Related papers: An Interoperable Syntax for Gas Scattering Reactio…
In this paper, we propose a novel concept for engineered molecular communication (MC) systems inspired by animal olfaction. We focus on a multi-user scenario where several transmitters wish to communicate with a central receiver. We assume…
Algorithms like those for differentiating functional expressions manipulate the syntactic structure of mathematical expressions in a mathematically meaningful way. A formalization of such an algorithm should include a specification of its…
We propose and experimentally validate the use of rotational echo responses for obtaining the degree of molecular alignment induced in a gas. The method is independent of various parameters that are hardly accessible in most experimental…
Computing devices have recently become capable of interacting with their end users via natural language. However, they can only operate within a limited "supported" domain of discourse and fail drastically when faced with an out-of-domain…
Chemical reactions are a prominent feature of molecular communication (MC) systems, with no direct parallels in wireless communications. While chemical reactions may be used inside the transmitter nodes, receiver nodes or the communication…
Chemputation reframes synthesis as the programmable execution of reaction code on a universally re-configurable hardware graph. Here we prove that a chemputer equipped with a finite, but extensible, set of reagents, catalysts and process…
State-of-the-art models represent proteins and molecules in separate embedding manifolds, limiting the modeling of systemic biological processes. We introduce ReactEmbed, a lightweight, plug-and-play module that bridges this gap. ReactEmbed…
We present a formalism for the scattering of an arbitrary linear or acyclic branched structure build by joining mutually non-interacting arbitrary functional sub-units. The formalism consists of three equations expressing the structural…
We introduce skipping refinement, a new notion of correctness for reasoning about optimized reactive systems. Reasoning about reactive systems using refinement involves defining an abstract, high-level specification system and a concrete,…
We present a systematic mathematical analysis of the qualitative steady-state response to rate perturbations in large classes of reaction networks. This includes multimolecular reactions and allows for catalysis, enzymatic reactions,…
We present a paradigm for extensible lexicon development based on Lexical Conceptual Structure to support social engineering detection and response generation. We leverage the central notions of ask (elicitation of behaviors such as…
Those seeking to reproduce a computational experiment often need to manually look at the code to see how to build necessary libraries, configure parameters, find data, and invoke the experiment; it is not automatic. Automatic…
Quantum chemical studies of reactivity involve calculations on a large number of molecular structures and comparison of their energies. Already the set-up of these calculations limits the scope of the results that one will obtain, because…
Activation patching is a popular mechanistic interpretability technique, but has many subtleties regarding how it is applied and how one may interpret the results. We provide a summary of advice and best practices, based on our experience…
Generalized expressions for second harmonic scattering from isotropically distributed liquid molecules are derived for arbitrary scattering angles and polarization states.
The straightforward calculations of the reaction and interaction cross sections of the nuclear scattering are carried out in Glauber approach using the generating function method. It allows for the resummation of all orders of Glauber…
A stochastic model for a chemical reaction network is embedded in a one-parameter family of models with species numbers and rate constants scaled by powers of the parameter. A systematic approach is developed for determining appropriate…
Motivation: Cell-biological processes are regulated through a complex network of interactions between genes and their products. The processes, their activating conditions, and the associated transcriptional responses are often unknown.…
We use the formalism of Geometrothermodynamics to describe chemical reactions in the context of equilibrium thermodynamics. Any chemical reaction in a closed system is shown to be described by a geodesic in a $2-$dimensional manifold that…
The complexity of molecular and cellular processes forces experimental studies to focus on subsystems. To study the functioning of biological systems across levels of structural and functional organisation, we require tools to compose and…