gallardo-seq.bsky.social
Long read sequencing of RNA viruses and their hosts | RNA structure-function | Genomics technology development | Genomics assay R&D | Scripps Research 🎓 | Senior Staff Scientist at Seattle Children's | 🇦🇷🇺🇸
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Thanks for sharing. A little potty mouth is inconsequential compared to the steady erosion of democracy.
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Really sorry to hear, this is very concerning.
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And to those that claim that Industry is somehow shielded from this, please remember about SBIRs/STTRs and the fact that the whole scientific ecosystem is affected by these attacks.
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In a nutshell, devider can cluster long reads into similar haplotypes (see the images).
Main points:
(1) Works best with sequence length ~= read length
(2) Does not require prior knowledge of # of haplotypes (can be many!)
(3) Extremely fast (> 20,000x coverage is ok!)
(4) Requires reference
2/5
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No problem! Hope the yield stars align for you!
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One thing that helped is that Nanopore started including flow cell loading info for smaller fragments. They generally recommend doubling the 50 fmol amount, which we found does help with pore occupancy.
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We do plenty of direct cDNA. It’s the Achilles heel of Nanopore imo. We get ~15M reads on the MinION (reads are mostly 1kb so most of the pore time is spent on DNA molecule turnover). I agree with the advice from @gringene.org on coupling it with a bit of PCR for better yield (eg. cDNA-PCR kit)
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🤯
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Not to mention, are those 4 GPUs? I've never seen that form factor.
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What a train wreck of an interview...
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That’s a whole lot of liquid cooling!
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Really good points. Thanks for sharing. However, a minor point is that the “ESI bonus” only applies for R01, not for R21. I think this is a major shortcoming that makes R21 less attractive for ESIs, who otherwise would greatly benefit from this purported “exploratory” grant mechanism.
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Thanks for the great resource! Would appreciate it if you could add me to the list. 🧬