DNAdigest.org

DNAdigest is a not-for-profit promoting efficient and secure sharing of genomics data for research.

[David States MD PhD @statesdj]

Agree, we do have therapeutics and vaccines on the way and testing will continue to expand. But we need to be smart, and we are going to need disciplined public health behaviors for months not weeks

[Justin O'Grady @Justin_OGrady]

We developed a new method, CoronaHiT, for sequencing up to 95 SARS-CoV-2 genomes on a @nanopore MinION flowcell for our @CovidGenomicsUK work. Cheap and easy - using nextera and PCR barcoding of @NetworkArtic PCR products. https://t.co/NIZaC0DVDV @tweakyaustin @andrewjpage

[Ewan Birney @ewanbirney]

Finally, a plea again for solidarity - this a "humans vs the virus" situation - it is not about countries, less so even groups inside a country. Very simply we want to eliminate the virus or live comfortably alongside it. We should stay focused on that goal.

[Elisabeth Bik @MicrobiomDigest]

4 Ways That Scientists And Academics Can Effectively Combat Racism
These four steps, as limited as they are, can play a major role in transforming science and academia into a safer, more inclusive environment.
https://t.co/Z0gV6ZK962

[David States MD PhD @statesdj]

Really important point. Spread of a highly infectious virus won't stop until most people are immunized either through infection or a vaccine. The ~50% compliance we get with flu vaccines won't come close to cutting it

[Elisabeth Bik @MicrobiomDigest]

New blogpost:

The Octopaper 🐙

Eight papers with the same survival curves, table values, and similar line graphs. But published in different journals by different authors, at different institutes, on different patients, and different cancers.

https://t.co/dqGKOVGOPI

[David States MD PhD @statesdj]

Despite the catchy headline, the mandate of the CDC is far broader than pandemics, and the problems at the CDC precede COVID-19. But yes, the response to the COVID-19 pandemic was deeply flawed and systemic
1/
https://t.co/3WhRIzlzg4

[Nick Loman @pathogenomenick]

It's not been an easy ride by any means, but very proud of what @CovidGenomicsUK have achieved in a short timescale: article in @LancetMicrobe today describes the distributed and diverse sequencing and analysis model we chose for genomics of SARS-CoV-2: https://t.co/e353NCR2RE

[David States MD PhD @statesdj]

And let’s not forget the false positives. Technically RTPCR is highly specific, but in the real world false positives happen. If we go with a conservative estimate of 0.8%, when we test the 71,000 students and staff, we’ll expect 568 false positives.
14/
https://t.co/DnsPv9izIO

[Daniel MacArthur @dgmacarthur]

Finally, as I settle into my new role in Australia, I am delighted to have left gnomAD leadership at @broadinstitute in the very safest of hands - new co-directors @dalygene and @HeidiRehm. Looking forward to working with them on many future data releases and much cool science!

[Daniel MacArthur @dgmacarthur]

It's been a long journey from the first inception of a new data aggregation database in 2012, through the creation of ExAC and gnomAD, to this moment. Here's a blog post covering some of the highlights: https://t.co/cOUq8NpJj2

[Daniel MacArthur @dgmacarthur]

The gnomAD team are data parasites - we are completely dependent on the generosity of principal investigators willing to share their data from independent research projects. Without the 109 (!) PIs who donated data to this project there would be no gnomAD: https://t.co/vVCvgNtnDx

[Daniel MacArthur @dgmacarthur]

As well as to everyone else who made this project possible, expecially @Jalfoldi, @LFranciol, Grace Tiao, @mattsolomonson, Nick Watts, @benweisburd, Kristen Laricchia, and the teams from Broad DSP and @hailgenetics.

[Daniel MacArthur @dgmacarthur]

Massive thanks and congratulations to all of the lead authors on this collection of papers - @konradjk, @cureffi, @beryl_bbc, @RyanLCollins13, @nickywhiffin, @qbw_128, @imarmean, Aaron Kleinman, and Harrison Brand.

[Daniel MacArthur @dgmacarthur]

I'll have tweets later in the day about the science that went into this package, but here are some excellent summaries:
@broadinstitute coverage: https://t.co/tztbjP3dhA
Great News and Views piece by @deannachurch: https://t.co/VK0kwXqOrE
Nature editorial: https://t.co/66a0Tjgfgx

[Daniel MacArthur @dgmacarthur]

It's live! After years of work and more than 16 months in peer review, the gnomAD package is now up at Nature. We have seven papers in total, exploring different scientific aspects of this collection of more than 140,000 exomes and genomes: https://t.co/Gbq2PJwid6

[Simon Roux @simroux_virus]

I'm still not over the amazing work presented in https://t.co/nJgaUbEjMC and now accepted by ICTV (https://t.co/PefFlsg7SD) to achieve a (near-complete) unification of viral taxonomy. This included coming up with (many) meaningful new names. Some of my favorites:

[recomb2021 @recomb21]

#RECOMB2020 will take place entirely virtually on June 22-25, 2020, with required registration (at the link https://t.co/BXwztbieG7 ) but no registration fee. More info on schedule and refunds at our website https://t.co/RKoUByXgnr .

[Prof. Akiko Iwasaki @VirusesImmunity]

What?! What a terrible idea to terminate research funding on bat coronaviruses now... I am disappointed that such a decision was made by the @NIH, likely under political pressure...

https://t.co/PmOjsuwEbK

[Nick Loman @pathogenomenick]

The COG-UK weekly reports are now getting posted up on the @CovidGenomicsUK site. The first report was back on 23rd March, 11 days after first meeting! Back then we saw a greater diversity of international lineages in UK, reflecting the multiple imports: https://t.co/Gb66lpI8En