Related papers: A (possible) mathematical model to describe biolog…
Software development is a complex activity which depends on diverse technologies and people's expertise. The approaches to developing software highly depend on these different characteristics, which are the context developers are subject…
Focusing on the task of identifying event temporal status, we find that events directly or indirectly governing the target event in a dependency tree are most important contexts. Therefore, we extract dependency chains containing context…
Estimating dependence relationships between variables is a crucial issue in many applied domains, such as medicine, social sciences and psychology. When several variables are entertained, these can be organized into a network which encodes…
Nowadays computing becomes increasingly mobile and pervasive. One of the important steps in pervasive computing is context-awareness. Context-aware pervasive systems rely on information about the context and user preferences to adapt their…
The infrastructure upon which the functioning of society depends is composed of complex ecosystems of systems. Consequently, we must reason about the properties of such ecosystems, which requires that we construct models of them. There are…
The climate system is a forced, dissipative, nonlinear, complex and heterogeneous system that is out of thermodynamic equilibrium. The system exhibits natural variability on many scales of motion, in time as well as space, and it is subject…
Knowing the location of a protein within the cell is important for understanding its function, role in biological processes, and potential use as a drug target. Much progress has been made in developing computational methods that predict…
Language models have emerged as powerful predictors of the viability of biological sequences. During training these models learn the rules of the grammar obeyed by sequences of amino acids or nucleotides. Once trained, these models can take…
Event structures where the causality may explicitly change during a computation have recently gained the stage. In this kind of event structures the changes in the set of the causes of an event are triggered by modifiers that may add or…
Most traditional models of uncertainty have focused on the associational relationship among variables as captured by conditional dependence. In order to successfully manage intelligent systems for decision making, however, we must be able…
The far-reaching consequences of ecological interactions in the dynamics of biological communities remain an intriguing subject. For decades, competition has been a cornerstone in ecological processes, but mounting evidence shows that…
We discuss the relevance of studying ecology within the framework of Complexity Science from a statistical mechanics approach. Ecology is concerned with understanding how systems level properties emerge out of the multitude of interactions…
Reliability of a system is considered where the components' random lifetimes may be dependent. The structure of the system is described by an associated "lattice polynomial" function. Based on that descriptor, general framework formulas are…
We describe a mathematical language for determining all possible patterns of contextuality in the dependence of stochastic outputs of a system on its deterministic inputs. The central notion is that of all possible couplings for…
Living species, ranging from bacteria to animals, exist in environmental conditions that exhibit spatial and temporal heterogeneity which requires them to adapt. Risk-spreading through spontaneous phenotypic variations is a known concept in…
A cell's behavior is a consequence of the complex interactions between its numerous constituents, such as DNA, RNA, proteins and small molecules. Cells use signaling pathways and regulatory mechanisms to coordinate multiple processes,…
We present a bigraphical framework suited for modeling biological systems both at protein level and at membrane level. We characterize formally bigraphs corresponding to biologically meaningful systems, and bigraphic rewriting rules…
In this paper, I present a summary on some works that utilized static analysis techniques for understanding biological systems. Control flow analysis, context dependent analysis, and other techniques were employed to investigate the…
Human beings possess the most sophisticated computational machinery in the known universe. We can understand language of rich descriptive power, and communicate in the same environment with astonishing clarity. Two of the many contributors…
Multiscale phenomena exhibit complex structure-function relationships, and predicting their macroscopic behavior requires deducing differential equations at different scales. The complexity of these equations and the number of essential…