"..who has reached the stage where he no longer wonders about anything, merely demonstrates that he has lost the art of reflective reasoning.." (Max Planck)

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Selected publications

1. CellExcite: An Efficient Simulation Environment for Excitable Cells
   Ezio Bartocci, Flavio Corradini, Emilia Entcheva, Radu Grosu, Scott A. Smolka.
   BMC Bioinformatics. pp. S1-S13. vol. 9 no. Suppl. 2. 2008. Abstract
   Bibtex 1471-2105-9-S2-S3.pdf S3


2. Learning and Detecting Emergent Behavior in Networks of Cardiac Myocytes
   Radu Grosu, Ezio Bartocci, Flavio Corradini, Emilia Entcheva, Scott A. Smolka, Anita Wasilewska.
   In the proceedings of the 11th International Conference on Hybrid Systems: Computation and Control (HSCC'08), St. Louis, USA, April, 2008. pp. 229-243. Lectures Notes in Computer Science vol. 4981. Springer. 2008. Abstract
   Bibtex


3. Model Checking Biological Oscillators
   Ezio Bartocci, Flavio Corradini, Emanuela Merelli, Luca Tesei.
   In the proceedings of the 2th From Biology To Concurrency International Workshop (FBTC'08), Reykjavik, Island, July, 2008. Electronic Notes in Theoretical Computer Science. 2008.
   Bibtex


4. StonyCam: A Formal Framework for Modeling, Analyzing and Regulating Cardiac Myocytes
   Ezio Bartocci, Flavio Corradini, Radu Grosu, Emanuela Merelli, Oliviero Riganelli, Scott A. Smolka.
   Concurrency, Graphs and Models. pp. 493-502. 2008.
   Bibtex


5. BioWMS: a web-based Workflow Management System for bioinformatics
   Ezio Bartocci, Flavio Corradini, Emanuela Merelli, Lorenzo Scortichini.
   BMC Bioinformatics. pp. S2. vol. 8 no. Suppl 1. 2007. Abstract
   Bibtex S2


6. Biowep: a workflow enactment portal for bioinformatics applications
   Paolo Romano, Ezio Bartocci, Guglielmo Bertolini, Domenico Marra, Giancarlo Mauri, Emanuela Merelli, Luciano Milanesi.
   BMC Bioinformatics. pp. S19. vol. 8 no. Suppl 1. 2007. Abstract
   Bibtex S19


7. An Agent-based Multilayer Architecture for Bioinformatics Grids
   Ezio Bartocci, Diletta Cacciagrano, Nicola Cannata, Flavio Corradini, Emanuela Merelli, Luciano Milanesi, Paolo Romano.
   IEEE transactions on Nanobioscience. pp. 142-148. vol. 6 no. 2. 2007. Abstract
   Bibtex


8. Spatial Networks of Hybrid I/O Automata for Modeling Excitable Tissue
   Ezio Bartocci, Flavio Corradini, Maria Rita Di Berardini, Emilia Entcheva, Radu Grosu, Scott A. Smolka.
   In the proceedings of FBTC'07 From Biology to Concurrency and Back International Workshop co-sited with CONCUR conference. pp. 86-102. Electronic Notes in Theoretical Computer Science vol. 194 no. 3. Elsevier. 2007. Abstract
   Bibtex


9. Enacting Proactive Workflows Engine in e-Science.
   Ezio Bartocci, Flavio Corradini, Emanuela Merelli.
   International Conference on Computational Science (3). pp. 1012-1015. 2006. Abstract
   Bibtex fulltext.pdf


10. Model driven design and implementation of activity-based applications in Hermes.
    Ezio Bartocci, Flavio Corradini, Emanuela Merelli, Leonardo Vito.
    WOA. 2006.
    Bibtex


11. Building a Multiagent System from a User Workflow Specification.
    Ezio Bartocci, Flavio Corradini, Emanuela Merelli.
    WOA. 2006.
    Bibtex


12. A GRID-based multilayer architecture for bioinformatics
    Ezio Bartocci, Diletta Cacciagrano, Nicola Cannata, Flavio Corradini, Emanuela Merelli, Luciano Milanesi, Paolo Romano.
    In the proceedings of NETTAB'06 Network Tools and Applications in Biology. 2006.
    Bibtex


13. An XML View of the "World".
    Emanuela Merelli, Leonardo Mariani, Ezio Bartocci.
    ICEIS (1). pp. 19-27. 2003.
    Bibtex


14. Expressionview: visualization of quantitative trait loci and gene-expression data in Ensembl
    Gertrud Fischer, Saleh Ibrahim, Gudrun Brockmann, Jens Pahnke, Ezio Bartocci, Hans-Jürgen Thiesen, Steffen Möller, Pablo Serrano-Fernández.
    Genome Biology. pp. R77. vol. 4 no. 11. 2003.
    Bibtex R77

All pubblications ordered by year

2008:

Journal Papers

2007:

Journal Papers

1. Bartocci E., Corradini F., Merelli E., Scortichini L., BioWMS: a web based Workflow Management System for Bioinformatics,BMC Bioinformatics 2007, 8(Suppl 1):S2

Abstract Text

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2. Romano P., Bartocci E., Bertolini G., De Paoli F., Marra D., Mauri G., Merelli E., Milanesi L., Biowep: a workflow enactment portal for bioinformatics applications, BMC Bioinformatics 2007, 8(Suppl 1):S19

