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Daniel Ukaegbu

@darniee.bsky.social
473 followers 91 following 9 posts

PhD student in computational toxicology @johnshopkins.bsky.social

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Johns Hopkins University @jhu.edu · 16/01/2026
Professor Jamie Spangler has been awarded the 2025 President’s Frontier Award for her groundbreaking work in molecular immunoengineering. Her pioneering research is shaping the future of therapies for cancer, autoimmune diseases, and more. bit.ly/4pMVsfo
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Sean Robbins @seanrobbins.bsky.social · 03/01/2026
'Build something complex in a domain where you are already an expert and iterate on it' is a much more sophisticated and realistic message than 'AI will do all the work so we won't need experts at all'.
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Christopher Webb @cwebbonline.com · 01/01/2026
What the KENNEDY Center used to be… Remember that time Aretha Franklin performed at the 2015 Kennedy Center Honors, paying tribute to Carole King, who co-wrote “You Make Me Feel Like A Natural Woman,” and it brought a tear to Obama’s eye and everyone to their feet? And Carole King’s reaction. Wow.
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The Lajoie Lab @lajoielab.bsky.social · 24/12/2025
What maintains ILC2s in airway allergy? We report a complement-producing stromal niche forming an IL-33 alarmin hub sustaining ILC2s. Thanks to the JHU Catalyst Award for the support!! cc @deniswirtz.bsky.social @cp-cellreports.bsky.social @hopkinsmedicine.bsky.social www.cell.com/cell-reports...
cell.com
Complement-producing adventitial fibroblasts form an IL-33 alarmin hub that maintains ILC2s during airway allergy
Atakkatan et al. identify a distinct subset of C3+IL-33+ adventitial fibroblasts (AFs) that drives allergic inflammation by maintaining ILC2 responses. In turn, ILC2-derived IL-13 supports AF function...
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Jessica Stark @jcstark.bsky.social · 16/12/2025
Out now: We present antibody-lectin chimeras (AbLecs) as a molecular platform to target sugars, or glycans, for cancer immunotherapy. www.nature.com/articles/s41... www.nature.com/articles/s41... @mitkochinstitute.bsky.social @mitdeptofbe.bsky.social @mitcheme.bsky.social @stanford-chemh.bsky.social
nature.com
Antibody-lectin chimeras for glyco-immune checkpoint blockade - Nature Biotechnology
Cancer immunotherapy benefits from antibody-lectin chimeras that block glyco-immune checkpoints.
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Mr. Spock 🖖 @spockresists.bsky.social · 06/12/2025
I just loved this and thought I’d share. 🙏
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pen(Taka) @iwatobipen.bsky.social · 05/12/2025
I started my blog post 16 years ago! It's really amazing that I can keep it :)
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Chaitanya K. Joshi @chaitjo.bsky.social · 03/12/2025
Introducing gRNAde: our own little "AlphaGo Moment" for RNA design! 🧬🚀 📝: tinyurl.com/gRNAde-paper Unlike proteins, RNA design has long relied on "wisdom of the crowd" (human experts) or the slow crawl of directed evolution — gRNAde changes that! 🧵👇
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NPR @npr.org · 22/11/2025
Two scientists who are fast friends, one Nigerian and one American, have won the MacArthur Foundation's 100&Change competition for their network to catch the next disease with pandemic potential.
n.pr
$100 million prize goes to dynamic duo aiming to stop next pandemic before it starts
Two scientists who are fast friends, one Nigerian and one American, have won the MacArthur Foundation's 100&Change competition for their network to catch the next disease with pandemic potential.
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Science Magazine @science.org · 13/11/2025
For solving a 50-year mystery by uncovering the machinery behind BMP, a molecule with protective effects against various disorders, Uche Medoh is the winner of the 2025 Science & SciLifeLab Prize for Young Scientists. 🎉 Learn more about the work: scim.ag/4qVpK1a
Uche Medoh
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Architecture @architecture.bsky.social · 03/11/2025
50 % Cloud Restaurant, Yunnan, China Cheng Chung Design transformed artist Luo Xu’s red-brick installation into a restaurant and art lounge. Its organic arches, skylights and flowing brick forms merge architecture, nature and art into a unique multi-sensory dining experience.
50 % Cloud Restaurant, Yunnan, China50 % Cloud Restaurant, Yunnan, China50 % Cloud Restaurant, Yunnan, China50 % Cloud Restaurant, Yunnan, China
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Jess Calarco @jessicacalarco.com · 01/11/2025
We have progressed from data collection to data analysis.
My 11-year-old sitting with her pile of Halloween candy, sorting it into a bar graph
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👻 Jack Djinn Wail 🧞 @jacktindale.bsky.social · 29/10/2025
Nice to see he’s bringing a new album out.
