Fotia's Publications

Peer-reviewed publications in International Journals

[2-XDB24]

Pervasive structural heterogeneity rewires glioblastoma chromosomes to sustain patient-specific transcriptional programs Ting Xie, Adi Danieli-MacKay, Mariachiara Buccarelli, Mariano Barbieri, Ioanna Papadionysiou, Q. Giorgio D’Alessandris, Claudia Robens, Nadine Übelmesser, Omkar Suhas Vinchure, Liverana Lauretti, Giorgio Fotia, Roland F. Schwarz, Xiaotao Wang, Lucia Ricci-Vitiani, Jay Gopalakrishnan, Roberto Pallini, Argyris Papantonis Nature Communications Springer Nature vol. 15 num. 3905 - may 2024  doi: 10.1038/s41467-024-48053-2

Peer-reviewed publications in International Journals

[2-CCF23]

Next Generation Sequencing for miRNA Detection on the Exhaled Breath Condensate: A Pilot Study Roberto Cherchi, Roberto Cusano, Paolo Albino Ferrari, Matteo Massidda, Giorgio Fotia, Sara De Matteis, Pierluigi Cocco Epigenetics Insights pages 1--7 vol. 16 - april 2023  doi: 10.1177/25168657231160985

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Various talks, works and publications

[2-XD.23]

Extreme structural heterogeneity rewires glioblastoma chromosomes to sustain patient-specific transcriptional programs Ting Xie, Adi Danieli-MacKay, ..., Giorgio Fotia, . ..., Roberto Pallini, Argyris Papantonis BiorXiv submitted to Nature Genetics - april 2023  doi: 10.1101/2023.04.20.537702

Peer-reviewed publications in International Journals

[2-AMF22]

VariantAlert: a web-based tool to notify updates in genetic variant annotations Rossano Atzeni, Matteo Massidda, Giorgio Fotia, Paolo Uva Human Mutation - october 2022  doi: 10.1002/humu.24495

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Various talks, works and publications

[6-AMP22]

Musta: a end-to-end pipeline to detect, classify and interpret mutations in cancer Rossano Atzeni, Matteo Massidda, Enrico Pieroni, Massimo Pisu, Giorgio Fotia Poster - European Human Genetics Conference, ESHG 2022, June 11–14, 2022, Vienna, Austria - june 2022

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[6-AMP22]

A novel affordable and reliable framework for accurate detection and comprehensive analysis of somatic mutations in cancer Rossano Atzeni, Matteo Massidda, Enrico Pieroni, Massimo Pisu, Giorgio Fotia BITS - Annual Meeting of Bioinformatic Italian Society, Verona (Italy) - june 2022

Peer-reviewed publications in national events

[5-SMM21]

Integrazione dei Principi FAIR nel processo di ricerca biomedica: la creazione del Registro della Regione Sardegna Alessandro Sulis, Vittorio Meloni, Cecilia Mascia, Franco Cappai, Caterina G. Carboni, Ernesto D`Aloja, Giorgio Fotia, Giuseppe Serra, Giovanni Sotgiu, Paolo Uva, Francesca Frexia, Gianluigi Zanetti Conferenza GARR 2021 - Sostenibile/Digitale - Selected Papers pages 81-87 - june 2021 isbn: 978-88-946629-0-0  doi: 10.26314/GARR-Conf21-proceedings-17

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Various talks, works and publications

[6-SMM21]

Integrazione dei Principi FAIR nel processo di ricerca biomedica: la creazione del Registro della Regione Sardegna Alessandro Sulis, Vittorio Meloni, Cecilia Mascia, Franco Cappai, Caterina Giorgia Carboni, Ernesto D`Aloja, Giorgio Fotia, Giuseppe Serra, Giovanni Sotgiu, Paolo Uva, Francesca Frexia, Gianluigi Zanetti Selected Papers - Presentation at the Conferenza GARR 2021 - Sostenibile/Digitale - 2021

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[6-MCA21]

Bioinformatic NGS data analysis with solida-core Matteo Massidda, Gianmauro Cuccuru, Rossano Atzeni, Rajesh Pal, Paolo Uva, Giorgio Fotia Poster - - august 2021

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[6-AMF21]

VariantAlert: a free service to notify updates in genetic variant annotations Rossano Atzeni, Matteo Massidda, Giorgio Fotia, Paolo Uva Poster - - august 2021

Various talks, works and publications

[6-CMA19]

solida.core: an open-source and ready-to-use set of bioinformatic analysis pipelines Gianmauro Cuccuru, Matteo Massidda, Rossano Atzeni, Paolo Uva, Giorgio Fotia o BITS 2019 16th Annual Meeting of the Bioinformatics Italian Society June 26-28, 2019, Palermo, Italy - o BITS 2019 16th Annual Meeting of the Bioinformatics Italian Society June 26-28, 2019, Palermo, Italy - 2019

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[6-UAF19]

VariantAlert: A tool to notify updates in genetic variant annotations Paolo Uva, Rossano Atzeni, Giorgio Fotia Poster - Congresso Nazionale SIGU - 2019

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[6-FUF19]

