Olivia Smith
@oliviarxiv.bsky.social
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Genomic Microdata Refinement @ UT Austin
The only snapshot of me presenting at ASHG last week. All press is good press, right? Right?
18 days ago
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Graham Coop
3 months ago
These embryo-selection startups are clearly feeding into an alt-right ecosystem that revels in techno-futurism much as such movements have in the past. GWAS participants & parents navigating IVF deserve better than being used as tools to attract the attention of edge lords.
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Dr. Damien P. Williams! Look over here! … It's All For You!
6 months ago
So when next we tell you that it's a terrible idea to fire your writers and editors and either a) hire some of them back as "assistants" to clean up LLM generated "AI" slop or b) just wholly rely on content mills which do the same, i want you to remember what's happening to the Chicago Sun-Times.
add a skeleton here at some point
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So exciting to see this out -- Michael has hugely accelerated my statistical training over the last few years and is incredible at explaining and teaching complex ideas in stats 👏🏻👏🏻👏🏻
add a skeleton here at some point
7 months ago
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Janelle Shane
7 months ago
1. LLM-generated code tries to run code from online software packages. Which is normal but 2. The packages don’t exist. Which would normally cause an error but 3. Nefarious people have made malware under the package names that LLMs make up most often. So 4. Now the LLM code points to malware.
add a skeleton here at some point
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Sasha Gusev
7 months ago
The New York Times recently had an article on IVF and embryo selection which I think buries a few important ledes about these products ...
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Opinion | Should Human Life Be Optimized?
Advances in genetic testing and artificial intelligence are changing what’s possible for those undergoing I.V.F. Are we ready for the future of fertility?
https://www.nytimes.com/interactive/2025/04/01/opinion/ivf-gene-selection-fertility.html
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David A Knowles
8 months ago
Wow. "NIH" canceled my co-mentored (with Dave Sulzer) PhD student's F31 funding. His work is on understanding the genetics and neuroscience of language learning disorders. F31 provides no indirect $ to Columbia, just pays his salary. Not that it should matter, but he's an American citizen. W.T.F.
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Richard Sever
8 months ago
Big news: we are setting up a new non-profit organization to run bioRxiv and medRxiv. It's called openRxiv [no it's not a new preprint server; it's dedicated organization to oversee the servers]
openrxiv.org
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Homepage - openRxiv
openRxiv is an independent non-profit, the new organizational home for bioRxiv and medRxiv, enabling researchers to instantly share groundbreaking findings with the global scientific community.
https://openrxiv.org/
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Cedar Riener
8 months ago
A quote from NYT "just the facts" news piece on eliminating Dept of Ed, describing conservative opposition in 1980: "They argued that education should be primarily managed at the state and local levels rather than through federal mandates." Imho accepts bad faith reasoning 1/
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Eric Topol
9 months ago
A Direct Hit, by
@holdenthorp.bsky.social
@science.org
www.science.org/doi/full/10....
"This is a moment to unite."
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Rep. Lloyd Doggett
9 months ago
While Trump seeks to undermine public education, Gov. Abbott is defunding and destabilizing Texas public schools. Abbott's voucher scheme will serve less than 2% of our 5.5 million Texas public school children. $1 billion in taxpayer dollars wasted on a plan that fast-tracks mediocrity.
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Texas bill that lets families use tax dollars for private schools swiftly sails through Senate
Senate Bill 2 now heads to the House, where top officials say they have the support to create education savings accounts.
https://www.texastribune.org/2025/02/05/texas-senate-school-voucher-vote/?utm_campaign=trib-social&utm_content=1738807459&utm_medium=social&utm_source=twitter
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The Washington Post
9 months ago
Representatives from Elon Musk’s U.S. DOGE Service have fed sensitive data from across the Education Department into artificial intelligence software to probe the agency’s programs and spending, according to two people with knowledge of the DOGE team’s actions.
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Elon Musk’s DOGE is feeding sensitive federal data into AI to target cuts
Department of Government Efficiency workers embedded in the Education Department have been processing sensitive agency data using artificial intelligence.
https://www.washingtonpost.com/nation/2025/02/06/elon-musk-doge-ai-department-education/?utm_campaign=wp_main&utm_medium=social&utm_source=bluesky
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Samuel Pattillo Smith
9 months ago
Think of a polygenic score you care about. Are direct genetic effects driving variation among people in this predictor? Or perhaps other, confounding factors? We at the
@arbelharpak.bsky.social
&
@docedge.bsky.social
Labs developed a method to tackle this question. [1/n]
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A Litmus Test for Confounding in Polygenic Scores
Polygenic scores (PGSs) are being rapidly adopted for trait prediction in the clinic and beyond. PGSs are often thought of as capturing the direct genetic effect of one's genotype on their phenotype. ...
https://www.biorxiv.org/content/10.1101/2025.02.01.635985v1
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Jocalyn Clark
9 months ago
Censor CDC scientists and ask them to withdraw papers from medical journals? This is not how it works, Mr President. Our response
@bmj.com
on the Trump Executive Order and his "forbidden words"
www.bmj.com/content/388/...
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Rebekah Higgitt
9 months ago
"grants are being reviewed independently by two staff members instructed to indicate any potential violations of Trump’s orders" As the article says, these orders will likely be found illegal. Why is the NSF expediting this and why is anyone agreeing to reviewed already reviewed grants?
add a skeleton here at some point
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Nikolai Slavov
9 months ago
The success of LLMs has inspired their extension to genomics data. A preprints reports that such models lack understanding of genomics and provide minimal utility, even for basic tasks such as sequence classification.
www.biorxiv.org/content/10.1...
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Genomic Foundationless Models: Pretraining Does Not Promise Performance
The success of Large Language Models has inspired the development of Genomic Foundation Models (GFMs) through similar pretraining techniques. However, the relationship between pretraining performance ...
https://www.biorxiv.org/content/10.1101/2024.12.18.628606v1
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Richard Sever
9 months ago
CDC censors papers submitted to journals. "Researchers instructed to remove references to forbidden terms [including] transgender, LGBT, non-binary, assigned [fe]male at birth"
insidemedicine.substack.com/p/breaking-n...
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BREAKING NEWS: CDC orders mass retraction and revision of submitted research across all science and medicine journals. Banned terms must be scrubbed.
Any unpublished manuscript mentioning certain topics, including gender and "LGBT," must be pulled or revised.
https://insidemedicine.substack.com/p/breaking-news-cdc-orders-mass-retraction
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