Toni Giorgino

Toni Giorgino is a post-doc research assistant at GRIB-IMIM. He holds a degree in Physics (University of Pisa, 2001) and a PhD in Bioengineering and Bioinformatics (University of Pavia, 2005).

He is currently applying accelerator architectures (GPUs) and distributed computing architectures (BOINC and GPUGRID.net) to the investigation of protein-protein and protein-drug interactions through all-atom simulations (see e.g. videos and pictures from simulations on the hERG channel).

He was formerly with the Laboratory for Biomedical Informatics of the University of Pavia, where he conducted research on telemedicine and adaptive human-computer interaction for patient care, including wearable sensors (e.g. MyHeart) and speech interfaces (e.g. AdaRTE, Homey). His research interests include statistical learning, software and device engineering, and high-performance architectures for biomedical research.

Please also refer to my http://sites.google.com/site/tonigiorgino/. An older institutional page (2007) was archived here (2007).

Utilities for the VMD molecular graphics program

  • A plugin to write PDB files embedding TER cards between molecules: toni/PdbTer

  • VMD extension functions: frame iterators, multi-file processing, native contacts toni/MolecularIterators

  • An update to the RMSD Trajectory Tool to compute the number of native contacts toni/RMSDTTNC

Tutorials

Publications (peer reviewed only)

  • Giorgino T., Harvey M.J. and De Fabritiis G., Distributed computing as a virtual supercomputer: Tools to run and manage large-scale BOINC simulations, Computer Physics Communications, Volume 181, Issue 8, August 2010, Pages 1402-1409. doi:10.1016/j.cpc.2010.04.007
  • Buch I, Harvey MJ, Giorgino T, Anderson DP, De Fabritiis G. High-throughput all-atom molecular dynamics simulations using distributed computing. J Chem Inf Model. 2010 Mar 22;50(3):397-403. doi:10.1021/ci900455r.

  • Giorgino T, Tormene P, Maggioni G, Pistarini C, Quaglini S. Wireless Support to Post-Stroke Rehabilitation: MyHeart's Neurological Rehabilitation Concept. IEEE Transactions on Information Technology in Biomedicine. 2009 Nov;13(6):1012-1018. doi:10.1109/TITB.2009.2028020.

  • Giorgino T. Computing and Visualizing Dynamic Time Warping Alignments in R: the dtw Package. Journal of Statistical Software. 2009 August;31(7). www.jstatsoft.org/v31/i07
  • Tormene P*, Giorgino T*, Quaglini S, Stefanelli M. Matching incomplete time series with dynamic time warping: an algorithm and an application to post-stroke rehabilitation. Artificial Intelligence in Medicine. 2009 Jan;45(1):11–34. (* shared first authors) doi:10.1016/j.artmed.2008.11.007.
  • Giorgino T, Tormene P, Maggioni G, Capozzi D, Quaglini S, Pistarini C. Assessment of sensorized garments as a flexible support to self-administered post-stroke physical rehabilitation. Eur J Phys Rehabil Med. 2009 Mar;45(1):75–84. PMID: 19293756
  • Rojas-Barahona LM, Giorgino T. Adaptable dialog architecture and runtime engine (AdaRTE): a framework for rapid prototyping of health dialog systems. International Journal of Medical Informatics. 2009 Apr;78 Suppl 1:S56–S68. doi:10.1016/j.ijmedinf.2008.07.017.
  • Giorgino T, Tormene P, Lorussi F, Rossi DD, Quaglini S. Sensor evaluation for wearable strain gauges in neurological rehabilitation. IEEE Trans Neural Syst Rehabil Eng. 2009 Aug;17(4):409–415. doi:10.1109/TNSRE.2009.2019584.
  • Quaglini S, Giorgino T, Rojas-Barahona LM, Caffi E, De Vito M, Persico A, et al. An automated voice response system for anticoagulant therapy management. Stud Health Technol Inform. (MEDINFO) 2009;150:453-457. doi:10.3233/978-1-60750-044-5-453

  • Giorgino T, Tormene P, Cattani B, Pistarini C, Quaglini S. Remote Support for Stroke Rehabilitation: MyHeart's Neurological Rehabilitation Concept. In: MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics. pp. 1063-1067. Brisbane (Australia). ISBN 978-1-58603-774-1. PMID: 17911685.

