Daniele Santoni
Daniele Santoni Daniele Santoni
Researcher

Istituto di Analisi dei Sistemi ed Informatica "Antonio Ruberti"
Viale Manzoni, 30
00185 Roma - Italy

Office n. 45
Tel.: 067716423
Fax: 067716461
Personal web page: http://www.iasi.cnr.it/~dsantoni/
email

Research groups

Selected publications
  • Di Paola L, De Ruvo M, Paola Paci, Daniele Santoni, Giuliani A: Proteins Contact Networks: an emerging paradigm in chemistry, Chemical Reviews 113(3), 1598-1613, 2013
  • Daniele Santoni, Castiglione F, Paola Paci: Identifying Correlations between Chromosomal Proximity of Genes and Distance of their Products in Protein-Protein Interaction Networks of Yeast, Plos One, 8(3):e57707, 2013
  • Arrigo N, Paola Paci, Di Paola L, Daniele Santoni, De Ruvo M, Giuliani A, Castiglione F: Characterizing Protein Shape by a Volume Distribution Asymmetry Index, The Open Bioinformatics Journal 6(1), 20-27, 2012
  • De Cola M C, Giovanni Felici, Daniele Santoni, Emanuel Weitschek: Filtering with alignment free distances for high throughput DNA reads assembly, EMBnet.journal, Vol 18, http://journal.embnet.org/index.php/embnetjournal/article/view/538, 2012
  • De Ruvo M, Giuliani A, Paola Paci, Daniele Santoni, Di Paola L: Shedding light on protein-ligand binding by graph theory: the topological nature of allostery, Biophysical Chemistry 165-166, 21-29, 2012
  • Di Paola L, Paola Paci, Daniele Santoni, De Ruvo M, Giuliani A: Proteins as sponges: a statistical journey along protein structure organization principles, Journal of Chemical Information and Modeling 52(2), 474-482, 2012
  • Giuliani A, Di Paola L, Paola Paci, De Ruvo M, Arcangeli C, Daniele Santoni, Celino M: Chapter - Updating and revising "Proteins as Networks: Usefulness of Graph Theory in Protein Science", Advances in Protein and Peptide Science, 2012
  • Paola Paci, Di Paola L, Daniele Santoni, De Ruvo M, Giuliani A: Structural and Functional Analysis of Hemoglobin and Serum Albumin through Protein Long-range Interaction Networks, current proteomics 9(3), 160-166, 2012
  • Pedone F, Daniele Santoni: Preferential nucleosome occupancy at high values of DNA helical rise, Dna Research 19(1), 81-90, 2012
  • Castiglione F, Daniele Santoni, Rapin N: CTLs' repertoire shaping in the thymus: a Monte Carlo simulation, Autoimmunity, 2011
  • Clancy T., Pedicini M, Castiglione F, Daniele Santoni, Nygaard V, Lavelle TJ, Benson M, Hovig E: Immunological network signatures of cancer progression and survival, BMC Med Genomics, 2011
  • Castiglione F, Daniele Santoni, Pedicini M: Implementing agent's rules with gene regulatory networks in mesoscopic-level models of cellular interactions, in "A practical guide to bioinformatics analysis", iConcept Press, Annerley, Australia, 2010
  • Castrignanò T., Orsini M, Paoletti Daniele, Daniele Santoni, Romano-Spica V: Genenv: a database-driven system for bacteria identification on nucleotide sequence determination., Biosim 1, 1-8, 2010
  • Pedicini M, Barrenas F, Clancy T., Castiglione F, Hovig E, Kanduri K, Daniele Santoni, Benson M: Combining network modeling and gene expression microarray analysis to explore the dynamics of Th1 and Th2 cell regulation, PLoS Computational Biology, 6, 2010
  • Bhatt TK, Kapil C, Khan S, Jairajpuri MA, Sharma A, Daniele Santoni, Silvestrini F, Pizzi E, Sharma A: A genomic glimpse of aminoacyl-tRNA synthetases in malaria parasite Plasmodium falciparum, BMC Genomics, 10, 2009
  • Pedone F, Daniele Santoni: Sequence-dependent DNA helical rise and nucleosome stability, BMC Molecular Biology 27, 2009
  • Daniele Santoni, Romano-Spica V: Comparative genomic analysis by microbial COGs self-attraction rate, Journal of Theoretical Biology 258, 513-520, 2009
  • Cacchiarelli D, Daniele Santoni, Bozzoni I: MicroRNAs as prime players in a combinatorial view of evolution, RNA Biology 5, 120-122, 2008
  • Daniele Santoni, Pedicini M, Castiglione F: Implementation of a regulatory gene network to simulate the TH1/2 differentiation in an agent-based model of hypersensitivity reactions, Bioinformatics 24, 1374-1380, 2008
  • Brandi G, Sisti M, Paparini A, Gianfranceschi G, Schiavano GF, De Santi M, Daniele Santoni, Magini V, Romano-Spica V: Swimming pools and fungi: an environmental epidemiology survey in Italian indoor swimming facilities, Int J Environ Health Res 17, 197-206, 2007
  • Paparini A, Ripani M, Giordano GD, Daniele Santoni, Pigozzi F, Romano-Spica V: ACTN3 genotyping by real-time PCR in the Italian population and athletes, Med Sci Sports Exerc 39, 810-815, 2007
  • Paparini A, Daniele Santoni, Romano-Spica V: Bioinformatics and microbial biodiversity: analysis of vibrios by the GenEnv system, J Prev Med Hyg 47, 100-104, 2006
  • Daniele Santoni, Romano-Spica V: A gzip-based algorithm to identify bacterial families by 16S rRNA, Letters in Applied Microbiology 42, 312-314, 2006
  • Pedone F, Mazzei F, Daniele Santoni: Sequence-dependent DNA torsional rigidity: a tetranucleotide code, Biophysical Chemistry 112, 77-88, 2004
  • Romano-Spica V, Daniele Santoni, Paparini A, Giammanco GM, Canali A, Orsini M, Castrignanò T.: Bioinformatics and GenEnv database in biological risk management, Ig Sanita Pubbl 60, 401-420, 2004
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