Mutual information in time-varying biochemical systems

TL;DR

This paper uses information theory to analyze how biochemical networks transmit time-varying signals amidst noise, revealing that network response depends on reaction timing and detector type, with implications for signal fidelity across cascades.

Contribution

It introduces a mutual information framework for biochemical signaling, distinguishing between instantaneous and trajectory-based signal transmission, and explores how detector mechanisms affect signal fidelity across different time-scales.

Findings

Trajectory-based transmission depends on reaction timing, not output correlation time.

Slow signals are better transmitted by non-absorbing detectors, rapid signals by absorbing detectors.

Signal transmission efficiency can be reversed in cascades, affecting optimization strategies.

Abstract

Cells must continuously sense and respond to time-varying environmental stimuli. These signals are transmitted and processed by biochemical signalling networks. However, the biochemical reactions making up these networks are intrinsically noisy, which limits the reliability of intracellular signalling. Here we use information theory to characterise the reliability of transmission of time-varying signals through elementary biochemical reactions in the presence of noise. We calculate the mutual information for both instantaneous measurements and trajectories of biochemical systems for a Gaussian model. Our results indicate that the same network can have radically different characteristics for the transmission of instantaneous signals and trajectories. For trajectories, the ability of a network to respond to changes in the input signal is determined by the timing of reaction events, and is independent of the correlation time of the output of the network. We also study how reliably signals on different time-scales can be transmitted by considering the frequency-dependent coherence and gain-to-noise ratio. We find that a detector that does not consume the ligand molecule upon detection can more reliably transmit slowly varying signals, while an absorbing detector can more reliably transmit rapidly varying signals. Furthermore, we find that while one reaction may more reliably transmit information than another when considered in isolation, when placed within a signalling cascade the relative performance of the two reactions can be reversed. This means that optimising signal transmission at a single level of a signalling cascade can reduce signalling performance for the cascade as a whole.