  • Rojas-Barahona LM, Giorgino T. AdaRTE: Adaptable Dialogue Architecture and Runtime Engine. A New Architecture for Health-Care Dialogue Systems. In: MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics, pp. 1063-1067. Brisbane (Australia). ISBN 978-1-58603-774-1. PMID: 17911878.
  • Giorgino T, Tormene P, Quaglini S. A Multivariate Time-Warping Based Classifier for Gesture Recognition with Wearable Strain Sensors. In: Proc. 29th Annual International Conference of the IEEE Engineering in Medicine and Biology Society EMBS 2007. p. 4903–4906. Los Alamitos, CA, USA. doi:10.1109/IEMBS.2007.4353439.
  • Giorgino T, Quaglini S, Lorussi F, De Rossi D. Experiments in the Detection of Upper Limb Posture through Kinestetic Strain Sensor. In: Wearable and Implantable Body Sensor Networks, International Workshop on. Boston, MA (USA): IEEE Computer Society; 2006. p. 9-12. doi:10.1109/BSN.2006.25.

  • Lorussi F, Tognetti A, Giorgino T, Quaglini S. Wearable system for post stroke rehabilitation of the upper-limb. Biomedicine & Pharmacotherapy. 2006;60. doi:10.1016/j.biopha.2006.07.030.

  • Giorgino T, Lorussi F, De Rossi D, Quaglini S. Posture Classification via Wearable Strain Sensors for Neurological Rehabilitation. In: Engineering in Medicine and Biology Society, 2006. EMBS ’06. 28th Annual International Conference of the IEEE. p. 6273–6276. Los Alamitos, CA, USA doi:10.1109/IEMBS.2006.260620.
  • Bickmore T, Giorgino T. Health dialog systems for patients and consumers. Journal of Biomedical Informatics. 2006;39(5):556–571 (Methodological review). doi:10.1016/j.jbi.2005.12.004.
  • Bickmore T, Giorgino T, Green N, Picard R. Special issue on dialog systems for health communication (guest editorial). Journal of Biomedical Informatics. 2006;39(5):465–467. doi:10.1016/j.jbi.2006.02.002.
  • Giorgino T, Azzini I, Rognoni C, Quaglini S, Stefanelli M, Gretter R, et al. Automated spoken dialogue system for hypertensive patient home management. International Journal of Medical Informatics. 2005 Mar; 74(2-4):159–167. doi:10.1016/j.ijmedinf.2004.04.026.
  • Bellazzi R, Giorgino T, Azzini I, Larizza C, Quaglini S, Hernando E. New frontiers of telemedicine systems for chronic patients monitoring: Adaptive systems and multi-access services. Measurement + Control. 2004 Giu; 37(5) pp. 146-150. The institute of measurement and control, London, UK.
  • Piazza M, Giorgino T, Azzini I, Stefanelli M, Luo R. Cognitive human factors for telemedicine systems. Medinfo 2004: Proceedings of the 11th World Congress on Health (Medical) Informatics. 2004;11(Pt 2):974-978. PMID: 15360958. .
  • Azzini I, Falavigna D, Giorgino T, Gretter R, Quaglini S, Rognoni C, et al. Automated Spoken Dialog System for Home Care and Data Acquisition from Chronic Patients. In: Medical Informatics Europe MIE 2003. St. Malo, France. p. 146-151. PMID: 14663978.
  • Azzini I, Giorgino T, Quaglini S, Rognoni C, Stefanelli M. Home Monitoring of Hypertensive Patients through Intelligent Dialog System. In: Kohane IS, editor(s). American Medical Informatics Association, AMIA 2002, San Antonio, TX, USA. 2002. PMCID: PMC2244273.
  • Bodin, F.; Boucaud, P.; Cabibbo, N.; et al. APE computers - Past, present and future. Computer Physics Communications, 2002, 147, 402-409. doi:10.1016/S0010-4655(02)00314-4.

