Danny Park @dannyjpark.bsky.social retweetledi
Danny Park @dannyjpark.bsky.social
348 posts
Danny Park @dannyjpark.bsky.social
@DannyJPark
I use genomics to study the evolution and spread of human pathogens and lead pathogen analytics at the Broad. @[email protected] @dannyjpark.bsky.social
Cambridge, MA, USA Katılım Mayıs 2013
444 Takip Edilen1K Takipçiler
@DSI_Africa events this week are well covered on the Twittersphere. But who shall carry the burden of tooting this meeting to the federated mastodonverse?
I, @dpark@mstdn.science, I shall take up my phone and live toot! Follow me, and we shall bring science fomo to your feed!
Cape Town, South Africa 🇿🇦 English
Danny Park @dannyjpark.bsky.social retweetledi
Everyone moving from twitter to mastodon is very likely to fail because it is a collective action problem, benefits depend on others actions.
Here's how it can succeed. It will require your commitment for 1 month to do a few things. Read and retweet if you commit to do them.
Brian Nosek (@[email protected])@BrianNosek
Even if the Mastodon migration only affects #academictwitter, it could be a great success. Social media is like the local pub. The food quality is irrelevant. As long as the people I want to talk to and hear from are there, I'm happy. I'm at: @briannosek" target="_blank" rel="nofollow noopener">nerdculture.de/web/@briannosek
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@dmaccannell Sounds like we should’ve had you come to Barcelona!
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This is really cool. Frustrates me when discourse around pathogen sequence data sharing becomes polarized and limits our ability to talk objectively about how protocols, standards and tooling from human genomics could be adapted to balance openness with access/usage permissions.
Melanie Courtot @[email protected]@mcourtot
Reuse of @GA4GH standards in yet another project - Valentina di Francesco on how @NIH Cloud Platform Interoperability leverages work from the data use and researcher ID workstream @nyronen @Doc_JmGAuvil through Passport and DUO #ga4gh10thplenary
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Danny Park @dannyjpark.bsky.social retweetledi
#SARSCoV2 took the world for a spin. At the time, our newly born @pha4ge Data Structures working group thought we could make a difference here. Today our efforts of two years are announced to the world in @GigaScience ⤵️
academic.oup.com/gigascience/ar…
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It took me seven episodes to realize that the song actually had lyrics, and the lyrics were his name.
FETT! Boba boba boom, boba boba boba FETT!
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It's worth saying that much of the lab techniques and practices in our viral genomics lab were strongly shaped by Adrianne over the past decade. Plus I love that my kids get to see her videos every time we visit the Museum of Science.
Pardis Sabeti@PardisSabeti
For 8 years Adrianne Gladden-Young elevated @sabeti_lab viral genomics and inspired us all. Here is a brief history celebrating the brilliant mind & powerful voice of @agladdenyoung #BlackHistoryMonth 1/16
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Danny Park @dannyjpark.bsky.social retweetledi
Hearty congratulations to the duo of Idowu Olawoye @idowuolawoye & Paul Oluniyi @pauloluniyi for their successful post-field seminar (internal defense) yesterday.
#Bioinformatics #PhD
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Danny Park @dannyjpark.bsky.social retweetledi
I am very pleased to see this analysis posted (+preprint soon!). With tons of fantastic collaborators, @TheSchneiderPhD and @mishmash_su show that pango lineage assignment with pUShER is more stable than pangoLEARN.
Adriano Schneider, Ph.D. 🇧🇷🇮🇹🇺🇲@TheSchneiderPhD
SARS-CoV-2 lineage assignment is more stable with UShER More here: virological.org/t/sars-cov-2-l… #bioinformatics #computationalbiology #SARSCoV2 #COVID19 @ucscgenomics @RussCorbett
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My group at the Broad Institute is hiring two computational full-time positions to work in computational methods, analytics, and cloud pipelines for viral genomics in public health!
BS/MS: broadinstitute.wd1.myworkdayjobs.com/broad_institut…
PhD/MD: broadinstitute.wd1.myworkdayjobs.com/broad_institut…
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@drensber I think folks paying attention were not surprised that it would be quick. I think we were still a bit surprised to see it come even faster than we thought. Once we saw the 8% day, we knew there were only a couple days left.
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@DannyJPark Thanks. I keep hearing about how "the experts were caught off guard" by Omicron's immediate and rapid rise. I'm not really sure what that means, but it sounds like people who actually specialize in analyzing the data weren't surprised at all.
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The CDC predicts we are already majority omicron in the US based on its nowcast projection from genomic surveillance data from earlier this month. These models are great: it's essential to make decisions based on now & future, not a snapshot 2 weeks ago. #variant-proportions" target="_blank" rel="nofollow noopener">covid.cdc.gov/covid-data-tra…
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@drensber That was based on the CDC’s Nowcast models they run every weekend which is a logistic regression on the most recent surveillance data from 1-2wks ago projected to today. Which fits the more recent observed data surprisingly well. cdc.gov/coronavirus/20…
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@DannyJPark So... I'm a little confused here: Was the "MA is at 50% Omicron" that we saw in the headlines yesterday based on prediction models or actual lab results? If the answer is "actual lab results", that would mean we really hit 50% a week ago.
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@CurtisKapsak We've seen enough of these to know not to make promises about the future! But if only everyone would apply their critical updates and sanitize their inputs properly with an N95 or better, maybe we won't have to deal with the next exploit!
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The CDC considers your server fully patched two weeks after your second zero-day log4j hotfix.
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The blue line will soon fill the gap and probably confirm/overlap the red lines, but the value of a rapid glimpse at current trends (especially real measurements, not extrapolated) cannot be overstated. And the inflection point is brief--if you miss a week, it's already over!
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At the request of @MassDPH, @NicoleLWelch & team applied this assay to >1400 recent clinical specimens from the Broad testing catchment to report this picture. The blue line is all the sequencing data we finished this weekend. The red line she just painted over the past two days.
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