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Special Initiatives & Programs
… the minimum is 100 kb, and for metabolomics, at least 22 samples are required. If your proposed request falls below … was not previously negotiated with the JGI will only be accepted pending available capacity, technical review and … negotiation with the JGI.  Investigators with grants funded by DOE-BER requiring support from the JGI may  submit …
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GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes
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Natural Prodcast Episode 10: A Primer on Genome Mining
… 2004, 1253–1262, 70:3 ALISON TAKEMURA: And so did you succeed in finding your vein of gold with aflatoxin? DAN … disparate environments. There’s some marine. There’s some soil samples. There’s human gut samples. There’s lots and lots … Alanjary, and Weber’s 2016 overview of genome mining (open access) The Challis/Corre chemistry-focused review of early …
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Secondary Metabolites Program
… underexplored reservoir of secondary metabolites produced by bacteria, fungi, algae and plants. These compounds are … (BGCs), advancing pathway analysis, optimization of cell- and cell free-based expression platforms, tools and data for … Development of cell-free based expression platforms: Only 10-20% of BGCs …
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Anuvia taps JGI for expertise to pinpoint products from beneficial soil microbes
… water resources and restoring and maintaining healthy soils – are at the heart of sustaining food and bioenergy … producing bio-based plant nutrition products that target soil enrichment, is partnering with the U.S. Department of … advantages for farmers concerned with improving sustainable soil management practices. Read the full release from …
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…   Gain access to omics technologies generating community data at zero cost —  submit a proposal.  … National Program for Antarctic Researches (PNRA),  funded by the Italian Ministry of University and Research; all … Environment, the Italian National Antarctic Museum (MNA-CCFEE). …
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Fungus Fuels Tree Growth
… elongata enjoys a dual lifestyle; it can thrive in the soil as a saprophyte, living off decaying organic matter, or as an endophyte, living between a plant’s root cells. The fungus is almost always found among and within … (Sunny) Liao of the University of Florida collected forest samples of poplar and soil from Washington and Oregon. The …
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Protocol for condition-dependent metabolite yield prediction using the TRIMER pipeline
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How to Target a Microbial Needle within a Community Haystack
… Marine Microbiology has developed, tested and deployed a pipeline to first target cells from communities of uncultivated microbes, and then … world through bulk community sequencing (metagenomics) and single-cell genomics, the vast majority of microbes that … The work conducted by the U.S. Department of Energy Joint Genome Institute, a …
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Project Management Office
… Before work can start on any approved proposal – including the submission of samples for sequencing, or the submission of sequencing data … that all work performed in its User Facilities be covered by the User Agreement. … Planning Manager Miranda Harmon-Smith DNA Synthesis and Single-Cell Genomics Vivian Ng Fungal Genomics …
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The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
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Nontargeted virus sequence discovery pipeline and virus clustering for metagenomic data
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