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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… communities than ever before — especially with the prospect of meta-analyses boosted by AI and Machine Learning — JGI … create FAIR datasets to maximize returns on these advances. Over the last two decades, Stable Isotope Probing (SIP) has … important in microbial ecosystems. These communities harbor tens of thousands of different organisms who all consume …
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Fungal Friends or Foes in Plant Roots
Uncovering associations between plant roots and fungi that can … host health. The Science Researchers compared the genomes of fungi that colonize Arabidopsis thaliana roots with … which can in turn boost yields for both food and for candidate bioenergy feedstock crops. Summary A plant is like …
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Finding the Fermenters
… researchers built an interactive and comprehensive database of fermentative prokaryotes. The Science Most organisms use … Research (BER) program to enable scientific discovery in support of the DOE mission. Fermentative metabolism … phenotype and genotype of fermentative prokaryotes on IMG … Publication … Datasets … Datasets … Datasets …
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JGI@25: Stories from Intern Alumni
… 2022 marks the JGI’s 25th anniversary . Over the next few months, we’ll be revisiting a number of notable achievements that showcase our collaborations and …
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JGI@25: The Human Genome Project, or the JGI’s Origin Story
In honor of the JGI's 25th anniversary in 2022, we have revisited a … 5, which contains about 6% of the human genome . They discovered genes linked to conditions such as cardiovascular … with the HudsonAlpha Institute for Biotechnology. Publications Grimwood, J., Gordon, L., Olsen, A. et al. The …
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Marine Microbe Contains Multitudes
… microbial genomics reveals one bacterial species is made of four ecologically distinct groups with different … In the ocean’s North Pacific Subtropical Gyre, microbes tend to stay localized at different depths. But SAR324 can … Now, a recent study published in Microbiome has uncovered that SAR324 encompasses four subgroups, adapted to …
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I-Min (Amy) Chen
… data modeling, and biological data management. She was one of the co-authors and key developers of the Object-Protocol … data management systems of their kind, deployed to tens of pharmaceutical and biotech companies. … Chen I-MA, … in an Academic Setting, SSDBM 14, July 2014 … Selected Publications …
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Getting to the Bottom of Fungal Functions Across Earth’s Forests
… registers the sound — one thing is for sure: there are lots of fungi around. Within a forest’s soil, hundreds of species … assembled those RNA transcripts into a metatranscriptome. Overall, they found that despite vast species diversity, … portfolio. If a stress like wildfire or drought threatens some fungal species, other fungi will fill in needed …
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A restricted spectrum of NRAS mutations causes Noonan syndrome
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Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta)genomic Annotation
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The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
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Prokaryotic community profiles at different operational stages of a Greek solar saltern
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