I FAIR the Sardinian way to support and fund Indipendent clinical studies that want to be Findable, Accessible, Interoperable, and Reusable Francesca Frexia, Paolo Uva, Giorgio Fotia, Gianluigi Zanetti, Ernesto D`Aloja, Franco Cappai, Caterina Carboni Abstract - 2019

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[6-CMA19]

solida.core: download, deploy and use an open-source set of bioinformatic analysis pipelines Gianmauro Cuccuru, Matteo Massidda, Rossano Atzeni, Paolo Uva, Giorgio Fotia ISMB/ECCB 2019 Basel, Switzerland July 21 - July 25 - ISMB/ECCB 2019 Basel, Switzerland July 21 - July 25 - july 2019

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[6-ACC19]

PENELOPE: a complete Laboratory Information Management System for Next Generation Sequencing Laboratories Rossano Atzeni, Gianmauro Cuccuru, Roberto Cusano, Paolo Uva, Giorgio Fotia Poster - Poster presentation at BITS 2019 16th Annual Meeting of the Bioinformatics Italian Society June 26-28, 2019, Palermo, Italy - june 2019

Peer-reviewed publications in International Journals

[2-FOT18]

Modelling Practices and Practices of Modelling Giorgio Fotia Historical Social Research GESIS - Leibniz Institute for the Social Sciences pages 147-53 vol. Supplement 31 - 2018  doi: 10.12759/hsr.suppl.31.2018

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[2-AFM18]

BITS 2017: the annual meeting of the Italian Society of Bioinformatics Giuliano Armano, Giorgio Fotia, Andrea Manconi BMC Bioinformatics BMC Springer NatureC pages 352 vol. 19 num. Suppl 10 - october 2018  doi: 10.1186/s12859-018-2295-y

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[2-ACU18]

Novel NALCN biallelic truncating mutations in siblings with IHPRF1 syndrome Andrea Angius, Silvia Cossu, Paolo Uva, Manuela Oppo, Stefano Onano, Ivana Persico, Giorgio Fotia, Rossano Atzeni, Gianmauro Cuccuru, M Asunis, Francesco Cucca, Dario Pruna, Laura Crisponi Clinical Genetics - february 2018  doi: 10.1111/cge.13162

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Peer-reviewed publications in international events

[4-AFM18]

Proceedings of the Italian Society of Bioinformatics (BITS) Annual Meeting 2017 Giuliano Armano, Giorgio Fotia, Andrea Manconi BMC Bioinformatics vol. 19 num. Suppl 10 BMC Springer Nature - october 2018

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Various talks, works and publications

[6-CPA18]

SOLIDA: a simple bootstrapper for Next Generation bioinformatics pipelines Gianmauro Cuccuru, Maurizio Polano, Rossano Atzeni, Paolo Uva, Giorgio Fotia Poster presentation at BITS, Torino, 2018 - 2018

Various talks, works and publications

[6-FOT17]

Biosciences @ CRS4 Giorgio Fotia Oral presentation at the Giornata introduttiva della quinta edizione del Contamination Lab 2017, 26 November 2017 - november 2017

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[6-ACL17]

Integration, processing, and data analysis in the operational support of a large scale NGS core facility Rossano Atzeni, Gianmauro Cuccuru, Luca Lianas, Ricardo Medda, Luca Pireddu, Paolo Uva, Ilenia Zara, Gianluigi Zanetti, Giorgio Fotia Poster presentation at 14th Annual Meeting of the Bioinformatics Italian Society, July 5-7, 2017, Cagliari - july 2017

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[6-DOA17]

The impact of an in-house Italian exome database for variant prioritization Elena Diaconu, Stefano Onano, Rossano Atzeni, Carla Cossu, Gianmauro Cuccuru, Roberto Cusano, Manuela Oppo, Ilenia Zara, Andrea Angius, Laura Crisponi, Giorgio Fotia, Paolo Uva Oral presentation at 14th Annual Meeting of the Bioinformatics Italian Society, July 5-7, 2017, Cagliari - july 2017

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[6-UCA17]

Impact of sample size in variant identification from exome sequencing data Paolo Uva, Gianmauro Cuccuru, Rossano Atzeni, Gianluigi Zanetti, Giorgio Fotia Poster presentation at 14th Annual Meeting of the Bioinformatics Italian Society, July 5-7, 2017, Cagliari - july 2017

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[6-ZMO17]

A tool suite for CNV analysis from whole exome sequencing data in Galaxy Barbara Zonnedda, Ricardo Medda, Stefano Onano, Rossano Atzeni, Gianmauro Cuccuru, Giorgio Fotia, Paolo Uva Poster presentation at 14th Annual Meeting of the Bioinformatics Italian Society, July 5-7, 2017, Cagliari - july 2017

Books and Book Chapters

[1-OCU16]

Data Mining Techniques for the Life Sciences Massimiliano Orsini, Gianmauro Cuccuru, Paolo Uva, Giorgio Fotia Springer, chap. Bacterial Genomic Data Analysis in the Next-Generation Sequencing Era, pages 407--422 Methods in Molecular Biology vol. 1415 - april 2016

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Peer-reviewed publications in International Journals

[2-MDM16]

