MPBA - Talk &Thesis
Talks & Posters
2019
- M. Chierici. Artificial intelligence and life sciences: challenges and cutting-edge applications in computational biology. New Frontiers in Research, Diagnostics and Therapies, Trieste, December 2019. (talk)
- M. Chierici. Machine learning for computational biology. Università degli studi di Milano, October 2019. (talk)
- M. Chierici, M. Giulini, N. Bussola, G. Jurman, C. Furlanello. ML4Tox – A Machine Learning Framework for Predictive Toxicology. MAQC 2019, Riva del Garda (TN). (poster)
- N. Bussola, A. Bizzego, M. Chierici, V. Maggio, M. Francescatto, L. Cima, M. Cristoforetti, G. Jurman, C. Furlanello. Evaluating reproducibility of Deep Learning models on Digital Pathology images. MAQC 2019, Riva del Garda (TN). (poster)
- I. Basadonne, A. Zandonà, SL. Mortera, P. Vernocchi, M. Chierici, A. Quagliariello, G. Jurman, C. Furlanello, L. Putignani, P. Venuti. Metaproteomics in ASD Families: A New Approach for Gut Microbiota Profiling in Autism Spectrum Disorders. MAQC 2019, Riva del Garda (TN). (poster)
- M.Chierici. Predictive models: principles and case studies. Machine learning: applications to clinical and psychological research, Rovereto (TN), 2019. (talk)
- L. Coviello, A. Alikadic. Il fenomeno delle HeatWaves. Trentino Clima 2019, October 2019, Trento (IT). Presentation
- L. Coviello, A. Zanin, S. Fioravanzo. WebValley 2019: Foocus on agricolture, in cooperation with CO.DI.PR.A. Artificial Intelligence within Farmers’ Reach . June 2019, Trento (IT) Presentation
- L. Coviello, G. Franch. Microsoft AI4Earth Summit. Modeling Crop-Specific Impact of Heat Waves by Deep Learning.
May 2019, Seattle (WA) Presentation - L. Coviello. TNC19 – Forging Digital Societies. Democratizing Smart Farming with AI on LoRa Sensor Networks. June 2019, Tallin (EE) Presentation
2018
- M. Chierici. Deep learning for predictive toxicology. OpenTox USA 2018, Durham (NC), 2018. (talk)
- M. Chierici, V. Maggio, G. Jurman, C. Furlanello. Improved prognostic profiling in high-risk neuroblastoma by multi-task deep learning with distillation of the clinical diagnostic algorithm. MAQC 2018, Shanghai, China
2017
- C. Furlanello, M. De Domenico, G. Jurman, N. Bussola Towards a scientific blockchain framework for reproducible data analysis CAMDA 2017 22-23 July 2017 Prague (CZ) Presentation
- G. Jurman, Y. Giarratano, C. Agostinelli, V. Maggio, D. Fioravanti, C. Zarbo, C. Furlanello Phylogenetic Convolutional Neural Networks BMTL 2017 7-9 June 2017 Naples (I) Presentation
- G. Jurman. Basic principles of scientific visualization. Pycon Otto 6-9 April 2017 Florence (I). Presentation
- G. Jurman, R. Visintainer, M. Filosi, S. Riccadonna, C. Furlanello. Differential network analysis and graph classification: a glocal approach. Pycon Otto 6-9 April 2017 Florence (I). Presentation
- G. Franch, A. Nardelli, C. Zarbo, V. Maggio, C. Furlanello. Deep Learning for Precipitation and Lightning Nowcasting Pycon Otto 6-9 April 2017 Florence (I). Presentation
- V. Maggio. The unconventional introduction to Deep Learning. Pydata, 7 April 2017, Florence (I). Presentation
- C. Furlanello, G. Jurman, M. Cristoforetti, V. Maggio, C. Zarbo, M. Chierici. Deep Learning for Integrated Omics and Phenotype. Scientific summit Italy-Japan: Environment and Health, 24 March 2017 Rovereto (I). Presentation
- C. Furlanello, G. Jurman, M. Cristoforetti, V. Maggio, C. Zarbo, M. Chierici. Deep Learning for Precision Medicine (with some generalization). MLDAS 14 March 2017, Doha (QA). Presentation
2016
- V. Maggio. Deep Learning for Rain and Lightning Nowcasting. NIPS 2016 Workshop on ML for Spatiotemporal Forecasting, Barcelona (S). Presentation
- G. Franch, A. Nardelli, C. Zarbo, V. Maggio, C. Furlanello. Deep Learning for Precipitation and Lightning Nowcasting. NIPS 2016 Workshop on ML for Spatiotemporal Forecasting, Barcelona (S)
- A. Zandonà, L. Trastulla, G. Jurman, C. Agostinelli, C. Furlanello, M. Lavie-Richard, H. Sokol. Integrated meta-omics for models of gut inflammatory disease. NIPS 2016 MLCB Workshop, Barcelona (S). Poster
