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iPHoP: A Matchmaker for Phages and their Hosts
…   To understand virus-host dynamics, computation helps fill in what … be a specific host the virus has adapted to commandeer. For bacteriophage viruses, these hosts are microbes like … approaches, researchers have created a new program called iPHoP (pronounced “eye-pop”,  freely available online ). It …
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Viral Genomics Group
Microbes drive critical ecosystem functions and affect global nutrient cycling, … overview and major challenges of host prediction methods for uncultivated phages.  Current Opinion in Virology .  49 , 117-126 Berg, …
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Plant-Microbial Interactions Group
Plants are complex organisms that harbor a fantastic diversity … and phenotype. We have recently identified resident bacteriophages (viruses infecting bacteria) in the plant … experimental characterization methods, in addition to bioinformatics tools to elucidate phage function in this …
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iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria
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Special Initiatives & Programs
Overview The JGI provides sequencing, synthesis, and targeted metabolomics support for DOE-BER funded awards, including awards funded through  … must provide an award number and contact information for their DOE program officer.  Submitters are strongly …
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Tour the IGB
Take a virtual tour of the IGB, home of the DOE Joint Genome … the frontiers of environmental and energy genomics.  For more information about the science depicted, click here . …
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Institutional User Agreements
Every approved proposal starts with a User Agreement — before any work can begin, including the submission of samples … legally binding contract.   All User researchers must have their home/employing institution sign a JGI Non-Proprietary …
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Environmental Genomics Group
Research in the Eloe-Fadrosh group focuses on using … approaches to identify and characterize genomic information from uncultivated microbes and viruses. We develop … ecosystem function.  The Environmental Genomics group also hosts the Viral Genomics group . Research Team    … Nayfach …
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Natural Prodcast Episode 24: Jackie Winter and SMC
… … DAN UDWARY: Hey, everyone! Welcome to the “Self Promotion … Doering and Bryce Foster and too many others to name at JGI for the last two years or so. SMC is now released and ready … JGI. These organisms we’re finding– at least by looking at their full genomes — are really not like anything that’s …
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Natural Prodcast Episode 14: Nigel Mouncey
… … DAN: Hello, everyone, and Welcome back for Episode 14 of Natural Prodcast . There’s been a lot … of anything that’s relevant to the Department of Energy and their mission. And for a long time, I think, we’ve just been …
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Natural Prodcast Episode 23: Aaron Puri
… … DAN: Hey, everybody. Welcome back for another episode of Natural Prodcast. Right now I’m … I would say are are still fairly unexplored in terms of their natural products chemistry, and he has a project with …
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Natural Prodcast Episode 4: Nancy Keller
… … DAN: You’re listening to the US Department of Energy Joint … to Natural Prodcast! This is episode 4! From here on out, for a while, we’re going to be presenting some conversations … incredibly interested in what fungi could do and what their natural products could do to us. So I’d say my initial …
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