Novel action of FOXL2 as mediator of Col1a2 gene autoregulation Mara Marongiu, Manila Deiana, Loredana Marcia, Andrea Sbardellati, Isadora Asunis, Alessandra Meloni, Andrea Angius, Roberto Cusano, Angela Loi, Francesca Crobu, Giorgio Fotia, Francesco Cucca, David Schlessinger, Laura Crisponi Developmental Biology pages 200-211 vol. 416 num. 1 - 2016  doi: 10.1016/j.ydbio.2016.05.022

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[2-AUB16]

Bi-allelic Mutations in KLHL7 Cause a Crisponi/CISS1-like Phenotype Associated with Early-Onset Retinitis Pigmentosa Andrea Angius, Paolo Uva, I Buers, Manuela Oppo, Alessandro Puddu, Stefano Onano, Ivana Persico, Angela Loi, Loredana Marcia, Wolfgang Höhne, Gianmauro Cuccuru, Giorgio Fotia, ..., G Zampino, Giangiorgio Crisponi, Laura Crisponi, Frank Rutsch American Journal of Human Genetics pages 236-245 vol. 99 num. 1 - july 2016  doi: 10.1016/j.ajhg.2016.05.026

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[2-FOT16]

Editor’s Note Giorgio Fotia Communications in Applied and Industrial Mathematics De Gruyter pages 1--3 vol. 7 num. 2 - may 2016 issn: 2038-0909  doi: 10.1515/caim-2016-0001

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[2-FOT16]

A note from the Editor Giorgio Fotia Communications in Applied and Industrial Mathematics De Gruyter pages 1--3 vol. 7 num. 1 - may 2016 issn: 2038-0909  doi: 10.1515/caim-2016-0015

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Various talks, works and publications

[6-CAU16]

Mutations in KLHL7, a Dominant Retinitis Pigmentosa - Locus, Cause a Recessive Crisponi/CISS1-like phenotype Laura Crisponi, Andrea Angius, Paolo Uva, ..., Gianmauro Cuccuru, Giorgio Fotia, . ... Poster presentation at XIX Congresso Nazionale SIGU, 23-16 Novembre 2016 - 2016

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[6-UDO16]

The importance of an Italian exome database for the study of rare diseases Paolo Uva, Elena Diaconu, Stefano Onano, Rossano Atzeni, Carla Cossu, Gianmauro Cuccuru, Roberto Cusano, Manuela Oppo, Ilenia Zara, Andrea Angius, Laura Crisponi, Giorgio Fotia Oral presentation at XIX Congresso Nazionale SIGU, 23-16 Novembre 2016 - 2016 - 2016

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[6-CAL16]

A robust and extensible framework for tracking biodata provenance, analysis workflows and results Gianmauro Cuccuru, Rossano Atzeni, Luca Lianas, Ricardo Medda, Luca Pireddu, Paolo Uva, Ilenia Zara, Gianluigi Zanetti, Giorgio Fotia Poster presentation at Nettab, October 2016, Rome - october 2016

Peer-reviewed publications in International Journals

[2-CFM15]

Simulating Cardiac Electrophysiology Using Unstructured All-Hexahedra Spectral Elements Gianmauro Cuccuru, Giorgio Fotia, Fabio Maggio, James Southern Biomed Research International, Special Issue on Simulation of Heart Function, Guest Editors: Rodrigo W. dos Santos, Sergio Alonso, Elizabeth M. Cherry, Joakim Sundnes Hindawi Publishing Corporation vol. 2015 - october 2015  doi: 10.1155/2015/473279

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Various talks, works and publications

[6-CUO15]

Exploiting a large scale biodata management system to support NGS variant detection studies Gianmauro Cuccuru, Paolo Uva, Stefano Onano, Rossano Atzeni, Simone Leo, Luca Lianas, Manuela Oppo, Luca Pireddu, Andrea Angius, Laura Crisponi, Gianluigi Zanetti, Giorgio Fotia Poster presentation at ISMB/ECCB, 10-14 July 2015, Dublin - 2015

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[6-CLL15]

Combining enabling technologies to build the largest NGS core facility in Italy Gianmauro Cuccuru, Simone Leo, Luca Lianas, Massimiliano Orsini, Luca Pireddu, Andrea Sbardellati, Rossano Atzeni, Roberto Cusano, Manuela Oppo, Paolo Uva, Andrea Angius, Gianluigi Zanetti, Giorgio Fotia Invited presentation to Biodata World Congress 2015, Hinxton, Cambridge, UK - 21-22 October - 2015 - 2015

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[6-UPO15]

Identification of novel gene(s) associated with Crisponi/cold induced sweating syndrome-like phenotype by whole-exome sequencing Paolo Uva, Alessandro Puddu, Manuela Oppo, Stefano Onano, Loredana Marcia, Manila Deiana, Angela Loi, Mara Marongiu, Gianmauro Cuccuru, Giorgio Fotia, Frank Rutsch, Francesco Cucca, Giangiorgio Crisponi, Andrea Angius, Laura Crisponi Poster presentation at Telethon Convention, Riva del Garda, March 9-11, 2015 - march 2015

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[6-CAF15]

