Related papers: Assessing Biosimilarity using Functional Metrics

The biomolecules in and around a living cell -- proteins, nucleic acids, lipids, carbohydrates -- continuously sample myriad conformational states that are thermally accessible at physiological temperatures. Simultaneously, a given…

In this paper we survey recent work on the use of statistical model checking techniques for biological applications. We begin with an overview of the basic modelling techniques for biochemical reactions and their corresponding stochastic…

Biometrics is the science and technology of measuring and analyzing biological data of human body, extracting a feature set from the acquired data, and comparing this set against to the template set in the database. Experimental studies…

Biological cells, by definition, are the basic units which contain the fundamental molecules of life of which all living things are composed. Understanding how they function and differentiating cells from one another therefore is of…

Much of our mechanistic understanding of the functions of biological macromolecules is based on static structural experiments, which can be modelled either as single structures or conformational ensembles. While these provide us with…

Bisimulation metrics provide a robust and accurate approach to study the behavior of nondeterministic probabilistic processes. In this paper, we propose a logical characterization of bisimulation metrics based on a simple probabilistic…

Throughout the evolution of biological species on Earth, cells and organs have developed many complex structures and processes to ensure their interactions with individual chemical molecules (small and macromolecular) and nanoscale objects…

The delimitation of biological species, i.e., deciding which individuals belong to the same species and whether and how many different species are represented in a data set, is key to the conservation of biodiversity. Much existing work…

The previous decade has brought a remarkable increase of the interest in applications that deal with querying and mining of time series data. Many of the research efforts in this context have focused on introducing new representation…

Approximate functional dependencies (AFDs) are functional dependencies (FDs) that "almost" hold in a relation. While various measures have been proposed to quantify the level to which an FD holds approximately, they are difficult to compare…

Similarity search is an important problem in information retrieval. This similarity is based on a distance. Symbolic representation of time series has attracted many researchers recently, since it reduces the dimensionality of these high…

We introduce a rigorous, physically appealing, and practical way to measure distances between exchange-only correlations of interacting many-electron systems, which works regardless of their size and inhomogeneity. We show that this…

We present MedSim, a novel semantic SIMilarity method based on public well-established bio-MEDical knowledge graphs (KGs) and large-scale corpus, to study the therapeutic substitution of antibiotics. Besides hierarchy and corpus of KGs,…

Using bioimaging technology, biologists have attempted to identify and document analytical interpretations that underlie biological phenomena in biological cells. Theoretical biology aims at distilling those interpretations into knowledge…

Biomedical research encompasses diverse types of activities, from basic science ("bench") to clinical medicine ("bedside") to bench-to-bedside translational research. It, however, remains unclear whether different types of research receive…

Differential logical relations are a method to measure distances between higher-order programs. They differ from standard methods based on program metrics in that differences between functional programs are themselves functions, relating…

There is a growing trend in molecular and synthetic biology of using mechanistic (non machine learning) models to design biomolecular networks. Once designed, these networks need to be validated by experimental results to ensure the…

The physiological tradition of biological research analyzes biological systems using reduced descriptions much as an engineer uses a 'black box' description of an amplifier. Simple models have been used by physiologists for a very long…

Motility is an essential factor for an organism's survival and diversification. With the advent of novel single-cell technologies, analytical frameworks and theoretical methods, we can begin to probe the complex lives of microscopic motile…

Categorical variables are of uttermost importance in biomedical research. When two of them are considered, it is often the case that one wants to test whether or not they are statistically dependent. We show weaknesses of classical methods…