Abstract Text

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3. Bartocci E., Cacciagrano D., Cannata N., Corradini F., Merelli E., Milanesi L., Romano P. An Agent-based Multilayer Architecture for Bioinformatics Grids, IEEE transactions on Nanobioscience 2007, 6(2):142-148

Abstract Text

Full PDF

BibTeX entry

National and International Workshops and Conferences

1. Bartocci E., Di Berardini M. R., Corradini F., Entcheva E., Grosu R., Smolka S.A, Spatial Networks of Hybrid I/O Automata for Modelling Excitable Tissue, In the proceedings of FBTC'07 From Biology to Concurrency and Back International Workshop co-sited with CONCUR conference, September 8, Lisbon, 2007
2. Bartocci E., Corradini F., Entcheva E., Grosu R., Smolka S.A, CellExcite: A hybrid-automata-based visualization framework for excitable-cell networks simulation, In the proceedings of NETTAB'07 Network Tools and Applications in Biology, June 12-15, Pisa, 2007
3. Bartocci E., Corradini F., Entcheva E., Grosu R., Smolka S.A, CellExcite: a tool for simulating Excitable Cells, Bioinformatics ITalian Society (BITS) meeting, Napoli, 2007

Posters 2007

2006:

National and International Workshops and Conferences

1. E. Bartocci, F. Corradini, E. Merelli, Enacting proactive workflows engine in e-Science, In Proceedings of the 1st International Workshop on Workflow Systems in e-Science (WSES 06) ICCS 2006, Part III, LNCS 3993 -1012, Springer-Verlag

Abstract Text

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BibTeX entry

2. E. Bartocci, D. Cacciagrano, N. Cannata, F. Corradini, E. Merelli, L. Milanesi, P. Romano A GRID-based multilayer architecture for bioinformatics, In the proceedings of NETTAB'06 Network Tools and Applications in Biology, July 10-13, 2006 - Santa Margherita di Pula, Cagliari, Italy - accepted

Abstract Text

3. Bartocci E., Romano P., Towards a comparison of Workflow Management Systems in Bioinformatics, In the proceedings of NETTAB'06 Network Tools and Applications in Biology, July 10-13, 2006 - Santa Margherita di Pula, Cagliari, Italy
4. Bartocci E., Angeletti M., Merelli E., A workflow for an orthology-based prediction of protein-protein interaction,
   Bioinformatics ITalian Society (BITS) meeting, Bologna, 2006
5. Bartocci E., Cannata N., Corradini F., Merelli E., A multilayer architecture to support bioinformaticians of today and tomorrow,
   Bioinformatics ITalian Society (BITS) meeting, Bologna, 2006
6. Bartocci E., Corradini F., Merelli E., Scortichini L., BioWMS: a web based Workflow Management System for Bioinformatics,
   Bioinformatics ITalian Society (BITS) meeting, Bologna, 2006
7. Bartocci E., Merelli E., Möller S., A DAS view of agent based workflow,
   Bioinformatics ITalian Society (BITS) meeting, Bologna, 2006
8. Romano P., Bartocci E., Bertolini G., De Paoli F., Marra D., Mauri G., Merelli E., Milanesi L., Biowep: a workflow enactment portal for bioinformatics applications, Bioinformatics ITalian Society (BITS) meeting, Bologna, 2006
9. E. Bartocci, F. Corradini, E. Merelli, L. Vito, Model driven design and implementation of activity-based applications in Hermes, Workshop From Objects to Agents - WOA 2006 - Demo Session, September 26-27, 2006, Catania Italy

   Abstract Text

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10. E. Bartocci, F. Corradini, E. Merelli, Building a Multiagent System from a User Workflow Specification, Workshop From Objects to Agents - WOA 2006, September 26-27, 2006, Catania Italy

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Technical Reports

1. E. Bartocci, F. Corradini, E. Merelli From Workflow-based software specification to Interactive Components., Internal Report 04-06, University of Camerino, 2006.

Posters 2006

2004

1. R. Amici, E. Bartocci and E. Merelli, A virtual laboratory for simulating methabolic pathways. Bioinformatics Italian Society Meeting, 2004
2. E. Bartocci, F. Corradini, E. Merelli, Service Discovery for Biological Distributed Applications: an Overview, NETTAB, Sept. 2004
3. M. Angeletti, E. Bartocci, A. Baldoncini, R. Culmone, The interactome jigsaw puzzle: putting togheter the complete picture of protein/protein interactions using BioAgent platform, NETTAB, Sept. 2004

2003

Journal Papers

1. Gertrud Fischer, Saleh M Ibrahim, Gudrun A Brockmann, Jens Pahnke, Ezio Bartocci, Hans-Jürgen Thiesen, Pablo Serrano-Fernández, Steffen Möller (2003) Expressionview: visualization of quantitative trait loci and gene-expression data in Ensembl. Genome Biology 2003 4(2):R77

   Abstract Text

   Full PDF

   BibTeX entry

National and International Workshops and Conferences

1. Ezio Bartocci, Emanuela Merelli, Leonardo Mariani, An XML View of the "World". ICEIS (1) 2003: 19-27

   Abstract Text

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   BibTeX entry

2. E. Bartocci, S. Möller, L. Toldo, E. Merelli - Integration of EnsEMBL with BioAgent, BIOCOMP 2003, Villa Mondragone(Frascati), 2003

2002

1. E. Bartocci, R. Culmone, L. Soverchia and M. Angeletti, DNA-microarray Data Integration Using Mobile Architecture: A New Approach for Researchers in Cooperation in the Genome Era (Poster), NETTAB02 Agents in Bioinformatics, Bologna, 2002