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JGI Portals
… of our users. … Download plant, algal, fungal and microbial genomes and metagenomes — top-quality genomic data, open to … analysis and annotation of all publicly available genomes from three domains of life, in a uniquely integrated … Genomes Online Database … Integrated Microbial Genomes and Microbiomes … Integrated Microbial Genomes — Plasmid …
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Products
… the product and deliverables as well as target cycle times from sample receipt to completion of standard analysis.  Raw … Fungal Minimal Draft Lower coverage short-read whole genome shotgun sequencing Assembly, annotation ( Mycocosm ) … change etc) and structural rearrangements, alignment files 384/454 Fungal Transcriptome RNA for expression profiling …
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Metabolomics
… this identification, metabolomics enables functional genome annotation, improves understanding of the role small molecules play in diverse biological systems, sheds … JGI Metabolomics Platform delivers rich metabolite profiles from diverse biological and environmental samples using …
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Frequently Asked Questions: Proposal Submission
… proposal on our YouTube channel as well as in this episode of our Genome Insider podcast.  You can also contact …
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Environmental Genomics Group
Research in the Eloe-Fadrosh group focuses on using genome-resolved metagenomic approaches to identify and … Team    … Nayfach S et al.  A Genomic Catalog of Earth’s Microbiomes .  Nature Biotechnology . 2020 Nov 9. Vyshenska, Dariia et al. (2023)  A standardized quantitative analysis strategy for stable …
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Viral Genomics Group
… 407 Berg, M. et al. (2021) Host population diversity as a driver of viral infection cycle in wild populations of green … al. (2019) Minimum Information about an Uncultivated Virus Genome (MIUViG).  Nature Biotech .  37 , 29–37 Roux S, et al. (2016) Ecogenomics and potential …
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Publication Policy
… assembly, analysis, annotation, verification, creation of genome browsers, etc. The users, collaborators and JGI … is done in a timely fashion. The publications resulting from such efforts should specify the collaborative nature of … following the guidelines below.  … If you use data from 3 or fewer JGI proposals, include those DOIs in the auspice …
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Secondary Metabolites Program
… interactions with their environments and with each other, from defending against predators to aiding in symbiotic … factors and determine their binding sites across multiple genomes. Computational prediction of heterologous … line of communication to the scientific community. In each episode, hear from luminaries in the field about current and …
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Who We Are
…   The U.S. Department of Energy (DOE) Joint Genome Institute (JGI) is a national user facility located … Lawrence Berkeley National Laboratory. The JGI consists of around 280 researchers and support staff in the Integrative …
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Uncovering Novel Genomes from Earth’s Microbiomes
… methods in the past decade, researchers have uncovered genomes for just a small fraction of Earth’s microbial … talk about genome mining using the GEM catalog in  this episode of the JGI  Natural Prodcast . Using this massive … BGCs in  IMG/ABC (Atlas of Biosynthetic Gene Clusters) by 31%. ( Listen to this JGI Natural Prodcast episode on genome …
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Data Ecosystem
… analyses, such as metabolic modeling, that go well beyond genome annotation and analysis. The JGI and KBase seek to … to seamlessly access and analyze data on scales ranging from single genes and individual genomes to metagenomes to systems-level modeling and …
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Plant-Microbial Interactions Group
… to better understand the plant-associated terrestrial world. Research Team    … Plant microbiomes hold the amazing ability to influence plant … fungal expression patterns in root cross-sections. … 10.1038/s41579-020-0381-4 10.1038/s41396-020-0637-z …
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