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Achira @achira-ai.bsky.social · 24/10/2025
Achira is growing! We’re looking for talented software engineers, ML research engineers, and AI/ML scientists to join our team in building foundation simulation models to power the future of drug discovery. Apply at achira.ai
achira.ai
Achira
Building foundation simulation models for drug discovery
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Leila Belkora PhD, astrophysics @leilabelkora.bsky.social · 14/10/2025
I see that @kelbadry.bsky.social has won a MacArthur Foundation fellowship (Genius award)! Congratulations 🧪🔭 www.nytimes.com/2025/10/08/a...
nytimes.com
MacArthur Foundation Announces 2025 ‘Genius Grant’ Winners
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Dr. K. Lotterhos @drk-lo.bsky.social · 09/10/2025
"The Internet has Google. Now biology has MetaGraph. Detailed today in Nature1, the search engine can quickly sift through the staggering volumes of biological data housed in public repositories." 🧪 www.nature.com/articles/d41... anyone try this? What's it like?
nature.com
‘Google for DNA’ brings order to biology’s big data
MetaGraph compresses vast data archives into a search engine for scientists, opening up new frontiers of biological discovery.
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C&EN (Chemical & Engineering News) @cenmag.bsky.social · 06/10/2025
Immunity researchers win the 2025 #NobelPrize in Physiology or Medicine Mary E. Brunkow, Fred Ramsdell and Shimon Sakaguchi receive the prize for understanding how the immune system is kept in check. Read more: cen.acs.org/people/nobel... #chemsky #immunosky 🧪
Immunity researchers win the 2025 Nobel Prize in Physiology or Medicine
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kinesinmotors.bsky.social @kinesinmotors.bsky.social · 05/10/2025
💸 🐦 🧪
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Tiago Pimentel @tpimentel.bsky.social · 01/10/2025
Very happy this paper got accepted to NeurIPS 2025 as a Spotlight! 😁 Main takeaway: In mechanistic interpretability, we need assumptions about how DNNs encode concepts in their representations (eg, the linear representation hypothesis). Without them, we can claim any DNN implements any algorithm!
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Anne Carpenter @drannecarpenter.bsky.social · 13/07/2025
I’m not sure the linked in crowd is getting my snark about Virtual Cells 😄🫣 www.linkedin.com/posts/anneca...
linkedin.com
I’d like to take this opportunity to rebrand our lab's prior research as creating AI Virtual Cells! | Anne Carpenter
I’d like to take this opportunity to rebrand our lab's prior research as creating AI Virtual Cells! 🎉 😅 Like many others released lately, ours are mostly one-trick ponies, but we have a stable ...
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Greg Landrum @greglandrum.bsky.social · 26/09/2025
This week's #RDKit blog post shows how to create simple protein--ligand interaction diagrams. I think there's potential to take this a bit further... greglandrum.github.io/rdkit-blog/p...
greglandrum.github.io
Drawing simple protein–ligand interaction diagrams with the RDKit – RDKit blog
Quick, but useful
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Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧 @carloscaldas1960.bsky.social · 23/09/2025
Jerusalem is an amazing city!
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Denis Wirtz @deniswirtz.bsky.social · 23/09/2025
Our new workflow maps whole human fallopian tubes at single-cell resolution. In healthy FTs, we detected (many) STIC precancerous lesions. We can also simulate virtual sectioning as done in the clinic and show how current protocols undersample FTs. More here: www.biorxiv.org/content/10.1...
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Pop Base @popbase.tv · 15/09/2025
At 15 years old, Owen Cooper becomes the youngest male acting winner in #Emmys history.
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Prof Sam Illingworth @samillingworth.com · 17/08/2025
🧬 PFAS change gene activity A new study of US firefighters shows some PFAS chemicals alter how genes work, linking them to cancers, autoimmune disease, and neurological disorders. 🔗 www.theguardian.com/environment/... #SciComm #PFAS #Health 🧪
theguardian.com
Exposure to some common Pfas changes gene activity, new study finds
Findings help decipher mechanisms through which ‘forever chemicals’ cause disease, aiding in treating health problems
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Anne Carpenter @drannecarpenter.bsky.social · 04/08/2025
My talk at Accelerating Bio-Innovation gives a flavor for how cell-based images are propelling new treatments: www.youtube.com/watch?v=kP-G...
youtube.com
Anne Carpenter at 2025 ABI at MIT: How Imaging Propels Medicine in the Age of AI
YouTube video by Anne Carpenter
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Tony L. @tlint.bsky.social · 23/07/2025
My first post and I would like to plug my project - pharmacophore-toolkit. I thought others in the #cheminformatics, #molecularmodeling, #drugdiscovery, or the #chemsky #compchem community would find it helpful. github.com/tlint101/pha...
github.com
GitHub - tlint101/pharmacophore-toolkit: Generate simple pharmacophore models from RDKit
Generate simple pharmacophore models from RDKit. Contribute to tlint101/pharmacophore-toolkit development by creating an account on GitHub.