  • Bartoloni A, Boucaud P, Cabibbo N, Calvayrac C, Della Morte A, Del Pietri R, et al. Status of APEmille. Nuclear Physics B - Proceedings Supplements. 2002; 106-1071043-1045. Doi:10.1016/S0920-5632(01)01922-3.

  • Bodin F, Boucaud P, Cabibbo N, Calvayrac F, Della Morte M, De Pietri R, et al. The apeNEXT project. Nuclear Physics B - Proceedings Supplements. 2002; 106-107173-176. doi:10.1016/S0920-5632(01)01656-5.

Book chapters

  • Giorgino T, Tormene P, Quaglini S. Indumenti sensorizzati per la neuroriabilitazione motoria: analisi del movimento con feedback in tempo reale. In: Bonfiglio A, Cerutti S, De Rossi D, Magenes G, editors. Sistemi indossabili per la salute e la protezione dell’uomo; Patron, Bologna, Settembre 2008. ISBN 978-88-555-2994-5.
  • Azzini I, Giorgino T, Falavigna D, Gretter R. Application of Spoken Dialogue Technology in a Medical Domain. In: Text, Speech and Dialogue. Lecture Notes in Computer Science 2448/2002 p. 177-196. Springer Berlin / Heidelberg. ISBN 978-3-540-44129-8. doi:10.1007/3-540-46154-X.

Academic theses

  • Giorgino T, Advances in Voice Recognition for Home Care: Technology and Architecture. Tesi di Dottorato discussa presso l’Università degli Studi di Pavia il 10 marzo 2005.
  • Giorgino T. An Introduction to Text Classification. Final thesis for the Scuola Avanzata di Formazione Integrata, Istituto Universitario di Studi Superiori di Pavia. December 2004.
  • Giorgino T. Language trees, zipping and error estimation. Final thesis for the first year of the Scuola Avanzata di Formazione Integrata, Istituto Universitario di Studi Superiori di Pavia. November 2002.
  • Giorgino T. ApeNEXT: architettura ed algoritmi di LGT. Tesi di Laurea discussa presso l’Università degli Studi di Pisa il 4 giugno 2001.

Congresses, workshops and AAAI symposia

  • Pasotti L, Giorgino T, Magni P. Movement detection from a wearable system: a deconvolution-based approach. In: Burattini R, Contro R, Dario P, Landini L, editor(s). Primo Congresso Nazionale di Bioingegneria – GNB 2008. Pisa (Italy) 2008. p. 607-608.
  • Giorgino T, Maggioni G, Tormene P, Capozzi D, Quaglini S, Pistarini C. Sensorised garments for post-stroke physical rehabilitation. In: International Focus on Stroke. Milan (Italy): 2007.
  • Rojas-Barahona LM, Giorgino T. AdaRTE: An Extensible and Adaptable Architecture for Dialog Systems. In: Bridging the Gap: Academic and Industrial Research in Dialog Technologies Workshop Proceedings, NAACL-HLT, pp. 64-67. Rochester, USA. 2007. Association for Computational Linguistics, Morristown, NJ, USA. www.aclweb.org/anthology/W/W07/W07-0309.pdf
  • Pistarini C, Maggioni G, Giorgino T, Quaglini S. Instrumental Kinesiology Approach in Neurorehabilitation Follow-up. In: Virtual Rehabilitation, 2007, p. 79-79. IEEE Computer Society, Los Alamitos, CA, USA. doi:10.1109/ICVR.2007.4362135.
  • Giorgino T, Quaglini S, Lorussi F. Conductive Elastomer Sensors in Neurological Rehabilitation. In: Proceedings of ISEK. Turin (Italy). 2006.
  • Giorgino T, Quaglini S, Lorussi F, Tognetti A. Experiments in the Detection of Upper Limb Posture through Kinestetic Strain Sensors. In: Proceedings of ISEK. Turin (Italy). 2006.
  • Quaglini S, Giorgino T, Pistarini C, Maggioni G, Lorussi F. Un sistema basato su indumenti sensorizzati per la rilevazione del movimento nella riabilitazione post ictus. In: XXXIV Congresso Nazionale S.I.M.F.E.R. Firenze (Italy) 2006.
  • Tormene P, Viaro F, Giorgino T. Classification of Time Series Acquired by Wearable Sensors for Recognizing Motor Rehabilitation Exercises. Technical Report, 2006.
  • Rognoni C, Giorgino T, Quaglini S, Stefanelli M, Marchesi E, Baccheschi J. Adapting an Hypertension Home-Monitoring System to the Patient's Cardiovascular Risk. In: Druzdzel MJ, Leong T, editor(s). AAAI Press. 2005 Spring Symposium Series. ISBN 978-1-57735-228-0.
  • Giorgino T, Quaglini S, Rognoni C, Baccheschi J. The HOMEY project: a telemedicine service for hypertensive patients. In: UM 2005 workshop on Personalisation for e-Health, 29 July 2005, Edinburgh, UK.