A Galaxy based infrastructure Gianmauro Cuccuru, Rossano Atzeni, Giorgio Fotia, Paolo Uva, Gianluigi Zanetti Oral presentation at ELIXIR All hands meeting - Hinxton - march 2015

Peer-reviewed publications in International Journals

[2-COP14]

Orione, a web-based framework for NGS analysis in microbiology Gianmauro Cuccuru, Massimiliano Orsini, Andrea Pinna, Andrea Sbardellati, Nicola Soranzo, Antonella Travaglione, Paolo Uva, Gianluigi Zanetti, Giorgio Fotia Bioinformatics Oxford University Press pages 1928-1929 vol. 30 num. 13 - 2014  doi: 10.1093/bioinformatics/btu135

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Peer-reviewed publications in international events

[4-CLL14]

An Automated Infrastructure to Support High-throughput Bioinformatics Gianmauro Cuccuru, Simone Leo, Luca Lianas, Michele Muggiri, Andrea Pinna, Luca Pireddu, Paolo Uva, Andrea Angius, Giorgio Fotia, Gianluigi Zanetti Proc. IEEE International Conference on High Performance Computing & Simulation (HPCS 2014) IEEE pages 600-607 Smari, Waleed W. and Zeljkovic, Vesna Eds. - july 2014 isbn: 978-1-4799-5313-4  doi: 10.1109/HPCSim.2014.6903742

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Various talks, works and publications

[6-SOF14]

Controllo biologico di Tuta absoluta: primi risultati di uno studio per la messa a punto di un modello per la valutazione dell’azione di due antagonisti naturali Silvia Sau, Massimiliano Orsini, Giorgio Fotia, Mauro Nannini Poster presentation at the XXIV Congresso Nazionale Italiano di Entomologia, Orosei(NU), 9-14 Giugno - 2014

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[6-COU14]

Unravelling the genetic causes of syndromic intellectual disability in the era of exome sequencing Laura Crisponi, Manuela Oppo, Paolo Uva, Stefano Onano, Alessandro Puddu, Gianmauro Cuccuru, Giorgio Fotia, Ilenia Zara, Frederic Reinier, Riccardo Berutti, Rossano Atzeni, Maria Valentini, Christopher M. S. Jones, Serena Sanna, Alessia Loi, V Dessi, Chiara Perria, Valentina Pes, Gigliola Serra, Stefano Sotgiu, Andrea Angius, Francesco Cucca Poster presentation at Convegno Nazionale Società Italiana di Genetica Umana SIGU, Il Sequenziamento di Nuova Generazione in Genetica Umana e Medica, Bologna, October 30-31, 2014 - 2014

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[6-CUO14]

Identification of novel gene(s) associated with Crisponi/cold induced sweating syndrome-like phenotype by whole-exome sequencing Laura Crisponi, Paolo Uva, Stefano Onano, Manuela Oppo, Alessandro Puddu, Gianmauro Cuccuru, Giorgio Fotia, Frank Rutsch, Francesco Cucca, Giangiorgio Crisponi, Andrea Angius Poster presentation at Convegno Nazionale Società Italiana di Genetica Umana SIGU, Il Sequenziamento di Nuova Generazione in Genetica Umana e Medica, Bologna, October 30-31, 2014 - 2014

Peer-reviewed publications in International Journals

[2-PCL13]

Automated and traceable processing for large-scale high-throughput sequencing facilities Luca Pireddu, Gianmauro Cuccuru, Luca Lianas, Matteo Vocale, Giorgio Fotia, Gianluigi Zanetti EMBnet.journal pages 23--24 vol. 19 Supplement A - june 2013 issn: 2226-6089  doi: 10.14806/ej.19.A.626

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Peer-reviewed publications in international events

[4-CFM13]

Reproducible and automated processing in high-throughput NGS facilities Gianmauro Cuccuru, Giorgio Fotia, Josh Moore, Luca Lianas, Luca Pireddu, Jason R. Swedlow, Gianluigi Zanetti Contributed presentation at the Galaxy Community Conference 2013, Oslo,Norway - 30 June, 2 July - 201 - 2013

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[4-CFL13]

Scalability, Reproducibility and Traceability in Large Scale NGS Facilities Gianmauro Cuccuru, Giorgio Fotia, Simone Leo, Luca Lianas, Massimiliano Orsini, Andrea Pinna, Luca Pireddu, Andrea Sbardellati, Nicola Soranzo, Paolo Uva, Gianluigi Zanetti Contributed presentation to Clinical Genomics & Informatics Europe, Lisbon, Portugal - 4, 6 December - 2013

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Various talks, works and publications

[6-COS13]

Engaging Galaxy in Microbiology Gianmauro Cuccuru, Massimiliano Orsini, Nicola Soranzo, Andrea Pinna, Andrea Sbardellati, Antonella Travaglione, Paolo Uva, Gianluigi Zanetti, Giorgio Fotia Poster presentation at the Galaxy Community Conference 2013, Oslo,Norway - 30 June, 2 July - 2013

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[6-SOC13]