- C. Zarbo, V. Maggio, M. Chierici, G. Jurman, C. Furlanello. Integrating Deep Learning with the SEQC Data Analysis Plan for predictive biomarkers of Clinical Endpoints in Neuroblastoma. AIA 2016 MLDM Workshop, Genoa (I)
- V. Maggio. Data Formats for Data Science (Director’s Confidential). PyCon DE, 29 October 2016, Munich (D). Presentation
- V. Maggio. Data Formats for Data Science (Remastered). Budapest BI Forum, 26 October 2016, Budapest (H). Presentation
- C. Zarbo, V. Maggio, M. Chierici, G. Jurman, C. Furlanello. Integrating Deep Learning with the SEQC Data Analysis Plan for predictive biomarkers of Clinical Endpoints in Neuroblastoma. PKDD 2016 DLPM Workshop, Riva del Garda (I)
- C. Furlanello, A. Zandonà, M. Chierici, G. Jurman. Metagenomics data analytics. Maestra Summer School 2016 on Mining big and complex data, Ohrid (FYROM) Presentation
- N.M. Rad, S.M. Kia, C. Zarbo, G. Jurman, P. Venuti, C. Furlanello. Stereotypical Motor Movement Detection in Dynamic Feature Space. Maestra Summer School 2016 on Mining big and complex data, Ohrid (FYROM). Poster
- V. Maggio. %%async_run: an IPython notebook extension for asynchronous cell execution. EuroScipy 2016, 26 August 2016, Erlangen (D). Presentation
- V. Maggio. Data Formats for Data Science. EuroPython 2016, 21 July, Bilbao (S). Presentation
- C. Furlanello, M. Mina, G. Jurman. Disease networks and comorbidity analysis. EuroTox 2016, Seville (S) Presentation
- M. Cristoforetti, L. Coviello, C. Furlanello. Monitoring vaccine confidence (with deep learning): the VCM platform. DELVE 2016, Amsterdam (NL) Presentation
- V. Maggio. %%async_run: an IPython notebook extension for asynchronous cell execution. PyData Florence, 16 April 2016, Florence (I)
- N.M. Rad, C. Furlanello. Applying deep learning to stereotypical motor movement detection in autism spectrum disorders. International Conference on Data Mining 2016, PhD forum, Barcelona , Spain.
- N.M. Rad, S.M. Kia, C. Zarbo, G. Jurman, P. Venuti, C. Furlanello. Stereotypical Motor Movement Detection in Dynamic Feature Space. International Conference on Data Mining 2016, DMHAA workshop, Barcelona (S). Presentation
2015
- N.M. Rad, A. Bizzego, S.M. Kia, G. Jurman, P. Venuti, C. Furlanello. Convolutional Neural Networks for Stereotypical Motor Movements Detection in Autism. NIPS Workshop – Machine Learning and Interpretation in Neuroimaging, 2015 Montreal (CAN)
- C. Furlanello, G. Jurman, M. Filosi, S. Riccadonna, R. Visintainer. The HIM glocal metric and kernel for network comparison and classification. IEEE Data Science and Advanced Analytics (DSAA) 2015, Paris (F) (presentation)
- G. Jurman, M. Filosi, S. Riccadonna, R. Visintainer, C. Furlanello. Differential network analysis and graph classification: a glocal approach. Bringing Maths to Life (BMTL) 2015, Naples (I) (presentation)
- A. Zandonà, M. Chierici, G. Jurman, C. Furlanello, S. Cucchiara, F. Del Chierico, L. Putignani. Complex networks for the analysis of microbiome structures. Bringing Maths to Life (BMTL) 2015, Naples (I) (presentation)
- G. Jurman, A. Zandonà, M. Chierici, C. Furlanello, S. Cucchiara, F. Del Chierico, L. Putignani. Microbial Communities and Individual Health Trajectories. Microbiota: salute terme e alimentazione 2015, Comano Terme (I) (presentation)
- A. Zandonà, M. Chierici, G. Jurman, C. Furlanello. Choice of Training-Validation partitions impacts predictive performances. 4th Italian Workshop on Machine Learning and Data Mining (#AI4-MLDM) 2015, Ferrara (I) (presentation)
- E. Arbitrio, M. Filosi, A. Gobbi, C. Furlanello. Actionable Data Analytics in retail marketing analysis. Europython’15, Bilbao (E) (poster)
- Y. Ozturk, A. Bizzego, C. Furlanello, P. Venuti. Perceived stress, emotional response and physiological reactivity to cry of infant with autism and typically developing infants. European Congress of Psychology 2015, Milan (I)
