Julian's Polymath Explorations

NOTE:  this entry was inspired by talks I gave at the "Bio-IT World 2025" conference in Boston, and at the "Aging & Gerontology 2025" conference in San Francisco.   A VIDEO VERSION also exists    (slightly shorter and outdated to Apr. 2025)    Life123 is an open-source platform for quantitative interactomics, aiming towards simulations of virtual biological cells or parts thereof – among other things. And it has a slogan:  AI and Big Data aren't enough! We also need Dynamical modeling. What does it mean to say "engine for quantitative reactomics"?  It means that we perform dynamical modeling of biological systems. And the initial focus is towards eventually creating whole-cell simulations. The platform consists of python libraries, which allow us to do in-silico experiments. Early this year, this project left the beta stage, after a few years of development. Motivation There's a practical motiva...

(UPDATED 8/2022) - Are we ready to embark on a next-generation detailed quantitative modeling of complex biological systems , including whole-cell simulations?  An anticipated up-jump in computing power may be imminent from Photonics computers (which I discuss here ), and GPU's are rapidly gaining power as well...  Are we in ready state to put existing - and upcoming - power to good use? This is a manifest, and a call to action What's Life123? It's about detailed quantitative modeling of biological systems in 1-D, 2-D and full 3-D, as well as a multi-faceted software platform for doing so. What's (pseudo-)1D?  For now, let's say it's like the inside of a long, thin tube - with no interactions with the tube.  Likewise, (pseudo-)2D can be thought of as a Petri dish, with no interactions with the lid or the bottom. Website : https://life123.science A purposeful decision to also utilize 1D and 2D But why?  Yes, it's in part about "walk before you run...

Ending Age-Related Diseases 2021 The conference just ended on Aug. 22.  Here's one of the talks... Link to conference  (Notes and screenshots taken - and sometimes annotated - by me.) Science at SENS Research Foundation 2021 Talk by Alexandra Stolzing , Professor for Biogerontological Engineering, VP of Research at SENS Research Foundation ("Strategies for Engineered Negligible Senescence".) This overview talk immediately emphasizes that the aging process involves multiple broad fundamental categories of physiological change.  Those are related to what are often referred as "the Hallmarks of Aging" , as I detail in my intro post on Longevity Science .  In this talk, 7 of those categories are identified, and given convenient icons (rightmost column) that make it easier to refer to them: The SENS foundation has both intramural and extramural projects happening, and tries to have at least one project in each of the above broad categories.  (But currently no projec...