  • Falavigna D, Giorgino T, Gretter R. A Frame Based Spoken Dialog System for Home Care. In: Interspeech'2005 - Eurospeech, 9th European Conference on Speech Communication and Technology, Lisbon, Portugal, September 4-8, 2005 ISCA Archive, http://www.isca-speech.org/archive/interspeech_2005. p. 201-204.

  • Bickmore T, Giorgino T. Some Novel Aspects of Health Communication. In: American Association for Artificial Intelligence, AAAI Fall Symposium 04, Washington DC, USA, 2004. AAAI Press. ISBN 978-1-57735-215-0.
  • Giorgino T, Quaglini S, Stefanelli M. Evaluation and Usage Patterns in the Homey Hypertension Management Dialogue System. In: American Association for Artificial Intelligence, AAAI Fall Symposium 04, Washington DC, USA, 2004. AAAI Press. ISBN 978-1-57735-215-0.
  • Giorgino T, Spadini E. Machine Learning Techniques for the Evaluation of a Chronic Disease-Management Dialog System. In: Intelligent Data Mining in Medicine IDAMAP 2004, San Francisco, CA, USA.
  • Rognoni C, Giorgino T, Quaglini S, Stefanelli M, Marchesi E, Baccheschi J. An hypertension home-monitoring system adapted for cardiovascular risk management. In: 1st EMMIT Euro-Mediterranean Medical Informatics and Telemedicine. Genova, 2004.
  • Azzini I, Giorgino T, Nardelli L, Orlandi M, Rognoni C. An architecture for a multi-modal Web Browser [Internet]. In: IDS 2002. Multi-Modal Dialogue in Mobile Environments, ISCA Tutorial and Research Workshop (ITRW). Kloster Irsee, Germany, June 17-19, 2002: 2002. p. 9. Available from: www.isca-speech.org/archive/ids_02/ids2_021.html.
  • Azzini I, Giorgino T, Falavigna D, Gretter R. Application of the ITC-irst spoken dialog system in a medical domain. In: TSD 2002: Fifth International Conference on Text, Speech and Dialogue. Brno, Czech Rep., September 9-12, 2002. p. 449.
  • Armaroli C, Azzini I, Ferrario L, Giorgino T, Nardelli L, Orlandi M, et al. An architecture for a multi-modal Web Browser. In: 7th International Conference on Spoken Language Processing (ICSLP2002 - INTERSPEECH 2002), Denver, Colorado, USA, September 16-20, 2002, ed. by John H. L. Hansen and Bryan Pellom, ISCA Archive, p. 2553-2556. Available from: www.isca-speech.org/archive/icslp_2002/i02_2553.html.

Divulgation

  • Giorgino T. Quan les persones col.laboren amb la ciència [When the public collaborates with science]. Imima't - divulguem la ciència. June 2009; divulgation article translated into Spanish and Catalan.
  • Giorgino T. Technical focus on GPUGRID. Article in the Virtual Physiologial Human Network of Excellence – Newsletter n. 2. June 2009.
  • Giorgino T. Wiki science featured in EMBO reports. Article in the Virtual Physiologial Human Network of Excellence – Newsletter n. 2. June 2009.

  • Giorgino T. Wearable sensors for neurological rehabilitation. Presentation video for the MyHeart project, 2008. Available from: www.labmedinfo.org/projects/myheart (Online)

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