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Natural Prodcast Episode 21: Elizabeth Parkinson
… not good at that, you guys. I’m trying really hard just for you. And the JGI Comms team. But mostly you. Anyway…I’m … them are actinobacteria. And so we get a lot of them from databases of organisms, so things like the NRL database - or … usually serve as dimers, and then they will bind to certain sequences of DNA. And when they bind to those certain …
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Prepublication data sharing
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Clustering Categorical Data
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Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis
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Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data
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Environmental Genomics Group
… approaches to identify and characterize genomic information from uncultivated microbes and viruses. We develop … Nature Biotechnology . 2020 Nov 9. doi: 10.1038/s41587-020-0718-6. Ladau, J. et al. (2019)  Spatial, Temporal, and … diversity . Nature Microbiology , 15032. 10.1038/nmicrobiol.2015.32 … Selected Publications … For further details, …
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Eelgrass Proves to Be Much Younger Than We Thought
… most abundant plants in the ocean, originated in Japan before spreading around the globe. Now, scientists have shed … locations.  One group investigated changes in protein sequences, while others analyzed single point mutations … by a fellowship to M.K. in the Helmholtz School for Marine Data Science (grant number HIDSS-0005) and by a grant to J. …
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Jeremy Schmutz
Genome Institute dates back to 1997, when he was working for the Stanford Human Genome Center, now the HudsonAlpha … analysis of dual domestications. Nature Genetics 46: 707-713. Paterson, AH et al. 2012. Repeated polyploidization … Bennetzen, JL & Schmutz, J et al. 2012. Reference genome sequence of the model plant Setaria. Nature Biotechnology …
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The Expanding Universe of Methane Metabolisms in Archaea
… of the Earth’s atmosphere and regulating the global climate for life to flourish. For Guillaume Borrel and Simonetta … the Integrated Microbial Genomes & Microbiomes (IMG/M) database maintained by the U.S. Department of Energy (DOE) … Symposium in April, which immediately precedes the JGI’s 14th Annual Genomics of Energy & Environment Meeting. …
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Natural Prodcast Episode 4: Nancy Keller
… to Natural Prodcast! This is episode 4! From here on out, for a while, we’re going to be presenting some conversations … Aspergillus was pretty good, but, you know, just from a data standpoint, just figuring out introns and dealing with, you know, weirdness in the sequence. You know, some clusters are not clustered…   …
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Natural Prodcast Episode 13: Francisco Barona Goméz
Mexico, and an incredibly bright guy who’s been thinking for a long time about the evolution and natural products … him about more recent work like ActDES, which is a curated database of actinobacteria for evolutionary studies, and … to approach it is more related to what JGI does, which is sequence genomes. And we just published last year in the …
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The More the Merrier: Making the Case for Plant Pan-genomes
Laboratory (Berkeley Lab), relied on a model grass system for answers. Their work  recently appeared in  Nature … quality genome assemblies for all three grasses. With these datasets, researchers made a pan-genome containing four  B. … (Mya), while the S plastotype was a more recent event (0.14 Mya) with a maternal  B. stacei parent. The analysis also …
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