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Pat Walters @wpwalters.bsky.social · 22/07/2025
New Practical Cheminformatics Post patwalters.github.io/Three-Papers...
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Pop Crave @popcrave.com · 21/07/2025
Barack Obama encourages young men to have more diverse friend groups: “I had a gay professor in college […] who became one of my favorite professors and was a great guy and would call me out when I started saying stuff that was ignorant. You need that to show empathy and kindness.”
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Prof Sam Illingworth @samillingworth.com · 20/07/2025
🧪 Inflammation has a pH switch This study shows that as inflammation lowers cell pH, it switches off certain inflammatory genes. A key protein, BRD4, senses the acidity, helping tune the immune response and limit damage. 🔗 www.cell.com/cell/fulltex... #SciComm #Immunology #CellBiology
cell.com
Regulation of inflammatory responses by pH-dependent transcriptional condensates
BRD4 functions as an intracellular pH sensor through a conserved histidine-rich intrinsically disordered region. Inflammation-associated acidification triggers a pH-dependent switch in transcriptional...
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Chaitanya K. Joshi @chaitjo.bsky.social · 16/07/2025
Are we hitting a wall with scaling molecular foundation models? Some thoughts on what I think is one of the most interesting open Qs atm: chaitjo.substack.com/p/transfer-l...
chaitjo.substack.com
Towards transfer learning in molecular foundation models
Are multi-modal molecular foundation models learning transferable representations across biology and chemistry?
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Kyle Cranmer @kylecranmer.bsky.social · 03/07/2025
As always, a very nice talk from Francois Lanusse: Generative Al for Inverse Problems and Forecasting Slides: eiffl.github.io/talks/Paris2...
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Jake Cornwall-Scoones @jcornwallscoones.bsky.social · 03/07/2025
Can using synthetic approaches to build biology help teach us the design principles of how embryos build themselves? 👷‍♀️🔧 If this is a question that interests you, come and share your thoughts at this Royal Society Workshop on Generative Biology royalsociety.org/science-even...
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Daniel Probst @skepteis.bsky.social · 26/06/2025
🧪 New preprint: "Generative Modeling of Full-Atom Protein Conformations using Latent Diffusion on Graph Embeddings" We generate complete, all-atom protein conformational ensembles, capturing both backbone and side-chain dynamics of, e.g., the Dopamine D2 receptor. arxiv.org/abs/2506.17064
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pen(Taka) @iwatobipen.bsky.social · 26/06/2025
Apply molecular filter more easily #RDKit #Datamol #Cheminformatics Molecular filter is important for removing unwanted molecules from huge amout of comound dataset. And there are lots of filters are available in these days. For example, PAINS, Role of 5, Role of CNS etc... These filters are…
iwatobipen.wordpress.com
Apply molecular filter more easily #RDKit #Datamol #Cheminformatics
Molecular filter is important for removing unwanted molecules from huge amout of comound dataset. And there are lots of filters are available in these days. For example, PAINS, Role of 5, Role of CNS etc... These filters are publically available but it's difficult to use from one platform. However datamol, medchem package can support lots of compound filters! You can read documentation of datamol from following URL.
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Volker Deringer @vlderinger.bsky.social · 23/06/2025
Read more about our MLIP distillation preprint in John’s thread! 🙂 #compchem #chemsky
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Princess Vimentin PhD | Cancer Biologist @princess-vimentin.bsky.social · 21/06/2025
Some exciting news for friends w/diabetes. Zimislecel treatment restored pancreatic islet cell function in a small group of 12 patients. Ten of the 12 patients no longer needed insulin. This #research is a culmination of 20 yrs of hard work & $50 M in funding. 🎁🔗🧪 www.nytimes.com/2025/06/20/h...
nytimes.com
People With Severe Diabetes Are Cured in Small Trial of New Drug
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Volker Deringer @vlderinger.bsky.social · 17/06/2025
Distilling atomistic foundation models! ⚗️🧪🤖 In this #compchem preprint, we describe a general (“architecture-agnostic”) approach to creating fast, application-specific MLIP models via synthetic data – led jointly by @jla-gardner.bsky.social & @dft-dutoit.bsky.social arxiv.org/abs/2506.10956
arxiv.org
Distillation of atomistic foundation models across architectures and chemical domains
Machine-learned interatomic potentials have transformed computational research in the physical sciences. Recent atomistic `foundation' models have changed the field yet again: trained on many differen...