Microbiome profiling on a Galaxy-based framework for Microbiology Nicola Soranzo, Stefano Onano, Gianmauro Cuccuru, Massimiliano Orsini, Andrea Pinna, Andrea Sbardellati, Paolo Uva, Giorgio Fotia Poster presentation at the Galaxy Community Conference 2013, Oslo,Norway - 30 June, 2 July - 2013

Peer-reviewed publications in international events

[4-CFM12]

Simulating human cardial electrophysiology with unstructured all-hexahedral spectral elements Gianmauro Cuccuru, Giorgio Fotia, Fabio Maggio Contributed presentation to the Minisymposium on Mathematical Modeling in Biomedicine, SIMAI 2012 International Conference on Applied and Industrial Mathematics, Torino (Italy), June 25 - 28 - 2012

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Various talks, works and publications

[6-CFM12]

Simulation of human cardiac electrophysiology with unstructured all-hexahedral spectral elements Gianmauro Cuccuru, Giorgio Fotia, Fabio Maggio Poster presentation at the 2012 International CAE conference, October 22-23, Lazise (VR), Italy - 2012

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[6-SMM12]

Genome-wide in vivo identification of mouse Foxl2 binding sites from ChIP-seq data. Andrea Sbardellati, Mara Marongiu, Alessandra Meloni, Loredana Marcia, Roberto Cusano, Andrea Angius, Giorgio Fotia, Laura Crisponi Poster presentation (A12) at ECCB'12 - the European Conference on Computational Biology 9-12 September 2012 Basel, Switzerland. - 2012

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[6-MSM12]

Genome-wide ChIP-seq analysis to identify mouse Foxl2 binding sites in vivo. Mara Marongiu, Andrea Sbardellati, Loredana Marcia, Alessandra Meloni, Roberto Cusano, Andrea Angius, Giorgio Fotia, Francesco Cucca, Laura Crisponi Poster presentation (823F) at ASHG 2012, San Francisco, USA, November 06-10. - 2012

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[6-CFM12]

Elettrocardiologia computazionale: modellistica e simulazione Gianmauro Cuccuru, Giorgio Fotia, Fabio Maggio Contributed presentation to "Due Giornate di Matematica Applicata" Workshop, 16-17 October, 2012, Dipartimento di Matematica e Informatica dell'Università degli Studi di Cagliari, Cagliari, (Italy) - october 2012

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Contractual reports

[7-OCU12]

A course in Next Generation Sequencing data analysis using Galaxy Massimiliano Orsini, Gianmauro Cuccuru, Paolo Uva, Vincenzo De Leo, Andrea Pinna, Andrea Sbardellati, Nicola Soranzo, Antonella Travaglione, Giorgio Fotia CRS4 Course and praticals material, IZS G. Caporale, Teramo - november 2012

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[7-CDO12]

Case Studies in Bioinformatics Gianmauro Cuccuru, Alberto de la Fuente, Massimiliano Orsini, Antonella Travaglione, Paolo Uva, Giorgio Fotia CRS4 Course and practical session, Master in Bioinformatica, Università di Cagliari, 2012 - october 2012

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[7-FM12]

Sistemi automatici di diagnostica per immagini in ricerca e nella pratica clinica: stato dell'arte e prospettive di sviluppo. Giorgio Fotia, Elisabetta Marras PAPCAD 2.0 num. R.1.3 Technical report - february 2012

Peer-reviewed publications in International Journals

[2-FOT11]

Editorial introduction to vol. 1 no 2 Giorgio Fotia Communications in Applied and Industrial Mathematics pages e-667 vol. 1 num. 2 - 2011 issn: 2038-0909  doi: 10.1685/2010CAIM667

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[2-CCF11]

Preface to Vol. 2, No 1 Antonio Cazzani, Alessandro Chessa, Giorgio Fotia Communications in Applied and Industrial Mathematics pages e-391 vol. 2 num. 1 - 2011 issn: 2038-0909  doi: 10.1685/journal.caim.391

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Peer-reviewed publications in international events

[4-CFM11]

High-performance spectral-element simulation of cardiac electrical function using GPUs Gianmauro Cuccuru, Giorgio Fotia, Fabio Maggio Proceedings of SC2011, International Conference on Scientific Computing, S. Margherita di Pula, Cagliari, Italy October 10-14, 2011 - 2011

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Contractual reports

[7-CFM11]

CardioELSE version 1.1 user manual Gianmauro Cuccuru, Giorgio Fotia, Fabio Maggio CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 11/08 techreport - may 2011

Peer-reviewed publications in International Journals

[2-FIN10]

Inaugural issue editorial: Communications in Applied and Industrial Mathematics Giorgio Fotia, Alessandro Iafrati, Roberto Natalini, Luigia Puccio Communications in Applied and Industrial Mathematics vol. 1 num. 1 - 2010 issn: 2038-0909  doi: 10.1685/2010CAIM508

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Peer-reviewed publications in international events

[4-MSF10]

A 3D Spectral Element Solver for the Bidomain Equations Fabio Maggio, James Southern, Giorgio Fotia, Gianmauro Cuccuru Proc. of the 1st Virtual Physiological Human Conference - VPH2010, 30 September - 1 October 2010 Brussels, Belgium pages 360--362 - july 2010

