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The phenylalanine ammonia lyase (PAL) gene family shows a gymnosperm-specific lineage
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An expanded evaluation of protein function prediction methods shows an improvement in accuracy
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Benjamin Cole
… by altering their growth program, and on how plants coordinate their gene expression with light and temperature oscillations throughout the day. At the Joint Genome … (scRNA-seq, Spatial Transcriptomics). … University of California, San Diego (PhD, 2011) Rensselaer Polytechnic …
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Trent Northen
Dr. Northen is currently a Senior Staff Scientist at Berkeley Lab. Since joining Berkeley Lab in 2008, Dr. … the ENIGMA SFA project. In 2015, he founded what is now the JGI Metabolomics Program to provide advanced metabolomic … mass spectra with statistical significance. Nat Commun. 13, 2510 (2022). https://doi.org/10.1038/s41467-022-30118-9 …
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Emiley Eloe-Fadrosh
Dr. Eloe-Fadrosh joined the JGI in 2014 to pursue her research interests in microbial … research focuses on leveraging thousands of metagenomic datasets from host-associated and environmental samples to … (MIMAG) of bacteria and archaea. Nature Biotechnol. 35, 725-731. Paez-Espino D, et al. 2016. Uncovering Earth’s …
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Biotech Partners Summer Intern Co-Authors NAR Paper
Kaushal Sharma, one of five Antioch High School rising juniors who participated in internships at the DOE Joint Genome Institute this … the Genomes OnLine Database (GOLD) administered by the DOE JGI. T.B.K Reddy, Kaushal‘s mentor, described his student’s …
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Assembly of Viral Metagenomes from Yellowstone Hot Springs▿ †
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Tanja Woyke
After studying the mechanism of action of antifungal natural products and their derivatives during her Ph.D. in … of User Program position in 2021. In addition to her JGI appointment, she also holds an Adjunct Scientist … (MIMAG) of bacteria and archaea. Nature Biotechnology 35, 725-731. Mukherjee et al. 2017. 1,003 reference genomes of …
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Fungal Friends or Foes in Plant Roots
Uncovering associations between plant roots and fungi that can help or harm … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … and Reconstruction of the Plant Microbiota (SPP DECRyPT 2125)’ and the Cluster of Excellence on Plant Sciences …
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High quality permanent draft genome sequence of Phaseolibacter flectens ATCC 12775T, a plant pathogen of French bean pods
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The More the Merrier: Making the Case for Plant Pan-genomes
… merrier,” with respect to their genomes. In their base state, they are diploids with two genome copies, one from each … plants; at least once during their evolution, the genomes of flowering plants multiply. Over time, plants lose many … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at …
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Deconvolute individual genomes from metagenome sequences through short read clustering
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