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Spacer2PAM: A computational framework to guide experimental determination of functional CRISPR-Cas system PAM sequences
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A Community Resource for Secondary Metabolite Researchers
The Secondary Metabolism Collaboratory encourages user engagement. The Science In addition to the core set of … of genes known as biosynthetic gene clusters (BGCs.) As reported in the recent Database issue of the journal Nucleic … of the closest comparable database. … Dan Udwary talks about the Secondary Metabolism Collaboratory  … Browse BGCs …
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SPRUCE-ing Up Science
… of biology and computer science, to reveal clues about how microbial and bacteria communities influence the … on his PhD program at UC Merced in 2013, this field was just beginning to develop and expand into the world of … Sphagnum peatmoss resilience to warming . New Phytol. 2022 Jun;234(6):2111-2125. doi: 10.1111/nph.18072.   Byline: …
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Interdisciplinary delegation from the University of Duisburg-Essen explores collaborative opportunities with Lawrence Berkeley National Laboratory
Understanding (MoU) signed between UDE and Berkeley Lab in 2022, the delegation from UDE familiarized themselves with the research programs and user facilities at Berkeley Lab. Commenting on the visit, JGI Director Nigel Mouncey expressed enthusiasm about the potential of this collaboration stating, “We …
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Tanja Woyke
… which she deciphered function and host-symbiont interplay using metagenomics. Taking on a Research Scientist position … as well as our Deputy of User Programs. Click to learn more about the program's areas of focus, major initiatives and … of Visiting Committee), NASA Exobiology.  … Volland et al. 2022. A centimeter-long bacterium with DNA contained in …
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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 number of notable achievements … health. Three DOE national labs had people and resources focused on three human chromosomes: Lawrence Berkeley National … researchers were studying Chromosome 5, which contains about 6% of the human genome . They discovered genes linked …
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JGI@25: From Life at the Extremes to Editing Genomes
In honor of the JGI's 25th anniversary in 2022, we have revisited a number of notable achievements … ecosystems around the world, conducting iterative searches using statistical analyses to continuously refine and … and Management.” So begins a passage from Doudna’s book about her meeting with Banfield. (Banfield’s recounting of …
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DOE JGI Interns Share Their Summer Experiences
Many of them spent the summer crunching genomic data at a computer; a few had the opportunity to spend time out in the … part of the DOE JGI’s efforts to promote diversity and inclusion in the sciences, among the interns were two … groups, respectively. Each of the interns spoke briefly about their time at the JGI at …
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Picking Up Threads of Cotton Genomics
… of the five major lineages of cotton;  G. tomentosum ,  G. mustelinum , and  G. darwinii are the others. All of these … another study co-author at Texas A&M University. “This report establishes new opportunities in multiple basic and … is one such example.” Jones noted that he talks to growers about Cotton Inc.’s long-term investment in crop research. …
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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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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… which microbes are present in a sample, to generate data about which organisms are active, and which microbes are … microbial ecosystems. These communities harbor tens of thousands of different organisms who all consume different … along these lines, all with the goals of better data reporting, improved collaboration, and more comparable …
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I-Min (Amy) Chen
Dr. I-Min A. Chen received her Ph.D. in Computer Science. Her research has been focused on semantic and object-oriented data modeling, and … S et al. IMG/VR v4: an expanded database of uncultured virus genomes within a framework of extensive functional, …
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