aswarren

computational biology, infectious disease

[aswarren @aswarren]

@LongDesertTrain @Mike_Honey_ @theosanderson I've seen Julia on the upswing recently. Given all the biological abstractions you keep loaded into memory a few programming constructs will be light weight!

[aswarren @aswarren]

@LongDesertTrain @theosanderson Thanks very much for the insight! I am reminded of this tool presented during the spheres series:
https://t.co/gLkUEIK6WJ
It has an online version / demo at Caltech linked on the Readme.
Similar to covspectrum API but with some interesting variable assignment abilities

[aswarren @aswarren]

@LongDesertTrain @Asinickle1 @OliasDave Is this tool publicly accessible?

[Srini Venkatramanan @sriniv_venkat]

Excited to share our recent @PNASNews paper on coupled models for genomic surveillance based detection and intervention for variant-driven epidemics!
https://t.co/CaeMK3N3d7
Authors from @UVA_BI @CS_UVA ISI-Bengaluru @ictstifr @iiscbangalore @StrandLife @OneHealthTrust @Princeton

[aswarren @aswarren]

@kallmemeg @UKHSA That is a crazy distribution of percentages!

[Hank Green @hankgreen]

Massively under-reported science story because there's so much going on right now but...it turns out that we might have figured out what's causing this very scary spike.

Quick thread, on how WE'VE BEEN ACCIDENTALLY GEOENGINEERING FOR DECADES...but then we stopped:

[Unite against COVID-19 @covid19nz]

Every time you catch COVID-19, your risk of other severe issues starts to rise.

Research is starting to show that with reinfection, your chance of serious issues such as diabetes, mental health issues, and chronic fatigue goes up.

[Erik Garrison @erikgarrison]

A basic biological discovery based on the human pangenome! The short arms of acrocentric chromosomes include regions where heterologous chromosomes pair up and recombine as if they were homologs: pseudo-homologous regions (PHRs) https://t.co/1Y5YA5HNkZ https://t.co/vF0aaT5vWc

[Chris Mungall @chrismungall]

Here is an example of SPINDOCTOR results overlaid on top of bona-fide GO enrichment results for sensory ataxia genes (significant terms indicated with bonferonni adjusted p-vals). Gene description sources as boxes (ONT=ontological description, NAR=narrative refseq, NS=no summary)

[tern @1goodtern]

Full story here.
Thanks @Antonio_Caramia 🔥
https://t.co/9hx6aKHqqp

[Emmanuel @ejustin46]

INTERESTING STUDY !
"Genomic surveillance reveals dynamic shifts in the connectivity of COVID-19 epidemics"

"We show that local COVID-19 epidemics are driven by regional transmission, including across international boundaries, but can become ...
https://t.co/J1OHrcIn0K

[Erik Garrison @erikgarrison]

Next week in Memphis: #MemPANG23 https://t.co/NciUhb4Jdy, a workshop on the theory and practice of working with lots of genomes. Join us online next Friday June 2nd from 9:00-16:00 (CDT/UTC-5) for 6 talks on pangenomics (webinar https://t.co/aENGA4NjlP)

[Dr. Jonathan N. Stea @jonathanstea]

Covid vaccines saved an estimated 19.8 million lives in their first year.

https://t.co/tg5bWLbF25

[aswarren @aswarren]

@ChenxinLi2 One if it’s diploid?

[Katie Mack @AstroKatie]

I’m not sure how widely this is understood. It’s not that the chance of getting sick is actually low now, it’s that our leaders have decided that it’s time for us to just be cool with getting sick a lot now, and we’re all being socially pressured to act like it’s weird not to be.

[Kieran Lamb @Kieran12Lamb]

Excited to share my first paper discussing mutational signatures and how they contribute to mutations in SARS-CoV-2! This work started all the way back during my masters year in 2020 so very glad to see it out!

[Duncan MacCannell @dmaccannell]

Fantastic effort from the entire @CDC_AMD team, helping to catalyze and support the incredible efforts of hundreds of state and local public health, academic and private sector laboratories.

[aswarren @aswarren]

@ObamaFoundation @BarackObama Just a heads up looks like you missed the Pitt, Xavier outcome on the sheet. All the best!

[tern @1goodtern]

This is a brilliant segment by the @Todayshow about the direct connection between catching Covid and the raised risk of a heart attack.
I had to keep pinching myself to check it was real and I wasn't dreaming.
Thank you @NBCNews @ErinNBCNews @DrJohnTorres
Please share widely!