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J. Harry Caufield

@severaltimes.bsky.social
120 followers 413 following 91 posts

I make computers do science things. I like biomedicine and data standards and AI and knowledge graphs and ontologies. I have opinions and they are my own opinions and those opinions aren't stated on behalf of any organization or government, they're just me

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Reposted by J. Harry Caufield
Chris Mungall @cmungall.bsky.social · 21/07/2026
Excited to partner with Anthropic on using AI for #RareDisease, and grateful for support on building the @monarchinitiative.bsky.social DisMech pathomechanism knowledge base! #MedSky #GeneSky
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Reposted by J. Harry Caufield
Bioinformatics Open Source Conference (BOSC) @bosc.bsky.social · 10/07/2026
Attending #ISMB2026? Check out the #BOSC2026 keynotes and panels: Keynote 1: Maryam Zaringhalam Keynote 2: Eric Green Panel 1: Policies and Strategies for Resilient Open Science Panel 2: Open Source in the Age of AI More info: www.open-bio.org/events/bosc-...
open-bio.org
BOSC 2026
Since 2000, BOSC has covered all aspects of open source bioinformatics and open science. BOSC 2026, the 27th annual Bioinformatics Open Source Conference, will take place July 14-15 in Washington, DC,...
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Reposted by J. Harry Caufield
Chris Mungall @cmungall.bsky.social · 04/07/2026
If you are attending #ISMB2026 you can hear @severaltimes.bsky.social's presentation at the Function COSI on our use of agentic AI to do this!
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Thiago Carvalho @cyrilpedia.bsky.social · 10/03/2026
'Phil was also the founding Editor-in-Chief of PLOS Computational Biology, where he created the beloved Ten Simple Rules series. He was so prolific in the series that the meta-article “Ten Simple Rules for Writing a PLOS Ten Simple Rules Article” literally includes, as Rule 4: “Be Philip E. Bourne.”
blog.stephenturner.us
Remembering Phil Bourne
Personal reflections on a legendary scientist, leader, builder, and mentor
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J. Harry Caufield @severaltimes.bsky.social · 07/01/2026
Music for today is Greg Haines - Slumber Tides open.spotify.com/album/7cpUOM...
open.spotify.com
Slumber Tides
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Nifflas @nifflas.bsky.social · 21/11/2025
Whenever I see variations of the "Dependency" comic by xkcd (xkcd.com/2347/), I always feel it's actually more like this:
An edit of the xkcd comic "Dependency". In this version, it's just a heap of collapsed blocks scattered everywhere. Also everything is on fire
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J. Harry Caufield @severaltimes.bsky.social · 14/11/2025
What is that rule about questions in headlines and how they can nearly always be answered with "No"? Or is that the entire rule? generativehistory.substack.com/p/has-google...
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J. Harry Caufield @severaltimes.bsky.social · 21/10/2025
news.spencer.place/p/alive-inte...
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J. Harry Caufield @severaltimes.bsky.social · 23/09/2025
Good news, for now www.politico.com/news/2025/09...
politico.com
Judge orders Trump administration to restore more than $500 million in research funds to UCLA
The decision marked a major win for the beleaguered UC system, which is facing a $1 billion demand to restore the funding.
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J. Harry Caufield @severaltimes.bsky.social · 22/08/2025
Music for today is Lauren Bousfield - Palimpsest open.spotify.com/album/34Vo08...
open.spotify.com
Palimpsest - Album by Lauren Bousfield | Spotify
Lauren Bousfield · album · 2020 · 13 songs
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J. Harry Caufield @severaltimes.bsky.social · 05/08/2025
A use case for Vibrio phages? That is, if we aren't worried about seeding the oceans with exogenous viruses
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Reposted by J. Harry Caufield
Alexandra Witze @alexwitze.bsky.social · 01/08/2025
"The suspended NSF grants, a list of which Science obtained from an agency source, span work from computer science and plasma physics to the measurement of volatile compounds created by this year’s Los Angeles fires." By @dangaristo.bsky.social in @science.org 🧪 www.science.org/content/arti...
science.org
NSF and NIH suspend grants to UCLA
Move follows Trump administration finding that school didn’t effectively combat antisemitism
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Kathleen Bachynski @bachynski.bsky.social · 01/08/2025
I can’t begin to enumerate the ways the Corporation for Public Broadcasting made my life better, literally from my earliest memories until today. This is gut wrenching.