- A. Bizzego, A. Battisti, B. Milosevic, R. De Filippi, E. Farella, C. Furlanello. Identification of fatigue patterns in skiing from inertial and GPS data. International Society for Skiing Safety 2015, San Vito di Cadore (I) (pdf, presentations)
- L. Coviello, M. Mina, C. Furlanello. Rhadius: a cloud-based framework interfacing with OMERO server for bioimaging analysis of large scale dataset. 10 Annual OME User Meeting, 2015 Paris (F) (poster)
- I. Basadonne, A. Zandonà. Assessment of nutrition and gastrointestinal conditions in children with autism spectrum disorders: an interview to parents. Mediterranean Journal of Clinical Psychology MJCP, Suppl. N.1B, vol.3, No.2, 2015, Milazzo (I) (poster)
- I. Basadonne, A. Zandonà, C. Furlanello, P. Venuti. Nutrition and gastrointestinal conditions in Autism Spectrum Disorders: is there a link between gut microbiota and ASD? In Proceedings of the 14th European Congress of Psychology – Linking technology and psychology: feeding the mind, energy for life, 2015, Milan (I) (presentation)
2014
- G. Lami, M. Cristoforetti, G. Jurman, C. Furlanello, T. Furlanello. Entropy Dynamics of of Community Alignment of the Italian Parliament Time-Dependent Network, NIPS Workshop – Networks: From Graph to Rich Data, 2014 Montreal (CAN) (poster & spotlight)
- A. Zandonà, M. Chierici, G. Jurman, C. Furlanello, S. Cucchiara, F. Del Chierico, L. Putignani. A metagenomic pipeline integrating predictive profiling methods and complex networks for the analysis of NGS microbiome data. NIPS Workshop – Machine Learning in Computational Biology, 2014 Montreal (CAN) (poster & spotloght)
- C. Furlanello. Reproducibility and stabilty of predictive biomarkers. Machine Learning and Data Analytics Symposium 2014, Doha (Q) (presentation)
- G. Jurman. Applications of streaming data environments for health and safety SAAT 2014, Bournemouth (UK) (presentation)
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R Gallesio, M De Mariano, M Chierici, S Stigliani, P Scaruffi, S Coco, C Furlanello, L Longo, GP Tonini. Exome sequencing suggests candidate genes associated with aggressiveness ofstage 4 neuroblastoma patients. Advances in Neuroblastoma Research, Colonia, Germania, 13-16 Maggio 2014
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R. Gallesio, M. De Mariano, M. Chierici, S. Stigliani, P. Scaruffi, S. Coco, C. Furlanello, L. Longo, G.P. Tonini. Exome sequencing suggests candidate genes associated with aggressiveness of stage 4 neuroblastoma patients. Advances in Neuroblastoma Research 2014, Köln (D)
- M. De Mariano, R. Gallesio, M. Chierici, C. Furlanello, M. Conte, A. Garaventa, G.P. Tonini, L Longo. GALNT14 as a novel candidate gene for neuroblastoma predisposition. Advances in Neuroblastoma Research 2014, Köln (D)
- A. Zandonà, M. Chierici, G. Jurman, L. Putignani, C. Furlanello. A metagenomic pipeline integrating predictive profiling methods and complex networks for the analysis of NGS microbiome data. 3S Biology Summer School 2014, Trento (I) (presentation)
- A. Gobbi, F. Iorio, K.J. Dawson, D.C. Wedge, D. Tamborero, L.B. Alexandrov, N. Lopez-Bigas, M.J. Garnett, G. Jurman, J. Saez-Rodriguez. Fast randomization of large genomics datasets while preserving alteration counts. ECCB14, 2014, Strasbourg (F) (presentation)
- C. Zarbo, A. Bizzego, M. Mina, G. Esposito, C. Furlanello. A Galaxy-based framework for online streaming data analytics in Heart Rate Variability Analysis. Galaxy Community Conference 2014, Baltimore (US) (pdf, presentazione)
- A. Bizzego, M. Mina, C. Zarbo, G. Esposito, C. Furlanello. Physiolyze: a Galaxy-based web service for Heart Rate Variability analysis with online processing. IEEE European Study Group on Cardiovascular Oscillations 2014, Trento (I) (pdf, presentazione)
Tutorials
2019
- M. Chierici. An introduction to machine learning. Bayer AG, July 2019, Berlin (D)
- M. Chierici. Machine learning from scratch. EMBO practical course “Population genomics: Background, tools and programming”. April 2019, Procida, NA (I).
