Ph.D. University of Toronto MSc. Toronto Metropolitan University

Toronto, Ontario
Joined January 2012
Syed Nabeel-Shah retweeted
Cool paper from Gladyshev lab - mice, rats, macaques and humans age with a shared transcriptomic signature. Shared enough to predict time to death. They pooled 11,000 transcriptomes from over 25 tissues across those four species. Genes tied to senescence, inflammation and apoptosis went up with age in all of them. Two hits, CDKN1A and LGALS3, also tracked mortality and multimorbidity at the protein level in UK Biobank. The resulting clocks predicted time to death in people about as well as second-generation epigenetic clocks, and in rodents they picked up known lifespan-extending interventions. What I find most interesting is the module clocks. You get separate readouts for separate parts of the transcriptome. Chronic disease mostly aged the inflammatory module. Caloric restriction and Klotho deficiency acted on mitochondrial and metabolic modules. A single "biological age" number can't tell you which part of aging an intervention touched. I think this matters most for animal research. If the molecular readout is conserved, a mouse study and a human trial can report aging on the same scale. That's the translation bridge we've mostly been missing. It would be very cool to link this with the automated Intrinsic Capacity panel we're building with ARPA.
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Syed Nabeel-Shah retweeted
Squeezing a fibroblast nucleus for a moment opens chromatin at mappable loci. Yang Song and Song Li at UCLA aimed CRISPRa guides at exactly those spots. Fibroblast to neuron conversion went from under 3% to about 40%, with no virus. In aged mouse fibroblasts, the same mechanically enhanced Oct4 activation lowered DNA methylation age on the mouse skin clock, close to the level of cells from young animals. But global methylation also drops. so how much of this is rejuvenation rather than dilution is the open question. Title: Mechano-epigenetic enhancement of CRISPR activation of target genes fo… sciencedirect.com/science/ar…
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Syed Nabeel-Shah retweeted
Bribery of editors to facilitate publication in Cell Press journals? They better get to the bottom of this fast. Trust in science has enough problems without this. @RetractionWatch
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FDA approves pioneering antisense oligonucleotide drug for hepatitis B infection, offering the potential to achieve functional cure nature.com/articles/d41573-0…
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Syed Nabeel-Shah retweeted
🧬 Design proteins with natural language. Pinal is now online in Nature! Pinal democratizes computational protein design by turning functional intent into protein candidates. Open weights + code: github.com/westlake-repl/Den… Paper: nature.com/articles/s41586-0…
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Syed Nabeel-Shah retweeted
Online Now: Protein arginine methylation promotes global 3′UTR shortening in proliferating cells dlvr.​it/TW0p7v
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Our new work out in Nucleic Acids Research! 🎉 We show that interacting C2H2 zinc-finger proteins co-occupy chromatin loop anchors, linking their extensive networks to 3D genome organization. Congrats to my co-first authors Ernest & Edyta and the team! academic.oup.com/nar/article…
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Syed Nabeel-Shah retweeted
Researchers have developed a detector that aims to tell the difference between ideas made by humans and those conjured by artificial intelligence go.nature.com/4evHZpg
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Syed Nabeel-Shah retweeted
The research community is in uproar after OpenAI released a trove of more than 700 mathematical preprints entirely generated by AI go.nature.com/4e0dVls
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Syed Nabeel-Shah retweeted
As AI agents’ ability to do science autonomously continues to improve, scientists are facing a once-unthinkable question: will I get scooped by a bot? go.nature.com/4B4lh1p
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Our latest work out in Cell Reports! 🎉 A project I helped conceive and supervise, led experimentally by Gio Burke, showing how the RNA-binding zinc-finger protein ZNF121 modulates YTHDF2 occupancy and mRNA stability. Congrats to the whole team! cell.com/cell-reports/fullte…
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Syed Nabeel-Shah retweeted
A dual-module ECAS complex couples transcription elongation and RNA processing dlvr.​it/TVlFgL
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The cellular landscape of druggable RNA-binding proteins nature.com/articles/s41573-0… rdcu.be/Xdw8gA2w82Ea This new Perspective by @TzelepisLab et al. discusses opportunities to therapeutically target RNA-binding proteins, which are involved in the development of multiple diseases
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Syed Nabeel-Shah retweeted
The devil wears PRADA and now so can cells! Our latest technology-PRADA (Peroxidase Reaction Activated by D-amino Acids) enables in vivo proximity proteomics, transcriptomics, RNA structuromics, and polymer assembly in diverse model organisms. nature.com/articles/s41589-0…
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