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Contractual reports

[7-BCC10]

Requirements and technology assessment Miguel Bernabeu, Jonathan Cooper, Gianmauro Cuccuru, Katherine Fletcher, Giorgio Fotia, Fabio Maggio, Ross Nobes, James Southern, Geoff Williams Deliverable D5.2 EU Project PREDICT (ICT-2007-2-224381) techreport - november 2010

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[7-DFF10]

VRE documentation manual Jean-jacques Descombe, Katherine Fletcher, Giorgio Fotia, Geoff Williams Deliverable D2.3 EU Project PREDICT (ICT-2007-2-224381) techreport - february 2010

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[7-FFM10]

Description of models Katherine Fletcher, Giorgio Fotia, Fabio Maggio, Gary Mirams, Blanca Roriguez, Anna Sher, Beatriz Trevor Deliverable D2.1 EU Project PREDICT (ICT-2007-2-224381) techreport - february 2010

Peer-reviewed publications in International Journals

[2-BCF09]

Simulation of cardiac electrophysiology on next-generation high-performance computers R Bardas, Bruno Carpentieri, Giorgio Fotia, Fabio Maggio, Ross Nobes, Pitt-Francis J, James Southern Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences The Royal Society pages 1951-1969 vol. 367 num. 1895 - 2009  doi: 10.1098/rsta.2008.0298

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[2-AFF09]

Finite element simulations of laser refractive corneal surgery Pandolfi Anna, Giorgio Fotia, Manganiello Federico Engineering with Computers Springer-Verlag pages 15-24 vol. 25 num. 1 - 2009  doi: 10.1007/s00366-008-0102-5

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[2-DFP09]

Preface to Vol. 3 (2009) Enrico De Bernardis, Giorgio Fotia, Luigia Puccio Communications to SIMAI Congress pages 344.1--344.2 vol. 3 - july 2009 issn: 1827-9015  doi: 10.1685/CSC09344

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[2-SMP09]

Inferring gene networks: dream or nightmare? Part 2: challenges 4 and 5 Alan Louis Scheinine, Wieslawa Mentzen, Enrico Pieroni, Giorgio Fotia, Fabio Maggio, Gianmaria Mancosu, Alberto de la Fuente Annals of the New York Academy of Sciences pages 287-301 vol. 1158 - march 2009  doi: 10.1111/j.1749-6632.2008.04100.x

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Peer-reviewed publications in international events

[4-DFP09]

SIMAI 2008: Proceedings of the 9th Congress of SIMAI, the Italian Society of Industrial and Applied Mathematics, Roma (Italy), September 15-19, 2008 Enrico De Bernardis, Giorgio Fotia, Luigia Puccio Communications to SIMAI Congress, Volume 3 (2009) - july 2009

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Contractual reports

[7-MCF09]

Spectral elements applied to cardiac simulation: a comparison with finite elements Fabio Maggio, Bruno Carpentieri, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 09/51 techreport - september 2009

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[7-FCM09]

Parallel adaptive mesh frameworks to support unstructured cardiac simulations Giorgio Fotia, Bruno Carpentieri, Fabio Maggio CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 09/49 techreport - september 2009

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[7-NSC09]

Adaptive numerical algorithms for cardiac modelling Ross Nobes, James Southern, Bruno Carpentieri, Giorgio Fotia, Fabio Maggio Deliverable 5.4 EU Project PREDICT (ICT-2007-2-224381) techreport - september 2009

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[7-MCF09]

A 3D Solver for the Bidomain Equations Based on Unstructured All-hexahedra Spectral Elements Fabio Maggio, Bruno Carpentieri, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 09/50 techreport - august 2009

Peer-reviewed publications in International Journals

[2-DFM08]

Insights into biological information processing: structural and dynamical analysis of a human protein signalling network Alberto de la Fuente, Giorgio Fotia, Fabio Maggio, Gianmaria Mancosu, Enrico Pieroni Journal of Physics A: Mathematical and Theoretical pages 224013 vol. 41 num. 22 - 2008  doi: 10.1088/1751-8113/41/22/224013

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Peer-reviewed publications in international events

[4-AFF08]

Numerical evaluation of the mechanical response to laser refractive corneal surgery Pandolfi Anna, Giorgio Fotia, Manganiello Federico Contributed presentation at the Minisimposium on Computational Methods in Virtual and Computer Planned Surgery, 8th World Congress on Computational Mechanics (WCCM8), June 30 –July 5, 2008 Venice, Italy B.A. Schrefler (Ed.) - 2008

Books and Book Chapters

[1-VFP07]

Applied mathematics in italy II Cutello Vincenzo, Giorgio Fotia, Luigia Puccio World Scientific, Singapore Series on Advances in Mathematics for Applied Sciences vol. 75 - may 2007 issn: ISBN-13 978-981-270-938-7

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Peer-reviewed publications in international events

[4-FM07]

Bridging the Gap between Text and Practices of Knowledge: Multiple Paths Open Landscapes Giorgio Fotia, Cristina Marras Contributed presentation at the 30th International Wittgenstein Symposium: Philosophy of the Information Society, 5-11 agosto 2007, Kirchberg am Wechsel, Germany - 2007

