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Fondi, Marco [Editor]

Metabolic network reconstruction and modeling : methods and protocols

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New York, NY: Humana Press, [2018]

Published in: Methods in molecular biology ; 1716
Fondi, Marco [Author]

Bioinformatics of genome evolution: from ancestral to modern metabolism : Phylogenomics and comparative genomics to understand microbial evolution

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https://directory.doabooks.org/handle/20.500.12854/83735

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Firenze: Firenze University Press, 2011

Published in: Premio Tesi di Dottorato
Fondi, Marco; Liò, Pietro

Multi -omics and metabolic modelling pipelines: Challenges and tools for systems microbiology

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Elsevier BV, 2015

Published in: Microbiological Research
Fondi, Marco; Fani, Renato

The horizontal flow of the plasmid resistome: clues from inter‐generic similarity networks

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Wiley, 2010

Published in: Environmental Microbiology
Alonso-Vásquez, Tania; Fondi, Marco; Perrin, Elena

Understanding Antimicrobial Resistance Using Genome-Scale Metabolic Modeling

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MDPI AG, 2023

Published in: Antibiotics
Bosi, Emanuele; Fani, Renato; Fondi, Marco

The mosaicism of plasmids revealed by atypical genes detection and analysis

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Springer Science and Business Media LLC, 2011

Published in: BMC Genomics
Fondi, Marco; Brilli, Matteo; Fani, Renato

On the origin and evolution of biosynthetic pathways: integrating microarray data with structure and organization of the Common Pathway genes

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Springer Science and Business Media LLC, 2007

Published in: BMC Bioinformatics
Riccardi, Christopher; Innocenti, Gabriel; Fondi, Marco; Bacci, Giovanni

Fast, Ungapped Reads Mapping Using Squid

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MDPI AG, 2022

Published in: International Journal of Environmental Research and Public Health
Daly, Giulia; Perrin, Elena; Viti, Carlo; Fondi, Marco; Adessi, Alessandra

Scaling down the microbial loop: data‐driven modelling of growth interactions in a diatom–bacterium co‐culture

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Wiley, 2021

Published in: Environmental Microbiology Reports
Eleonora Panella; Carla Giovannone; Marco Bartolini; Veronica Fondi

Biotechnology in the Conservation Field: Removal of Sulphates Using Bacteria and Bioconsolidation of Paintings and Stuccos

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2019

Published in: Conservation Science in Cultural Heritage
diCenzo, George C.; Mengoni, Alessio; Fondi, Marco

Tn-Core: A Toolbox for Integrating Tn-seq Gene Essentiality Data and Constraint-Based Metabolic Modeling

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American Chemical Society (ACS), 2019

Published in: ACS Synthetic Biology
Bosi, Emanuele; Bacci, Giovanni; Mengoni, Alessio; Fondi, Marco

Perspectives and Challenges in Microbial Communities Metabolic Modeling

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Frontiers Media SA, 2017

Published in: Frontiers in Genetics
Fondi, Marco; Bosi, Emanuele; Presta, Luana; Natoli, Diletta; Fani, Renato

Modelling microbial metabolic rewiring during growth in a complex medium

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Springer Science and Business Media LLC, 2016

Published in: BMC Genomics
Fondi, Marco; Emiliani, Giovanni; Liò, Pietro; Gribaldo, Simonetta; Fani, Renato

The Evolution of Histidine Biosynthesis in Archaea: Insights into the his Genes Structure and Organization in LUCA

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Springer Science and Business Media LLC, 2009

Published in: Journal of Molecular Evolution
Emiliani, Giovanni; Fondi, Marco; Fani, Renato; Gribaldo, Simonetta

A horizontal gene transfer at the origin of phenylpropanoid metabolism: a key adaptation of plants to land

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Springer Science and Business Media LLC, 2009

Published in: Biology Direct
Fondi, Marco; Brilli, Matteo; Emiliani, Giovanni; Paffetti, Donatella; Fani, Renato

The primordial metabolism: an ancestral interconnection between leucine, arginine, and lysine biosynthesis

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Springer Science and Business Media LLC, 2007

Published in: BMC Evolutionary Biology
Fani, Renato; Brilli, Matteo; Fondi, Marco; Lió, Pietro

The role of gene fusions in the evolution of metabolic pathways: the histidine biosynthesis case

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Springer Science and Business Media LLC, 2007

Published in: BMC Evolutionary Biology
Di Salvo, Marco; Pinatel, Eva; Talà, Adelfia; Fondi, Marco; Peano, Clelia; Alifano, Pietro

G4PromFinder: an algorithm for predicting transcription promoters in GC-rich bacterial genomes based on AT-rich elements and G-quadruplex motifs

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Springer Science and Business Media LLC, 2018

Published in: BMC Bioinformatics
Brilli, Matteo; Fondi, Marco; Fani, Renato; Mengoni, Alessio; Ferri, Lorenzo; Bazzicalupo, Marco; Biondi, Emanuele G

The diversity and evolution of cell cycle regulation in alpha-proteobacteria: a comparative genomic analysis

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Springer Science and Business Media LLC, 2010

Published in: BMC Systems Biology
Brilli, Matteo; Mengoni, Alessio; Fondi, Marco; Bazzicalupo, Marco; Liò, Pietro; Fani, Renato

Analysis of plasmid genes by phylogenetic profiling and visualization of homology relationships using Blast2Network

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Springer Science and Business Media LLC, 2008

Published in: BMC Bioinformatics

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