2017
- V. Maggio. Ten Steps to Keras. PyData London, 5 May 2017, London (UK)
- V. Maggio. Deep Learning: the Keras way. PyData Florence, 8 April 2017, Florence (I)
- M.Chierici. The data analysis plan: intro to unbiased pipelines for binary classification. ELIXIR-IIB Training course on Machine Learning for Biologists. 2017, San Michele all’Adige (I)
2016
- V. Maggio. Deep Learning with Keras and Tensorflow. Budapest BI Forum, 25 October 2016, Budapest (H)
- V. Maggio. An introduction to Deep Learning with Keras. EuriScipy 2016, 25 August 2016, Erlangen (D)
- V. Maggio. Introduction to Machine Learning using scikit-learn. BigDive 2016, 24 June 2016, Turin (I)
Theses
Ph.D.
- A. Zandonà. Predictive networks for multi meta-omics data integration. University of Trento, (CIBIO).
- Andrea Bizzego. A Data Analytics Framework for Physiological Signals from Wearable Devices. University of Trento, 2017 (ICT)
- Michele Filosi. A network medicine approach for microarray and Next Generation Sequencing data. University of Trento, 2014 (CIBIO)
- Andrea Gobbi. Theoretical and algorithmic solutions for null models in network theory. University of Trento, 2013 (Maths) PDF
- Roberto Visintainer. Distances and Stability in Biological Network Theory. University of Trento, 2013 (ICT) PDF
- Giorgio Guzzetta. A new computational approach to the integrated modeling of infectious diseases. University of Trento, 2011 (ICT) PDF
- Piero Poletti. Human behavior in epidemic modeling. University of Trento, 2010 (Maths) PDF
- Silvano Paoli. A high performance computational environment for UHTS studies. University of Trento, 2010 (ICT) PDF
- Marco Ajelli. New Generation Individual Based Models for Infectious Diseases Transmission. University of Trento, 2009 (ICT) PDF
- Samantha Riccadonna. Predictive Data Mining for Integrative Functional Genomics. University of Trento, 2009 (ICT) PDF
M.Sc.
- Ylenia Giarratano. Phylogenetic Convolutional Neural Networks in Metagenomics University of Trento, 2016 (Maths)
- Lucia Trastulla. Techniques of integration for high-throughput omics data University of Trento, 2016 (Maths)
- Isotta Landi. Assessing mother-child relationship: Topological Data Analysis of Physiological Measurements University of Trento, 2015 (Maths) PDF
- Calogero Zarbo. A Deep Learning predictive framework for Metagenomics based on microbiome functional potential profiles University of Trento, 2015 (Eng) PDF
- Valentina Marziano. Modelling the impact of demographic changes on Varicella and Herpes Zoster University of Trento, 2013 (Maths) PDF
- Marco Ferrarini. Biological network inference via DTW & correlation measures from time-course data University of Trento, 2012 (Maths) PDF
- Federico Pierucci. Kernel methods for promoterome analysis with UHTS data University of Trento, 2011 (Maths) PDF
- Andrea Gobbi. Algebraic reconstruction of gene regulatory networks University of Trento, 2010 (Maths) PDF
- Martina Calovi. Strumenti e metodi per una nuova geografia: analisi di un sistema sperimentale per l’accesso interattivo a dati territoriali e dati statistici socio-economici a supporto del governo della pianificazione urbanistica University of Pisa, 2009 (Geo) PDF
- Roberto Visintainer. Feature ranking and classification of molecular data based on discriminant analysis methods University of Trento, 2008 (Eng) PDF
- Francesca Maule University of Trento, 2006 (Eng)
- Bettina Irler. Modelli predittivi per la proteomica clinica University of Trento, 2006 (Maths)
- Francesca Gatti. Analisi discriminante penalizzata: applicazione a dati microarray University of Trento, 2005 (Maths)
- Matteo De Angeli. Tecniche di regressione applicate al controllo della qualita’ delle acque marine University of Trento, 2005 (Eng)
- Francesco Cricrì. Algoritmi per la geocodifica automatica di fotogrammetria storica University of Trento, 2005 (Eng)
- Irene Oliani. Metodi algebrici per la bioinformatica: codici ECOC in problemi multiclasse con costi non uniformi University of Trento, 2005 (Maths)
- Irene Andreatta. Un modello geostatistico di impatto del traffico con applicazione all’epidemiologia ambientale University of Trento, 2004 (Maths)
- Ilenia Fronza. Metodi geostatistici per l’epidemiologia ambientale: lo studio SIDRIA2 per la Provincia di Trento University of Trento, 2004 (Maths)