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donald @boringstein.bsky.social · 25/07/2025
more than a year ago, the lancet put this out, now seemingly lost to the collective memory: www.thelancet.com/journals/lan...
thelancet.com
Counting the dead in Gaza: difficult but essential
By June 19, 2024, 37 396 people had been killed in the Gaza Strip since the attack by Hamas and the Israeli invasion in October, 2023, according to the Gaza Health Ministry, as reported by the UN Offi...
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J. Harry Caufield @severaltimes.bsky.social · 25/07/2025
If you work in the sciences and are hesitant about using generative AI, let me suggest this minimal application: please please use it to make a unique, searchable name for your next project
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Kristina Killgrove @killgrove.bsky.social · 24/07/2025
The 2010 paper claiming arsenic-based life has been retracted by Science today. 🧪
livescience.com
Embattled 'arsenic life' paper retracted by journal Science 15 years after publication
A controversial 2010 study that suggested bacteria could grow using arsenic instead of phosphorus has been retracted by the research journal Science.
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Jeremy Berg @jeremymberg.bsky.social · 22/07/2025
NIH staff are being required to fully fund ~ 50% of their grants. This means that all 4 years of an award will be paid out of this appropriation. This will help them get the appropriated funds spent, but will mean they can only fund (1/2 + 1/4*1/2) = 5/8 has many grants as they would have otherwise.
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J. Harry Caufield @severaltimes.bsky.social · 21/07/2025
@bosc.bsky.social begins at #ismb2025 !
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J. Harry Caufield @severaltimes.bsky.social · 21/07/2025
Amos Bairoch keynote at #ismb2025 - biocuration is still very relevant, though it's unfortunate that it's still so necessary
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J. Harry Caufield @severaltimes.bsky.social · 19/07/2025
On my way to #ismb2025
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Garth Marenghi's Catbus @catbus.phd · 31/12/2024
Japanese fireworks catalogue circa 1880
color illustration of exploding fireworks shells color illustration of exploding fireworks shells color illustration of exploding fireworks shells color illustration of exploding fireworks shells
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J. Harry Caufield @severaltimes.bsky.social · 04/07/2025
Hello bot! @bokbot.bsky.social
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Paul Smaldino @psmaldino.bsky.social · 30/06/2025
Indiana University, home of one of the best cognitive science programs in the world, appears to be cancelling its undergrad cog sci program. Fascist ghouls continuing their horrid torrent of destruction.
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J. Harry Caufield @severaltimes.bsky.social · 10/06/2025
Today, I'm back to thinking about generative AI as a spooky technology
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ACLU @aclu.org · 28/05/2025
Free expression is a hallmark of the First Amendment. All our rights are in jeopardy when trans peoples’ freedom to exist is undermined.
Pink and purple graphic with white text that reads, "Trans liberation is tied to all of our freedoms" with a white ACLU logo.
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George Pearkes @peark.es · 27/05/2025
*US ORDERS HALT TO STUDENT VISA INTERVIEWS: POLITICO
politico.com
Trump team orders stop to new student visa interviews, as it weighs expanding social media vetting
The directive came in a Tuesday cable obtained by POLITICO.
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J. Harry Caufield @severaltimes.bsky.social · 18/05/2025
Time to bring back Asimov's laws of robotics I guess
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Elisabeth Bik @elisabethbik.bsky.social · 19/04/2025
U.S. attorney demands scientific journal explain how it ensures 'viewpoint diversity' Letter raised concerns it was designed to suppress academic and scientific freedom. @evanbush.bsky.social reports @nbcnews.com www.nbcnews.com/science/scie...
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Eric Topol @erictopol.bsky.social · 24/03/2025
HHS's Office of Long COVID Research and Practice has been DOGEd. Closing this week.
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Josh Marshall @joshtpm.bsky.social · 19/04/2025
NEW: The entire NIH payment system is currently frozen for all grantees. This is tied to DOGE’s new “Defend the Spend” caper, reported in today’s Post, which has already led to payment cutoffs to doctors and health workers at hospitals treating the poor.
