David A Knowles (@davidaknowles.bsky.social)
@david_a_knowles
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machine learning and functional genomics at @Columbia and @nygenome. he/him/his. @[email protected] @davidaknowles.bsky.social
New York, NY
Joined August 2015
Free in-person registration is open for #MLCB2025! Sept 10-11 at @nygenome and online at https://t.co/9Eef4DoPfn. Paper/abstract deadline is June 1, more deets including our fantastic invited speaker lineup at https://t.co/fZjonpZ0iv! Please RP.
mlcb.org
The 20th Machine Learning in Computational Biology (MLCB) meeting will be a two-day hybrid conference, September 10-11, 9am-5pm ET, with the in-person component at the New York Genome Center, NYC....
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đź“ŁNew from @david_a_knowles & co! đź“„Leveraging functional annotations to map rare variants associated with #Alzheimer disease with gruyere https://t.co/I6p0t6gGO0
cell.com
This study introduces genome-wide rare variant enrichment evaluation (gruyere), a Bayesian framework for rare variant association studies that improves variant prioritization by learning a trait-sp...
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*Every single* cure for a disease ultimately flowed from basic exploratory research. Stopping basic research is like stopping the mountain rains and expecting rivers of cures to still flow. Examples: 1) studying saliva of Gila monster -> GLP1's 2) studying funghi -> first
As a taxpayer (irrespective of whether you’re a scientist) would you would be in favor of more of the @NIH budget going to fund efforts to solve specific diseases at the expense of basic exploratory research? Which diseases?
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explainer for the tech bros. 60% is added on top of direct cost (and equipment are not included). So for every dollar that goes to a scientist, roughly $0.80 is allowable. Then you add 60% facilities/admin costs on top ($0.48). Uni’s final cut is $0.48/$1.48 =0.324 of the grant
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Your math is wrong dude. Let me get this straight. All this time you thought a that an indirect cost rate of 60% meant that Universities took 60% of the grant? 🤦‍♂️
Can you believe that universities with tens of billions in endowments were siphoning off 60% of research award money for “overhead”? What a ripoff!
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Ok that's it I'm done here. I'll leave this account up to avoid it being eventually commandeered. but will not be posting/interacting.
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#MLCB2025 will be Sept 10-11 at @nygenome in NYC! Paper deadline June 1st & in-person registration will open in May. Join our mailing list https://t.co/0vwbLjy68i for future announcements. More details at https://t.co/jElefrlUM3. Please RT!
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There are 10 days left to submit abstracts to ProbGen https://t.co/SfR9a8Nsdr! Fantastic line-up of speakers and topics.
meetings.cshl.edu
Cold Spring Harbor Laboratory Meetings & Courses -- a private, non-profit institution with research programs in cancer, neuroscience, plant biology, genomics, bioinformatics.
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Please could some @PyroAi folks (@ftzo @Tkaraletsos @nmancuso_) give me some insight on what I'm doing wrong here?
forum.pyro.ai
Hi all. I have a model which is a hierarchy of GLMs where I want to test a null vs full model for each sub-GLM (there are params shared between these GLMs in the real version although not in the MWE...
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Our first foray into (noncoding) rare variant association testing! gruyere learns functional annotation importance & finds associations missed by existing methods. @_anjalidas did a fantastic job with model assessment & scaling! Joint w @towfiqueRaj
medrxiv.org
The increasing availability of whole-genome sequencing (WGS) has begun to elucidate the contribution of rare variants (RVs), both coding and non-coding, to complex disease. Multiple RV association...
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The fantastic Machine Learning in CompBio #MLCB2024 papers are up at https://t.co/00uDGSR6i6 (thanks @lawrennd !) Reminder that all the talks are available on our yt channel https://t.co/9Eef4DoPfn. Please RT!
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The fantastic Machine Learning in CompBio #MLCB2024 papers are up at https://t.co/00uDGSR6i6 (thanks @lawrennd !) Reminder that all the talks are available on our yt channel https://t.co/9Eef4DoPfn. Please RT!
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The fantastic #MLCB2024 talks, spotlights, panel & keynotes are now up on our Youtube channel at https://t.co/iKPvLnxvVs. Please RT!
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#MLCB2024 is live at https://t.co/NAwelH9OtT ! First up @zhou_jian on interpretable DL for transcription initiation.
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Two @TroyanskayaLab alums — @zhou_jian & @ChikinaLab — giving keynotes at #MLCB2024! Jian now talking about sequence basis of transcription initiation in the human genome. Tomorrow, Maria is talking about biophysically interpretable sequence to function models.
#MLCB2024 kicks off in 22h (9am PST) with keynote from @zhou_jian on DL for transcriptional initiation! Full schedule at https://t.co/0LM2hEb1yh and public livestream at https://t.co/JdxyMbDlNk. Please RT!
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#MLCB2024 kicks off in 22h (9am PST) with keynote from @zhou_jian on DL for transcriptional initiation! Full schedule at https://t.co/0LM2hEb1yh and public livestream at https://t.co/JdxyMbDlNk. Please RT!
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Looking forward to #MLCB2024 later this week! Really happy to see the wide variety of work being done. Sometimes, in the past, it seems like the field converged on the same set of problems... Sad that I won't be able to be there in person this year. :(
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#MLCB2024 will be streamed live from YouTube this week (Thursday and Friday). Get the link from here:
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📢I am elated to share that I will join the Center for Neural Science & Dept. of Psychology at NYU as an Assistant Professor in Sept 2025! My lab will use the remarkable food-caching behavior and active vision of chickadees to study the neural basis of episodic memory 🕊️🧠👀🏙️✨
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#MLCB2024 deadline extended to June 17!!
MLCB2024 abstract/paper submission deadline is coming up (June 15). https://t.co/Fs1E54yFvA Also check out the list of fantastic keynote speakers: Maria Chikina (@ChikinaLab), Ava Amini (@avapamini), Jian Zhou (@zhou_jian), Nilah Ioannidis, Sergey Ovchinnikov (@sokrypton)
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