Searcharxiv⌕ Search
Home/Archive/arXiv

arXiv · 1406.7468

Gauge field, strings, solitons, anomalies and the speed of life

Antti J. Niemi
View original source ↗Read source document ↗Export metadata ↓

Abstract

It's been said that "mathematics is biology's next microscope, only better; biology is mathematics' next physics, only better". Here we aim for something even better. We try to combine mathematical physics and biology into a picoscope of life. For this we merge techniques which have been introduced and developed in modern mathematical physics, largely by Ludvig Faddeev to describe objects such as solitons and Higgs and to explain phenomena such as anomalies in gauge fields. We propose a synthesis that can help to resolve the protein folding problem, one of the most important conundrums in all of science. We apply the concept of gauge invariance to scrutinize the extrinsic geometry of strings in three dimensional space. We evoke general principles of symmetry in combination with Wilsonian universality and derive an essentially unique Landau-Ginzburg energy that describes the dynamics of a generic string-like configuration in the far infrared. We observe that the energy supports topological solitons, that pertain to an anomaly in the manner how a string is framed around its inflection points. We explain how the solitons operate as modular building blocks from which folded proteins are composed. We describe crystallographic protein structures by multi-solitons with experimental precision, and investigate the non-equilibrium dynamics of proteins under varying temperature. We simulate the folding process of a protein at in vivo speed and with close to pico-scale accuracy using a standard laptop computer: With pico-biology as mathematical physics' next pursuit, things can only get better.

Explore related subjects

math-phcond-mat.softhep-thmath.MPnlin.PSq-bio.BM

Keep this discovery

BibTeXRIS

Antti J. Niemi. 2014-06-29. Gauge field, strings, solitons, anomalies and the speed of life. https://doi.org/10.1007/s11232-014-0210-x

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related papers

arXiv2026

Why we should condition denoising diffusion generative models on windows of past observations

Data assimilation (DA) is, traditionally, a cycling process that relies on time-dependent priors to propagate information from past observations to future cycles. Using denoising diffusion generative modeling for DA is challenging because standard approaches use a fixed training data set, which in turn leads to a static prior that ignores information from past observations. Because past observations are ignored, DA systems with static priors lead to larger posterior errors than cycling DA systems. Incorporating time-dependent priors into generative models, however, requires expensive and frequent retraining. Motivated by linear systems theory - where the dependence of a prediction of a Kalman filter on past observations decays exponentially - we condition diffusion models on short windows of past observations. Specifically, we describe training procedures for two frameworks: a diffusion DA system predicting the current state given a set of past observations, and a diffusion ``direct observation prediction'' (DOP) system, predicting future observations given a set of past observations. Using a canonical linear system, we show that both systems can achieve the minimal posterior error characteristic of a fully-cycled DA/DOP system, without re-training, provided the time windows are long enough. The linear setup ensures analytical tractability, avoids confounding neural network training errors, and confirms that conditioning on windows of past observations is required for efficient and accurate diffusion-based DA or DOP.

math-ph↗
arXiv2026

The kinematic structures and the inertial geometry of a moving charge

We ask how much of the geometry a charged particle moves in is fixed by its motion, and how much a particle must bring. We ask of a symplectic structure only that it relate velocity to momentum as Hamilton's equations do, and we ask it of every energy at once. In particular, we show that the structures meeting that demand are the canonical one and its twists by a closed two-form of the base. A field provides the two-form, a particle the multiplier before it, which we identify constitutively with its charge. Thus, a single energy governs a family of structures, and each particle takes the one its charge fixes. We then ask what a particle must bring to be given a momentum, and we show that the degree of that map settles the degree at which a field enters Newton's Second Law. An antisymmetric bilinear form returns no Lorentz force, whilst a Randers metric returns one --- a length whose difference from a Riemannian one is linear in the velocity. Moreover, we find that metric already within the twisted structure, as its primitive over a level of the free energy, and its law of transport to be nonlinear, no affine connection being known to serve. Under an indefinite signature the length parts from the dynamics, and the extremals turn from shortest to longest. On the round sphere a monopole flux leaves no such metric, whilst the transport remains and prequantisation, given a unit of action, restricts the charge to a lattice. In this manner, we conclude that each charge-to-mass ratio receives a geometry of its own, so that by a functionalist criterion none of them is the spacetime of a charged particle.

math-ph↗