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Various talks, works and publications

[6-MFP07]

A web of genes: inference and structural analysis of a yeast gene network Gianmaria Mancosu, Giorgio Fotia, Enrico Pieroni, Fabio Maggio, Alberto de la Fuente Poster presented at COMPLEX NETWORKS, from Biology to Information Technology Conference, July 2-6 2007 Pula (Italy) - 2007

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[6-BSM07]

A set of approaches to infer gene networks A. Battaglia, Alan Louis Scheinine, Fabio Maggio, Giorgio Fotia, Wieslawa Mentzen, Alberto de la Fuente Poster presented at the DREAM2 Conference -- New York Academy of Science, New York, NY (USA) - december 2007

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[6-MFP07]

Inference and structural analysis of a yeast gene network Gianmaria Mancosu, Giorgio Fotia, Enrico Pieroni, Fabio Maggio, Alberto de la Fuente Poster presented at the 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB) - july 2007

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[6-MPF07]

Dynamics on `signed motifs' in a yeast gene network Fabio Maggio, Enrico Pieroni, Giorgio Fotia, Gianmaria Mancosu, Alberto de la Fuente Poster presented at STATPHYS23 -- COMPLEX NETWORKS, from Biology to Information Technology -- Pula (Italy) - july 2007

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[6-MFM07]

Dynamics on `signed motifs' in a yeast gene network Fabio Maggio, Giorgio Fotia, Gianmaria Mancosu, Enrico Pieroni, Alberto de la Fuente Poster presented at 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), Vienna (Austria) - july 2007

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Contractual reports

[7-PFM07]

Finite element simulations of laser refractive corneal surgery A. Pandolfi, Giorgio Fotia, F. Manganiello CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 07/02 techreport - february 2007

Peer-reviewed publications in international events

[4-FAF06]

Simulations of refractive surgery procedures on human corneas Manganiello Federico, Pandolfi Anna, Giorgio Fotia Contributed presentation at the Minisymposium on Computational Bioengineering, 7th World Congress on Computational Mechanics, July 16-22, 2006, Los Angeles, CA, USA - 2006

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Contractual reports

[7-AFF06]

Numerical prediction of laser refractive corneal surgery Pandolfi Anna, Giorgio Fotia, Manganiello Federico CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy} num. 06/25 Technical report - april 2006

Peer-reviewed publications in international events

[4-FAF05]

Characterization and modeling of the mechanical response of the human cornea to refractive surgery Manganiello Federico, Pandolfi Anna, Giorgio Fotia Contributed presentation at the First International Conference on Mechanics of Biomaterials \& Tissues, December 11-14, 2005, Waikoloa, USA - 2005

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[4-FMP05]

A micromechanical material model for the numerical simulation of the human cornea Giorgio Fotia, F. Manganiello, A. Pandolfi Proceedings Of The 17th AIMeTA Congress Of Theoretical And Applied Mechanics Firenze University Press Atti pages 181 num. 19 C. Borri and and L. Facchini and and G. Federici and M. Primicerio Conference held in Firenze, Italy, 11-15 September 2005 - 2005

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[4-FMP05]

A micromechanical material model for the numerical simulation of the degenerated human cornea Giorgio Fotia, F. Manganiello, A. Pandolfi Proceedings Of The MRS Spring Meeting 2005 Materials Research Society Symposium Series pages 327 vol. 874E P. Fratzl and R. Wang and W. J. Landis and F. H. Silver Materials Research Society, Warrendale, PA, USA San Francisco, CA, USA - march 2005

Peer-reviewed publications in international events

[4-FA04]

Challenges in finite element modeling of biological soft tissues: towards a micromechanical model of the human cornea Giorgio Fotia, Pandolfi Anna Invited presentation to the Minisymposium on Computational Biomechanics, 22nd CADFEM International Congress on FEM Technology, Dresden, Germany, November 10-12, 2004 - 2004

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[4-FA04]

Challenges in finite element modeling of biological soft tissues: towards a micromechanical model of the human cornea Giorgio Fotia, Pandolfi Anna Invited presentation to the Minisymposium on Computational Biomechanics (invited), 22nd CADFEM International Congress on FEM Technology, Dresden, Germany, November 10-12, 2004 - 2004

Peer-reviewed publications in International Journals

[2-CFG03]

A mortar spectral/finite element method for complex 2d and 3d elastodynamic problems F. Casadei, Giorgio Fotia, E. Gabellini, Fabio Maggio, Alfio Quarteroni Computer methods in applied mechanics and engineering pages 5119--5148 vol. 191 - 2003

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Various talks, works and publications

[6-FOT03]

Computational mechanics at CRS4 and applications to large scale simulations of industrial relevance Giorgio Fotia Invited presentation to the Workshop on Case studies in Industrial Mathematics, 19-20 December 2003, Scuola Normale Superiore di Pisa, Pisa (Italy) - december 2003

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Internal reports

[8-FFM03]

Simulazione numerica della chirurgia della cornea: una review dello stato dell'arte A. Ferrara, Giorgio Fotia, Fabio Maggio, Giuliana Siddi - 2003

