Tyler Barnum, Ph.D.

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Tyler Barnum, Ph.D.

Tyler Barnum, Ph.D.

@tylerbarnumphd

Computational microbiologist. Formerly: @PMB_Berkeley, Trace Genomics, Cultivarium

San Francisco, CA Katılım Ocak 2018
510 Takip Edilen733 Takipçiler
Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
I’ll be trying to post more content like this! (Sorry for the double post if you're on two platforms)
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Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
Downside/opportunity: the project appears to need a protocol for metagenomic DNA extraction
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Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
Biology labs looking to reduce costs or increase throughput should consider switching from kits for DNA and RNA purification and size selection (e.g. plasmid or PCR products) to… magnetic beads. The BOMB platform (Oberacker 2019, 338 citations) claims 10-20x cost reduction.
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Bureau of Land Management California
Bureau of Land Management California@BLMca·
🎉 Celebrate 25 years of Carrizo Plain National Monument with us! Join us on April 10 from 10 a.m. to 1 p.m. at the Guy L. Goodwin Education Center for a special anniversary event. Explore interactive exhibits & tours of Painted Rock! 🌼 👉 Read more: ow.ly/cc8P50YBkSc
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Savage Lab
Savage Lab@SavageCatsOnly·
Screening thousands of deletions per promoter, we map critical regulatory regions. Integrating thousands of single-base mutations pinpoints core motifs at base-pair resolution and reveals where and how promoters can be edited to change expression.
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Homeworld Collective
Homeworld Collective@HomeworldBio·
📣Methane causes ~30% of global warming, and even with emissions reductions, a gap will remain by 2050. Biological methane removal (bioMR) is one of the most promising frontiers for closing that gap. With @sparkclimate, we convened 30 experts to map the highest-leverage research opportunities, resulting in 22 problem statements. #ClimateBiotech #BioMethaneRemoval homeworld.bio/blog/homeworld…
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Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
This is suuuper cool and clever. Protein-protein interactions across an entire genome from coevolutionary signal in their sequences. A different way of looking at genomes and, likely, annotating function of hypothetical genes.
Andre Cornman@ancornman1

This scalability unlocks extensive cross-proteome discovery. By querying viral proteomes against host genomes, FlashPPI identifies host-virus interactions involving previously uncharacterized proteins. 6/

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Niko McCarty.
Niko McCarty.@NikoMcCarty·
Announcing "Fast Biology Bounties." I'm giving away $10,000 for ideas to speed up or reduce costs for wet-lab experiments. I'm looking for ideas that are highly original and technically tractable. A couple paragraphs will suffice. Supported by Astera Institute. Details below.
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Aman Patel
Aman Patel@amanpatel100·
ARSENAL’s masked likelihoods allow for the de novo reconstruction of a wide variety of known binding motifs, thus proving a powerful tool for analyzing individual regulatory regions in detail or studying functional syntax in aggregate.
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Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
Inspiring video for PhDs thinking about startup life. I loved the clever use of magnets in 3D printed parts with automation. The recognition that demand can be induced by lowering costs is also important
plasmidsaurus@plasmidsaurus

The OMGenomics team just stopped by Plasmidsaurus! Robert and Maria from @OMGenomics stopped by our SF lab to talk shop with our CEO, Mark Budde. They took a deep dive into how we’ve scaled sequencing to be faster (and easier) than ever, and what "sequencing everything" means for the future of biology research. 👉 Watch here: youtube.com/watch?v=nS2oWh…

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Science Magazine
Science Magazine@ScienceMagazine·
A temporary weakening of the atmosphere’s chemical capacity to break down methane, combined with elevated emissions from tropical wetlands, drove the sharp increase in atmospheric methane observed in 2020 to 2021, according to a new study in Science. 📄: scim.ag/4ry0ugV #SciencePerspective: scim.ag/4qFctbX
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Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
... the Cultivarium database. You can find tractable organisms with certain traits (via Advanced Search) or related to your subject organism. These databases could track and reward scientific exploration, if that's made salient for users x.com/tylerbarnumphd…
Tyler Barnum, Ph.D.@tylerbarnumphd

I want to highlight a new resource for microbiology on the @CultivariumFRO portal: we’ve created a database of published genetic methods for every microorganism. And if your microbe *doesn’t* have genetic tools, we point you to the closest relative that does.

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Tyler Barnum, Ph.D.
Tyler Barnum, Ph.D.@tylerbarnumphd·
Neat open-access database! I worked on something similar when at Cultivarium, but specific to tooling for microbes. Clear examples of how biologists can now use LLMs to easily create useful new databases from publications. Worth supporting with your use & feedback. Here's ...
seemay chou@seemaychou

Just in time for Darwin’s bday! Interactive organismal tractability atlas from @ArcadiaScience for you to peruse as you consider species in the lab thestacks.org/publications/r…

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