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Shana L. Darabie @shanadarabie.bsky.social · 14/06/2025
Tonight, the kid and I are watching TREASURE PLANET #filmsky
Movie poster for Treasure Planet with the tagline “Robert Louis Stevenson’s greatest adventure Treadure Island as it has never been seen before”
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Daniel Ukaegbu @darniee.bsky.social · 12/06/2025
😂😂😂😂
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Richard Riley (R²) @richarddriley.bsky.social · 02/06/2025
**New Lancet DH paper** "Importance of sample size on the quality & utility of AI-based prediction models for healthcare" - for broad audience - explains why inadequate SS harms #AI model training, evaluation & performance - pushback to claims SS irrelevant to AI research 👇 tinyurl.com/yrje52fn
sciencedirect.com
Importance of sample size on the quality and utility of AI-based prediction models for healthcare
Rigorous study design and analytical standards are required to generate reliable findings in healthcare from artificial intelligence (AI) research. On…
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Leading Edge Fellows Program @leadingedgeprogram.bsky.social · 27/05/2025
We are thrilled to announce the 2025 Leading Edge Fellows! 40 outstanding postdoctoral fellows doing pioneering research in a wide range of biological and biomedical disciplines. Learn more about these exceptional scientists: www.leadingedgesymposium.org/fellows
Text reads "Congratulations to the 2025 Leading Edge Fellows" followed by the Leading Edge logo and www.leadingedgesymposium.org. Below are the headshots and names of the 40 new Leading Edge Fellows. They are 
Cel	Welch
Lianna	Wat
Maria	Toro Moreno
Sarah	Talley
Xulu	Sun
Ines	Sturmlechner
Virginia	Savy
Amelie	Raz
Kali	Pruss
Caterina	Profaci
Sarah	Pierce
Melissa 	Pamula
Kehinde	Odufowora
Patricia	Nano
Ariana	Musa de Aquino
Nour El Houda	Mimouni
Kathleen	Martin
Brea	Manuel
Mable	Lam
Miri	Krupkin
Elaine	Kouame
Megan	Kirchgessner
Sumin	Kim
Shubhangini	Kataruka
Geraldine	Jowett
Andrea	Jones
Leanne	Iannucci
Emily	Heckman
Allison	Girasole
Florencia	Fernandez Chiappe
Tonie	Farris
Hannah	Elam
Erin	Doherty
Xiaoyun	Ding
Maria	Bustillo
Julia	Brunner
Debadrita	Bhattacharya
Lorena	Benedetti
Ashley	Anderson
Krisha	Aghi
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Denis Wirtz @deniswirtz.bsky.social · 28/05/2025
Warm congrats to our PhD graduates.
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Greg Landrum @greglandrum.bsky.social · 25/05/2025
This #RDKit blog post builds on the earlier one about chemical words; this time I'm using Morgan fingerprint bits as the "words". greglandrum.github.io/rdkit-blog/p...
greglandrum.github.io
Common chemical words II – RDKit blog
This time with Morgan fingeprint bits
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Joe Greener @jgreener64.bsky.social · 08/04/2025
This has been a long journey, but it's now out in final form. @kjamali.bsky.social academic.oup.com/bioinformati...
academic.oup.com
Fast protein structure searching using structure graph embeddings
Abstract . Comparing and searching protein structures independent of primary sequence has proved useful for remote homology detection, function annotation,
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Peter Kenny @pwk2024.bsky.social · 16/05/2025
The European Research Council (ERC) decision to increase its support for leading researchers moving to Europe has today been formally adopted 🧪 erc.europa.eu/news-events/...
erc.europa.eu
Increased ERC funding for top global researchers moving to Europe now confirmed
The European Research Council (ERC) decision to increase its support for leading researchers moving to Europe has today been formally adopted. On top of its standard grants, the ERC offers additional ...
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Amalia Skilton @amaliaskilton.bsky.social · 14/05/2025
Came close to tears while making my summer writing plan. From awe at @mirya.bsky.social writing 3 books in one year, but also because I am *losing it* over the idea of finishing my book ms. this summer. Objectively I'm close, but how can I get to DONE with a 4 wk field trip and 3 wks vaca*?
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Peter Kenny @pwk2024.bsky.social · 15/05/2025
With Nobel Prize laureates occasionally straying outside their applicability domains, I thought it might be helpful to re-post Expertitis #DrugDiscovery 🧪 fbdd-lit.blogspot.com/2015/04/expe...
fbdd-lit.blogspot.com
Expertitis
I will never call myself an expert for to do so would be to take the first step down a very slippery slope.  It is important to remember th...
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Daniel Ukaegbu @darniee.bsky.social · 15/05/2025
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