Publications

We target specialized journals dedicated to the development of computational tools, and broader audience journals where state-of-the art technologies are applied to the investigation and elucidation of biological processes in key and emerging research areas.

The value of our research

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Our books

Analysis Of Biological Systems

Analysis of Biological Systems collects classical material on analysis, modeling and simulation, thereby acting as a unique point of reference. The joint application of statistical techniques to extract knowledge from big data and map it into mechanistic models is a current challenge of the field, and the reader will learn how to build and use models even if they have no computing or math background. An in-depth analysis of the currently available technologies, and a comparison between them, is also included. Unlike other reference books, this in-depth analysis is extended even to the field of language-based modeling. The overall result is an indispensable, self-contained and systematic approach to a rapidly expanding field of science.

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2015

Simulation Algorithms for Computational Systems Biology

This book explains the state-of-the-art algorithms used to simulate biological dynamics. Each technique is theoretically introduced and applied to a set of modeling cases. Starting from basic simulation algorithms, the book also introduces more advanced techniques that support delays, diffusion in space, or that are based on hybrid simulation strategies. This is a valuable self-contained resource for graduate students and practitioners in computer science, biology and bioinformatics. An appendix covers the mathematical background, and the authors include further reading sections in each chapter.

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2018

2021

Logical Modeling

In Silico Logical Modelling to Uncover Cooperative Interactions in Cancer

2021

Multi-Omics

MOUSSE:Multi-Omics Using Subject-Specific SignaturEs

2021

Cytokine Signaling in Lysosomal Storage Diseases

Reconstruction of the Cytokine Signaling in Lysosomal Storage Diseases by Literature Mining and Network Analysis

2021

QSPcc

QSPcc reduces bottlenecks in computational model simulations.

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2021

mRNA Vaccine Platforms

Literature Mining and Mechanistic Graphical Modelling to Improve mRNA Vaccine Platforms

2021

mRNA vaccine development and optimization

A quantitative systems pharmacology approach to support mRNA vaccine development and optimization

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