Editorial: Network Bioscience

Por Antoniotti, Marco, Mishra, Bud, Pellegrini, Marco
Publicado no Front Genet (2019)

Automatising the analysis of stochastic biochemical time-series

Por Caravagna, Giulio, De Sano, Luca, Antoniotti, Marco
Publicado no BMC Bioinformatics (2015)

Modeling Cumulative Biological Phenomena with Suppes-Bayes Causal Networks

Por Ramazzotti, Daniele, Graudenzi, Alex, Caravagna, Giulio, Antoniotti, Marco
Publicado no Evol Bioinform Online (2018)

Investigating the Relation between Stochastic Differentiation, Homeostasis and Clonal Expansion in Intestinal Crypts via Multiscale Modeling

Por Graudenzi, Alex, Caravagna, Giulio, De Matteis, Giovanni, Antoniotti, Marco
Publicado em 2014

A coherent framework for multiresolution analysis of biological networks with “memory”: Ras pathway, cell cycle, and immune system

Por Barbano, Paolo Emilio, Spivak, Marina, Feng, Jiawu, Antoniotti, Marco, Mishra, Bud
Publicado em 2005

Mathematical modeling of the formation of apoptosome in intrinsic pathway of apoptosis

Por Ryu, Seongho, Lin, Shih-chieh, Ugel, Nadia, Antoniotti, Marco, Mishra, Bud
Publicado em 2009

Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data

Por Ramazzotti, Daniele, Graudenzi, Alex, De Sano, Luca, Antoniotti, Marco, Caravagna, Giulio
Publicado no BMC Bioinformatics (2019)

Combined analysis of chromosomal instabilities and gene expression for colon cancer progression inference

Por Cava, Claudia, Zoppis, Italo, Gariboldi, Manuela, Castiglioni, Isabella, Mauri, Giancarlo, Antoniotti, Marco
Publicado em 2014

CABeRNET: a Cytoscape app for augmented Boolean models of gene regulatory NETworks

Por Paroni, Andrea, Graudenzi, Alex, Caravagna, Giulio, Damiani, Chiara, Mauri, Giancarlo, Antoniotti, Marco
Publicado no BMC Bioinformatics (2016)

Reverse engineering dynamic temporal models of biological processes and their relationships

Por Ramakrishnan, Naren, Tadepalli, Satish, Watson, Layne T., Helm, Richard F., Antoniotti, Marco, Mishra, Bud
Publicado em 2010

GeStoDifferent: a Cytoscape plugin for the generation and the identification of gene regulatory networks describing a stochastic cell differentiation process

Por Antoniotti, Marco, Bader, Gary D., Caravagna, Giulio, Crippa, Silvia, Graudenzi, Alex, Mauri, Giancarlo
Publicado em 2013

Inferring Tree Causal Models of Cancer Progression with Probability Raising

Por Loohuis, Loes Olde, Caravagna, Giulio, Graudenzi, Alex, Ramazzotti, Daniele, Mauri, Giancarlo, Antoniotti, Marco, Mishra, Bud
Publicado em 2014

CoGNaC: A Chaste Plugin for the Multiscale Simulation of Gene Regulatory Networks Driving the Spatial Dynamics of Tissues and Cancer

Por Rubinacci, Simone, Graudenzi, Alex, Caravagna, Giulio, Mauri, Giancarlo, Osborne, James, Pitt-Francis, Joe, Antoniotti, Marco
Publicado no Cancer Inform (2015)

TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data

Por De Sano, Luca, Caravagna, Giulio, Ramazzotti, Daniele, Graudenzi, Alex, Mauri, Giancarlo, Mishra, Bud, Antoniotti, Marco
Publicado no Bioinformatics (2016)

VERSO: A comprehensive framework for the inference of robust phylogenies and the quantification of intra-host genomic diversity of viral samples

Por Ramazzotti, Daniele, Angaroni, Fabrizio, Maspero, Davide, Gambacorti-Passerini, Carlo, Antoniotti, Marco, Graudenzi, Alex, Piazza, Rocco
Publicado no Patterns (N Y) (2021)

An Optimal Control Framework for the Automated Design of Personalized Cancer Treatments

Por Angaroni, Fabrizio, Graudenzi, Alex, Rossignolo, Marco, Maspero, Davide, Calarco, Tommaso, Piazza, Rocco, Montangero, Simone, Antoniotti, Marco
Publicado no Front Bioeng Biotechnol (2020)

Algorithmic methods to infer the evolutionary trajectories in cancer progression

Por Caravagna, Giulio, Graudenzi, Alex, Ramazzotti, Daniele, Sanz-Pamplona, Rebeca, De Sano, Luca, Mauri, Giancarlo, Moreno, Victor, Antoniotti, Marco, Mishra, Bud
Publicado no Proc Natl Acad Sci U S A (2016)

MaREA4Galaxy: Metabolic reaction enrichment analysis and visualization of RNA-seq data within Galaxy

Por Damiani, Chiara, Rovida, Lorenzo, Maspero, Davide, Sala, Irene, Rosato, Luca, Di Filippo, Marzia, Pescini, Dario, Graudenzi, Alex, Antoniotti, Marco, Mauri, Giancarlo
Publicado no Comput Struct Biotechnol J (2020)

From Bytes to Bedside: Data Integration and Computational Biology for Translational Cancer Research

Por Mathew, Jomol P, Taylor, Barry S, Bader, Gary D, Pyarajan, Saiju, Antoniotti, Marco, Chinnaiyan, Arul M, Sander, Chris, Burakoff, Steven J, Mishra, Bud
Publicado em 2007

Network Bioscience

Publicado em 2020