- Ivan Michelazzi. Geocodifica ed elaborazione di immagini oblique per visualizzazione 3D in ambiente GIS University of Trento, 2004 (Eng)
- Samantha Riccadonna. Profili molecolari da serie temporali di espressioni geniche University of Trento, 2003 (Maths)
- Enrico Trainotti. Modelli numerici per la valutazione della tipicità sensoriale University of Trento, 2003 (Maths)
- Mauro Martinelli. Metodi di classificazione automatica basati su tecniche di ensemble per l’individuazione di pattern in immagini aerofotogrammetriche storiche University of Trento, 2003 (Eng)
- Luca Miori. Tecniche automatiche per il raddrizzamento di immagini da remote sensing University of Trento, 2003 (Eng)
- Fabio Morera. Applicazione di un modello per la dispersione dei flussi turistici in un’area protetta: la Val Genova University of Trento, 2002 (Eng)
- Antonella Lunelli. Epidemiologia della rogna sarcoptica nelle popolazioni di camosci: studio della dinamica dell’infezione attraverso modelli matematici e analisi di dati georiferiti University of Trento, 2002 (Maths)
- Maria Serafini. Support Vector Machines per la classificazione e la selezione di espressioni geniche da Microarray University of Trento, 2002 (Maths)
- Marco Olivieri. Tecniche di pattern recognition e remote sensing applicate al monitoraggio di ghiacciai University of Trento, 2002 (Eng)
- Alessio Cantone. Bagging per k nearest neighbour ed applicazione alla classificazione di ortofoto digitali University of Trento, 2002 (Eng)
- Steno Fontanari. Sviluppo di metodologie GIS per la determinazione dell’accessibilità territoriale come supporto alle decisioni nella gestione ambientale University of Trento, 2002 (Eng)
- Michela Calza. Metodologie di classificazione automatica in ambiente GIS per un modello predittivo del rischio da incidente stradale con fauna selvatica University of Trento, 2002 (Eng)
- Beatrice Aiardi. Algoritmi di bump hunting in basi dati multidimensionali University of Trento, 2000 (Maths)
- Elena Vigolo. Metodi di correzione di dati georiferiti con applicazione all’epidemiologia University of Trento, 2000 (Maths)
- Stefano Menegon. Metodologie GIS per la valutazione predittiva dei miglioramenti ambientali su piccola scala University of Trento, 1999 (Eng)
- Angela Donini. Modelli predittivi per la gestione faunistica del capriolo in Trentino University of Trento, 1998 (Maths)
- Sonia Teresi. Misture di Componenti Principali Locali per l’analisi di dati multivariati University of Trento, 1998 (Maths)
Master
- Silvana Sibilia. WebRENDER: Sistema sperimentale di Rendering paesaggistico Master in Tecnologie e Applicazione di Informatica per la Gestione Territoriale, IIASS, 2003
- Annita Dei Tos. Strumenti per la gestione del turismo sostenibile. Master Europeo in Ingegneria Ambientale, University of Turin, 1998
- Paola Coraiola. Metodi software per il monitoraggio del rischio ambientale Master in Tecnologie Avanzate dell’informazione e della telecomunicazione, IIASS, 1997
B. Sc.
- Marco Roncador. A pipeline for metagenomics with next generation sequencing data. University of Trento, 2011
- Antonio Ganarini. Protocolli predittivi per l’identificazione di Biomarker in trascrittomica. University of Trento, 2011 PDF Slides
- Andrea Gobbi. Algebraic and combinatorial techniques for stability algorithms on ranked data. University of Trento, 2008 (Maths) PDF
- Martina Rossi. Studio di algoritmi algebrici per la stabilita’ predittiva di signature molecolari per dati genomici ad alta dimensione. University of Trento, 2008 (Maths) PDF
- Stefano Maragnoli. Algoritmi permutazionali per la sintesi di profili molecolari. University of Trento, 2005 (Maths)
- Alessia Peretti. Indicatori algebrici di stabilità per liste ordinate in diagnostica molecolare. University of Trento, 2005 (Maths)
- Davide Albanese. BioDCV: a distributed computing system for the complete validation of gene profiles. University of Trento, 2005 (Eng) PDF
- Roberto Visintainer. Tecniche di machine learning supervisionato per il controllo di qualità di cDNA microarray. University of Trento, 2004 (Eng)
- Laura Zampa. Tecniche GIS di histogram matching e image blending per la mosaicatura di ortofoto digitali. University of Trento, 2004 (Eng)