Jacob Ulirsch, PhD

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Jacob Ulirsch, PhD

Jacob Ulirsch, PhD

@julirsch

Genetics person at @Illumina. Previously @BBS_Harvard, @broadinstitute, Patch Bio, and @NCSSM. he/him. Black lives still matter.

Cambridge, MA Katılım Şubat 2014
1K Takip Edilen761 Takipçiler
Jacob Ulirsch, PhD retweetledi
Matthew Herper
Matthew Herper@matthewherper·
As someone who has covered cancer drug development for 25 years, one of the few things I am sure of is that the odds of technology folks thinking they understand biology are much higher than the odds they actually do.
Egan Peltan@EganPeltan

This is totally out of control: There’s 0 - I repeat 0 - evidence any of the LLM work did anything meaningful for Rosie’s cancer I’m sorry to rain on the parade here. I know we want to believe. But, it’s possible to do a lot of things and have nothing happen @paul_conyngham co-administered α-PD-1 (conventional immunotherapy) with a TKI and the mRNA. It’s probably the most effective cancer immunotherapy of all time. This isn’t a small detail! There’s no evidence his process (beyond FDA approved doggie α-PD-1) had any impact on disease progression. The most parsimonious explanation is a partial response to α-PD-1 I get it. The chat bots make for a great story (although checking multiple LLMs isn’t validation), but it’s really just a neat story. It’s fundraising copy. Before he starts selling the “custom neoantigen mRNA vax” story to consumers, he should provide some evidence it did anything! That’s responsible citizen science This is just storytelling for the AGI true believers. Specifically, a story in search of venture money

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Jacob Ulirsch, PhD
Jacob Ulirsch, PhD@julirsch·
Ever wondered how to choose weights for rare variant burden/SKAT tests? @jschwart37 and I did too! Check out our (@illumina) straightforward new approach that improves discovery by ~50% or more than STAAR, Regenie, and DeepRVAT!
Jeremy Schwartzentruber@jschwart37

Let’s talk about rare variant association tests - we have a new method that helps you discover more with the same data! It’s called FlexRV to signal our approach: Flexibly modeling rare variant pathogenicity improves gene discovery for complex traits. biorxiv.org/content/10.110…

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Ansu Satpathy
Ansu Satpathy@Satpathology·
I am a strong believer that depth of data can be just as powerful as scale of data. Deep analysis of small groups of humans, and even individuals, can lead to novel biological insights and principles. Today I am the guinea pig. In my own blood, @CalebLareau finds strong evidence that a synonymous genetic variant (no amino acid change in the protein) can impact T cell function via altered codon syntax. pnas.org/doi/10.1073/pn…
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Gherman Novakovsky (слава Україні! 🇺🇦)
Excited to share my first contribution here at Illumina! We developed PromoterAI, a deep neural network that accurately identifies non-coding promoter variants that disrupt gene expression.🧵 (1/)
Gherman Novakovsky (слава Україні! 🇺🇦) tweet media
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Kishore Jaganathan
Kishore Jaganathan@kjaganatha·
We're thrilled to introduce PromoterAI — a tool for accurately identifying promoter variants that impact gene expression. 🧵 (1/)
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Sasha Gusev
Sasha Gusev@SashaGusevPosts·
Educated elite here, and I think McDonald's is delicious, eat there regularly (had the McRib this week b/c I'm a sucker for limited offers), enjoy seeing the old-timers and regulars, and am looking forward to a conference in Chicago so I can finally tour Hamburger University.
@ijbailey@ijbailey

This is the sum total of evidence in the piece for this sweeping claim: “They [the highly-educated] alone, as a group, seem to have moral issues with McDonald’s…” In other words, typical FP. No evidence required.

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Emilie Wigdor
Emilie Wigdor@EmilieWigdor·
📣Big news! Our tag-team effort on common variants in rare neurodevelopmental conditions is now out in @Nature! 📣 Co-first authoring with the brilliant @qinqin_huang🌟—proof that teamwork does make the dream work. 💪 nature.com/articles/s4158…
GIF
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Caleb Lareau
Caleb Lareau@CalebLareau·
Though the coarse tree topologies may appear similar between versions, the relative placement of cells (color bar) in the two trees is ~random! We therefore disagree that ReDeeM is “robust and reliable” between versions as edge variants in -1 remains a large driving signal. 5/n
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LeifLudwig
LeifLudwig@LeifLudwig·
In addition to the technical points raised by @CalebLareau, several biological questions remain after this preprint. We would appreciate your thoughts as these were not addressed @chenweng1991, @jswlab, @bloodgenes. 1/n
Caleb Lareau@CalebLareau

Thank you @chenweng1991, @jswlab, @bloodgenes for the feedback on our work. @LeifLudwig and I agree that the “-2” filtering method that mitigates edge bias is a critical development for ReDeeM. Nevertheless, we stand by our original preprint, noting the following: 1/n

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derek guy
derek guy@dieworkwear·
my hot take is that nothing inspired by mexican food is bad. even the worst food at taco bell is good. real mexican food is better and homemade authentic mexican food is off the charts. but even this thing in a bag will taste good.
Christopher Ingraham🦗@_cingraham

This is probably what he's talking about, btw. They put ground beef and cheddar and maybe iceberg lettuce in a Doritos bag. They call it "taco in a bag" and it should be illegal.

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Nicholas Mancuso
Nicholas Mancuso@nmancuso_·
@mike_feigin Mustard or mustard powder obliterates any cheese u use into velvety goodness. Just don't use too much or the tangy flavor is noticeable
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Jacob Ulirsch, PhD
Jacob Ulirsch, PhD@julirsch·
Any white hats out there want to make a virus that gets famous scientists to tweet about my recent papers? Unrelated, I just got a new MacBook for cheap ask me how.
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Lappalainen Lab
Lappalainen Lab@tuuliel_lab·
The Leena Peltonen Prize of 2024 goes to @SashaGusevPosts 🎉! I was honored to announce this and introduce Sasha just minutes ago at #ESHG24. Huge congrats!
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