Jakub Tomek
jakubtomek.bsky.social
Jakub Tomek
@jakubtomek.bsky.social
Computational and experimental cardiology. Tea lover. Uilleann Piper. Sir Henry Wellcome Fellow at Oxford and UC Davis. Blog https://underlid.blogspot.com
Thanks so much to everyone involved, including Xin Zhou, Hector Martinez-Navarro, Maxx Holmes, Lucas Arantes Berg, Tom Bury, Marketa Tomkova, Emily Jo, Norbert Nagy, Ambre Bertrand, Alfonso Bueno-Orovio, @physicsoftheheart.bsky.social, Don Bers, Blanca Rodriguez, and Jordi Heijman!
March 30, 2025 at 10:19 PM
Finally, if you want to study how a signalling pathway, a drug, or a nonstandard channel affect physiology, model generality is key for obtaining a complete picture of the effects and benefits/risks.
Happy to answer any questions/discuss suitability for your projects!
March 30, 2025 at 10:15 PM
Second, real-world arrhythmia arises from interactions of arrhythmia triggers (including afterdepolarisations) and substrate (alternans, steep S1-S2 restitution). To reconstruct different origins of arrhythmia, we need a single model capable of all of those. 8/X
March 30, 2025 at 10:15 PM
First, it is about general credibility. Models are, like real cells, full of interconnections and feedback loops. This means if a model has a mechanistic problem in one component, this can propagate into other areas of use and cause incorrect predictions. 7/X
March 30, 2025 at 10:14 PM
T-World will be made freely available as open-source code (Matlab, CellML, C, CUDA) and online graphical user interface to facilitate use by non-coders.

As a final note, why does generality of a model matter so much?
6/X
March 30, 2025 at 10:14 PM
How did we achieve this? The name of the model reflects contribution of labs from the whole world over last decades. We integrate ideas from the most influential families of cardiac models (Rudy and Bers/Grandi) and numerous new ideas and improvements. 5/X
March 30, 2025 at 10:14 PM
T-World demonstrates strong performance in predicting drug-induced arrhythmia risk and opens new opportunities for predicting and explaining drug efficacy, demonstrated by unpicking effects of mexiletine in Long QT syndrome 2. 4/X
March 30, 2025 at 10:13 PM
Using T-World we revealed a likely sex-specific arrhythmia risk in females related to restitution properties, identified arrhythmia drivers in type 2 diabetes, and describe unexpectedly direct possible pro-arrhythmic role of NaV1.8 in heart failure. 3/X
March 30, 2025 at 10:13 PM
T-World recapitulates all key cellular drivers of arrhythmia: early and delayed afterdepolarisations, alternans, and steep S1-S2 restitution. We can now study their interactions in tissue, or carry out multifactorial assessment of drugs (including contractility). 2/X
March 30, 2025 at 10:13 PM
Phew, this was close, just checked and this was the one before...
February 16, 2025 at 10:09 PM
OK!
(using this as a last slide in talks, with "THE END" added; sadly, fewer and fewer people get the reference)
February 16, 2025 at 10:03 PM
Yes, it's often called epsilon in calculus and is quite a key concept!
November 29, 2024 at 7:50 AM
I'd love that. Both computationally and experimentally, it would be great. I think the need for independence and niche at all costs preventing this is a bit silly and is not good for people, nor science.
November 23, 2024 at 7:11 AM
Ten traktor je navíc vynikající v tom, že ten komín s trochou fantazie vypadá jako lahev vína. Pro KDU ideál.
November 22, 2024 at 10:14 PM
During my Oxford PhD, I was ok living on stipend that was much lower than what UK students labelled as "basically unlivable". It's a lot about expectations, what's considered a "basic standard", and what one finds rewarding in life. 4/4
November 17, 2024 at 5:48 PM
I think the importance of money is in part cultural. First, earning lots of money is more important to Americans than people from most other places. Second, US people have a higher threshold for what is "a lot of money". For me, 70k as postdoc is huge. 55 was ok (in Davis). 3/4
November 17, 2024 at 5:48 PM
It really struck me at Davis, when I heard PhD students and younger speaking, how they already at that phase knew they'd go into industry, do a startup, etc. It seems that they're now well-aware of the career uncertainty, eternal struggles, and limited salaries.
2/4
November 17, 2024 at 5:47 PM