Socially and biologically inspired computing for self-organizing communications networks

The design and development of future communications networks call for a careful examination of biological and social systems. New technological developments like self-driving cars, wireless sensor networks, drones swarm, Internet of Things, Big Data, and Blockchain are promoting an integration process that will bring together all those technologies in a large-scale heterogeneous network. Most of the challenges related to these new developments cannot be faced using traditional approaches, and require to explore novel paradigms for building computational mechanisms that allow us to deal with the emergent complexity of these new applications. In this article, we show that it is possible to use biologically and socially inspired computing for designing and implementing self-organizing communication systems. We argue that an abstract analysis of biological and social phenomena can be made to develop computational models that provide a suitable conceptual framework for building new networking technologies: biologically inspired computing for achieving efficient and scalable networking under uncertain environments; socially inspired computing for increasing the capacity of a system for solving problems through collective actions. We aim to enhance the state-of-the-art of these approaches and encourage other researchers to use these models in their future work

GPU-powered Simulation Methodologies for Biological Systems

The study of biological systems witnessed a pervasive cross-fertilization between experimental investigation and computational methods. This gave rise to the development of new methodologies, able to tackle the complexity of biological systems in a quantitative manner. Computer algorithms allow to faithfully reproduce the dynamics of the corresponding biological system, and, at the price of a large number of simulations, it is possible to extensively investigate the system functioning across a wide spectrum of natural conditions. To enable multiple analysis in parallel, using cheap, diffused and highly efficient multi-core devices we developed GPU-powered simulation algorithms for stochastic, deterministic and hybrid modeling approaches, so that also users with no knowledge of GPUs hardware and programming can easily access the computing power of graphics engines.Comment: In Proceedings Wivace 2013, arXiv:1309.712

HEPchain: Novel Proof-of-Useful-Work blockchain consensus for High Energy Physics

Monte Carlo simulations play a crucial role in all stages of particle collider experiments. There has been a long-term trend in HEP of both increasing collision energies and the luminosity. As a result, the requirements for MC simulations have become more rigorous: Their computational complexity has increased due to higher accuracy requirements. Additionally, more simulation data is required to allow data analysts to spot Standard Model deviations in observations of real data and enable the filtering of rare events. In order to keep up with the computational complexity of simulations and analysis of real data, distributed computing approaches are commonly employed. For instance, CERN relies on the Worldwide LHC Computing Grid (WLCG) in order to be able to store, process, distribute and analyze collision data. Since not every HEP experiment has access to these resources and the addition of new Grid servers is a complex process, this publication explores a novel distributed computing approach for HEP which is based on blockchain technology. It features the description of a novel Proof-of-Useful-Work consensus algorithm which aims to both support real-world HEP experiments with the production of required MC data and to secure the underlying blockchain infrastructure at the same time. Instead of being an alternative to WLCG or BOINC projects that rely on volunteer computing, it aims to be a complementary source of additional computing power. This publication also features a brief introduction into blockchain fundamentals and comparisons to existing distributed computing approaches.Comment: This is a Draft version that might be subjected to changes in the futur

Quantum computing algorithms: getting closer to critical problems in computational biology

The recent biotechnological progress has allowed life scientists and physicians to access an unprecedented, massive amount of data at all levels (molecular, supramolecular, cellular and so on) of biological complexity. So far, mostly classical computational efforts have been dedicated to the simulation, prediction or de novo design of biomolecules, in order to improve the understanding of their function or to develop novel therapeutics. At a higher level of complexity, the progress of omics disciplines (genomics, transcriptomics, proteomics and metabolomics) has prompted researchers to develop informatics means to describe and annotate new biomolecules identified with a resolution down to the single cell, but also with a high-throughput speed. Machine learning approaches have been implemented to both the modelling studies and the handling of biomedical data. Quantum computing (QC) approaches hold the promise to resolve, speed up or refine the analysis of a wide range of these computational problems. Here, we review and comment on recently developed QC algorithms for biocomputing, with a particular focus on multi-scale modelling and genomic analyses. Indeed, differently from other computational approaches such as protein structure prediction, these problems have been shown to be adequately mapped onto quantum architectures, the main limit for their immediate use being the number of qubits and decoherence effects in the available quantum machines. Possible advantages over the classical counterparts are highlighted, along with a description of some hybrid classical/quantum approaches, which could be the closest to be realistically applied in biocomputation

Natural Computational Architectures for Cognitive Info-Communication

Recent comprehensive overview of 40 years of research in cognitive architectures, (Kotseruba and Tsotsos 2020), evaluates modelling of the core cognitive abilities in humans, but only marginally addresses biologically plausible approaches based on natural computation. This mini review presentsa set of perspectives and approaches which have shaped the development of biologically inspired computational models in the recent past that can lead to the development of biologically more realistic cognitive architectures. For describing continuum of natural cognitive architectures, from basal cellular to human-level cognition, we use evolutionary info-computational framework, where natural/ physical/ morphological computation leads to evolution of increasingly complex cognitive systems. Forty years ago, when the first cognitive architectures have been proposed, understanding of cognition, embodiment and evolution was different. So was the state of the art of information physics, bioinformatics, information chemistry, computational neuroscience, complexity theory, selforganization, theory of evolution, information and computation. Novel developments support a constructive interdisciplinary framework for cognitive architectures in the context of computing nature, where interactions between constituents at different levels of organization lead to complexification of agency and increased cognitive capacities. We identify several important research questions for further investigation that can increase understanding of cognition in nature and inspire new developments of cognitive technologies. Recently, basal cell cognition attracted a lot of interest for its possible applications in medicine, new computing technologies, as well as micro- and nanorobotics. Bio-cognition of cells connected into tissues/organs, and organisms with the group (social) levels of information processing provides insights into cognition mechanisms that can support the development of new AI platforms and cognitive robotics