selected … (ASM). Roux leads the Viral Genomics group within the JGI Metagenome Program, and coordinates the development of … practices, development of standards and processes for data quality and sharing, and data workflows and management best …
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The More the Merrier: Making the Case for Plant Pan-genomes
… the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … whole complex of progenitors and descendant species and, consequently, the evolution of polyploidy.” Evaluating … for  B. hybridum and  B. stacei , as well as multiple lower quality genome assemblies for all three grasses. With these …
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Taking Stock of the Known and Unknown Microbial Space
… hotspots Over the past few decades, advancements in sequencing technologies have led to an abundance of … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … isolates, metagenome-assembled genomes (MAGs) with varying quality scores representing potential genomes, and nearly …
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The Busy World of Deep Sea Eruptions
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Integrating Experimentation with Data
…         General attendees: $500     Students: $200      Postdocs: $250     Industry: $700    Thanks for joining the Joint Genome Institute (JGI) and the Environmental Molecular Sciences Laboratory … The JGI and EMSL are U.S. Department of Energy (DOE) Office of …
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Leadership
… the direction of programs and initiatives to enhance the JGI’s preeminence as a national resource. Members report to the JGI Director. …
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Protocols
… Find protocols provided by JGI and the JGI user community below for DNA preparation tools, high molecular-weight DNA extraction and RNA preparation.  JGI sample QC protocols can be found here . DNA Extraction …
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Partnerships: Adopt-A-Genome
… a Genome” is an informal program for faculty to “claim” the JGI’s unpublished microbial genomes, with the expectation … in the analysis and publication of the claimed genome sequences. This opportunity, provided by the Joint Genome … of microbial genomes that have been sequenced by the JGI though not formally analyzed or published.  The purpose …
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