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A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks
… Team develops a computational pipeline to sift and characterize RNA virus sequences.  A zoo once … scenes that came with crayons in various shades of white. To researchers searching for sequences of RNA viruses in … Using this workflow, the team combed through more than 5,000 data sets of RNA sequences (metatranscriptomes) …
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A Sorghum Pangenome Opens More Doors to Discovery
… In one thread of this work, this team looked at a gene that traces domestication, SHATTERING1 . This gene controls … Development (USAID) also supported the work.   Publication:  Morris, G.P., Harder, A.M., Healey, A.L.  et … global crop trait discovery.  Nature (2026). doi:10.1038/s41586-026-10229-9   …
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Webinar: PhycoCosm Tutorial
… algal genomes, omics data and comparative analysis tools. Questions and Answers 1.  Q(uestion): Why would your … working with us please contact me at [email protected] 5.  Q: If we have RNAseq or proteome data that is based on a … valuable for comparative studies (see video for Alan’s response)     …
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A User-Centered Approach to Accessing JGI Data
… year, it was only accessible through the plant portal  Phytozome . Now the portal offers a way for users to more easily access public data sets through a common set … requires that users know about the FY Funding Year, and the publication status in addition to the public/private status. …
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Kjiersten Fagnan
… computing consultant, after completing a petascale postdoctoral fellowship at NERSC and LBNL’s Computational Research … methods for reacting subsurface flows, and evolved into scalable methods for scientific data analysis. In 2014 … Infrastructure - Architecture Blueprint Activity, the BERAC response to the charge on unified data, and the ASCR Future …
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Calculating the Costs of Multiple Switchgrass Gene Copies
… Scientists have discovered that the candidate bioenergy feedstock switchgrass has adapted to expand its habitat range. … origin events? Do the cytotypes react differently in response to the environment? We set out to explore these … cytotype. However, the 4X and 8X cytotypes diverge in their response to climate variations between the common gardens, …
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Whole metagenome sequencing and 16S rRNA gene amplicon analyses reveal the complex microbiome responsible for the success of enhanced in-situ reductive dechlorination (ERD) of a tetrachloroethene-contaminated Superfund site
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Statement on the Use of Genomics Data
… of Energy (DOE) Joint Genome Institute (JGI) is committed to advancing the field of genomics through open access to … are requested to be held until a specified date, or the publication date, whichever comes first. For nearly 40 … by the community regarding the use of JGI data prior to publication by the principal investigators. To resolve these …
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What Happens Underground Influences Global Nutrient Cycles
… user facilities—the  Environmental Molecular Sciences Laboratory (EMSL) and the  DOE Joint Genome Institute (JGI)—have selected 11 proposals for support from 53 received through a joint research call. Submitted … mountain range since 2014 to learn more about the microbial responses and feedbacks to warming through the whole soil …
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Tracking the Origins of Methane-Producing Microbes
… Methane Metabolism. Methane-producing archaea are estimated to produce 500 million tons of methane a year, which is over half the total global … User Facility located at Lawrence Berkeley National Laboratory, is committed to advancing genomics in support of DOE …
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The molecular dimension of microbial species: 3. Comparative genomics of Synechococcus strains with different light responses and in situ diel transcription patterns of associated putative ecotypes in the Mushroom Spring microbial mat
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An Integrated Dataset to Understand Ecosystem Interaction
… poplar trees and their microbial partners. The Science To help better understand how ecosystems work and how … pathways and metabolites associated with the tree’s stress response. Finally, using transcriptomics, researchers were … for adaptation within the trees. The data set generated is 25 terabytes in size. Resources for genomic sequencing, …
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