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Feature selection and causal analysis for microbiome studies in the presence of confounding using standardization
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Ian Blaby
… of phototrophs. Through this and post-doctoral positions at University of Florida and UCLA he has worked with a wide … profiling of a synchronized diurnal transcriptome from Chlamydomonas reinhardtii reveals continuous cell and … 10, 2743-2769. 2015 Blaby et. al., The Chlamydomonas genome project: a decade on. Trends in plant science . 19: 10, …
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JGI Earth Month: Wetlands Work in #TenHundredWords
Graduate Student Research (SCGSR) program . Her research project, “Microbial Community Structure and Methane … Canal System,” focuses on anthropogenic impacts on wetland microbiome composition and metabolism, work on which she is … (Try it yourself  here .) She translated her abstract from a 2019 conference. Both versions appear side-by-side …
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N-dependent dynamics of root growth and nitrate and ammonium uptake are altered by the bacterium Herbaspirillum seropedicae in the cereal model Brachypodium distachyon
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Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus
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How Filamentous Fungi Sense Food
… crassa . The Science A team led by researchers at the University of California, Berkeley used a multi-omics … break down the components of plant cell walls, which range from simple to complex carbohydrates, and then convert them … proposal akin to the Encyclopedia of DNA Elements (ENCODE) project, which is aimed at determining the activity, …
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From Sample Shipments to Sequences – A Tour of the JGI’s Sequencing Pipeline
Every year, the JGI sequences around 35,000 samples — from plants, algae, bacteria, archaea, fungi, viruses — to support scientists around the world. Most of those researchers send their samples in from afar, without ever hearing much about the sequencing …
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Viruses Reprogram Cells into Different Virocells
… like one, is it still a duck? For a team led by researchers from The Ohio State University and the University of Michigan studying how virus … and Environmental Research in one proposed research project. For this project, RNA sequencing was done by the …
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Picking Up Threads of Cotton Genomics
… for all this new cotton work, and even the original cotton project was to try to bring in molecular methods of breeding … noted David Stelly, another study co-author at Texas A&M University. “This report establishes new opportunities in … the textile industry, and consumers will derive benefit from this high impact science for years to come,” said Don …
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JGI@25: Strengthening Soybean
… source of both protein and oil was also the largest plant project completed by the JGI. It has since been cited more … that’s a good niche market for soybean.”  Upon its initial release in 2009, the soybean genome sequence immediately … podcast minisode.)  In 2016, the JGI accepted a proposal from Sebastien Duplessis of the French National Institute …
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Meanders as a scaling motif for understanding of floodplain soil microbiome and biogeochemical potential at the watershed scale
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Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome
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