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J. Harry Caufield @severaltimes.bsky.social · 19/04/2025
I want to know why my country is operating a concentration camp
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Sue @modcur.bsky.social · 07/04/2025
HC: Need to avoid the rocky shoals of hallucinations and confabulations. Test run looking at GO LLMS completely fail making up IDs and terms #Biocuration2025
A man stands on a stage next to a slide showing a large sail boat under stormy skies
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Sue @modcur.bsky.social · 07/04/2025
Harry Caufield - Building the Lighthouse: Guiding LLM-Powered Biocuration with Domain Knowledge and Context Navigating the stormy seas of LLM hallucinations #Biocuration2025
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Sue @modcur.bsky.social · 07/04/2025
NM: We need a Car Talk for AI to help users/tinkerers explain what is wrong with their models. We need a safe space to help us cross the digital divide. People need access. #Biocuration2025
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J. Harry Caufield @severaltimes.bsky.social · 07/04/2025
Now at Biocuration 2025! #biocuration2025 @biocurator.bsky.social
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J. Harry Caufield @severaltimes.bsky.social · 05/04/2025
Amid ICE detention, Georgetown professor worried most for his class, colleagues and students say www.nbcnews.com/news/asian-a...
nbcnews.com
Amid ICE detention, Georgetown professor worried most for his class, colleagues and students say
“He wasn’t worried about what’s going to happen to him and his reputation,” one student said. “He was worried about his students.”
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Reposted by J. Harry Caufield
merritt @merrittk.com · 04/04/2025
moose time
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Prof. Nicole Holliday @mixedlinguist.bsky.social · 18/02/2025
So they say research ethics are DEI…remember the thing that’s supposed to keep the Tuskegee experiment from ever happening again? Multiple reports that CITI training modules now contain a disclaimer that says content is “subject to review” due to recent EOs. www.reddit.com/r/Professors...
reddit.com
From the Professors community on Reddit
Explore this post and more from the Professors community
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Reposted by J. Harry Caufield
@LaBonneLaB @labonnelab.bsky.social · 17/02/2025
HHS blocked posting indefinitely. Not enough press is being given to this back door approach to blocking NIH grants. If and when it is lifted will still be 35 days before study sections can be held
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Justin Bollinger @bollinger.bsky.social · 16/02/2025
I was hoping that my first bsky post would be more cheerful. I recently joined NIH (NIEHS) as a PO. I fought hard for this position and was so excited to support health science from a new vantage point… I picked up my life and moved to NC. Unfortunately, my time at NIEHS was short lived.
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Anthony Clark @nedroid.com · 09/02/2025
The football is not nearly big enough to feed the entire winning team. How do they decide who gets to eat it.
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J. Harry Caufield @severaltimes.bsky.social · 09/02/2025
why yes, I can simultaneously believe the NFL should be dissolved and say Go Birds
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J. Harry Caufield @severaltimes.bsky.social · 22/01/2025
Thinking about the old Head On advertisements today
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J. Harry Caufield @severaltimes.bsky.social · 22/01/2025
youtube.com/shorts/ep7Au...
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kc green @kcg.bsky.social · 19/01/2025
“this festering world”, a poam
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J. Harry Caufield @severaltimes.bsky.social · 11/01/2025
Listening to a nicely done podcast on aging and Elie Metchnikoff www.npr.org/2025/01/02/1...
npr.org
History of the Self: Aging : Throughline
Defeating old age? In 1899, Elie Metchnikoff woke up in Paris to learn he had done just that. At least, that's what the newspaper headlines said. Before long he was inundated with mail from people beg...
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J. Harry Caufield @severaltimes.bsky.social · 07/01/2025
Garbage collection is data cruelty youtu.be/eDr6_cMtfdA?...
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J. Harry Caufield @severaltimes.bsky.social · 06/01/2025
motion to change the .org TLD to .orb, effective immediately
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eff. @fabjx.bsky.social · 18/11/2024
Escherichia is be a beautiful first name — if I were E. coli I'd make using my genus in full mandatory
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