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[8-FF03]

Modelli meccanici per il planning chirurgico - indagine preliminare per la simulazione della cheratotomia radiale A. Ferrara, Giorgio Fotia - 2003

Contractual reports

[7-WF02]

A positive spatial advection scheme on unstructured meshes for tracer transport P. Wilders, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 02/19 techreport - 2002

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[7-FGL02]

Numerical tools for advanced ship design Giorgio Fotia, G. Graziani, M. Landrini CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 02/51 techreport - 2002

Contractual reports

[7-BFM01]

Simulation of the elastic wave propagation induced by the PS beam into the TOF target at CERN Stefano Buono, Giorgio Fotia, Fabio Maggio, Luca Massidda CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 01/57 techreport - 2001

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[7-SF01]

Implementazione numerica di tecniche arbitrary lagrangian eulerian Giuliana Siddi, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 01/07 techreport - 2001

Contractual reports

[7-FMS00]

Numerical prediction of sloshing loads in flexible tanks Giorgio Fotia, Luca Massidda, Giuliana Siddi CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/73 techreport - 2000

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[7-FMS00]

Computational modeling of sloshing in flexible tanks: II. development and application of a numerical model for the time domain analysis of two dimensional problems. (first version) Giorgio Fotia, Luca Massidda, Giuliana Siddi CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/15 techreport - 2000

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[7-ABF00]

A beam window target design with independent cooling for the EADF Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/85 techreport - 2000

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[7-CFG00]

Time domain analysis of ship motion and wave loads by boundary integral equations A. Colagrossi, Giorgio Fotia, G. Graziani, M. Landrini CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/13 techreport - 2000

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[7-MF00]

Progetto 242 compositi carbonio-carbonio per la camera di fissione del motore Luca Massidda, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy techreport - 2000

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[7-MF00]

Progetto 242, sviluppo di un modello numerico preliminaredella struttura della camera di fissione Luca Massidda, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/66 techreport - 2000

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[7-ABF00]

A thermal fluid-dynamic steady state analysis of the EADF downcomer channel Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/07 techreport - 2000

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[7-FOT00]

Computational fluid-structure interaction: a state-of-the-art review Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/77 techreport - 2000

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[7-ABF00]

CFD simulation of a heated round jet of sodium in forced flow regime (TEFLU benchmark) Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/86 techreport - 2000

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[7-FLM00]

Fluid-solid interaction modeling for sloshing flows in flexible tanks Giorgio Fotia, M. Landrini, Luca Massidda, Giuliana Siddi CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/92 techreport - 2000

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[7-LCG00]

Confronto di solutori FEM e solutori BEM per lo sloshing in contenitori I. Lodes, G. Colicchio, G. Graziani, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/91 techreport - 2000

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[7-ABF00]

A thermal fluid-dynamic transient analysis of the EADF down-comer channel Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/84 techreport - 2000

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[7-MF00]

Utilizzazione dei materiali compositi carbonio-carbonio per il progetto 242 Luca Massidda, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy techreport - 2000

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[7-SDL00]

Industrial demonstration of advanced algorithms for aerodynamic simulation on unstructured grids H. Deconinck K. Sermeus, A. Dervieux, S. Lanteri, G. Carte, P. Leyl, Y. Savoy, Luca Formaggia, Giorgio Fotia, Fabio Maggio, H. Rieger, A. Eberle, E. van der Weide, M. Mallet, G. Rogé, V. Selmin CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/75 techreport - 2000

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[7-FOT00]

Computational modeling of sloshing in flexible tanks: I. assesment of numerical models for fluid-structure interaction problems. (first version) Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/14 techreport - 2000

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[7-FZ00]

Immersed boundary methods for fluid--structure interaction in biological flows Giorgio Fotia, Gianluigi Zanetti CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/78 techreport - 2000

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[7-CFG00]

A hybrid spectral-element/finite-element method for wave propagation and soil-structure interaction F. Casadei, Giorgio Fotia, E. Gabellini, Fabio Maggio, Alfio Quarteroni CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/21 techreport - 2000

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[7-MF00]

Progetto 242, analisi delle sollecitazioni di un modulo della camera di fissione Luca Massidda, Giorgio Fotia CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/65 techreport - 2000

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[7-ABF00]

A heat exchanger design for the separated window target of the EADF Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/08 techreport - 2000

Contractual reports

[7-BBF99]

Numerical methodologies for the simulation of liquid metal flows Valter Bellucci, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/13 techreport - 1999

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[7-AMB99]

STRUCTURAL RESPONSE OF THE EADF TARGET BEAM WINDOW TO BEAM INTERRUPTIONS: TRANSIENT THERMO-MECHANICAL COMPUTATIONS Cosimo Aragonese, Luca Maciocco, Valter Bellucci, Stefano Buono, Giorgio Fotia, Vincent Moreau, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy techreport - 1999

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[7-FL99]

Fluid-structure coupling for sloshing in flexible tanks Giorgio Fotia, M. Landrini CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/5 techreport - 1999

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[7-MBB99]

THERMO-MECHANICAL STRESSES ON THE BEAM WINDOW Luca Maciocco, Valter Bellucci, Stefano Buono, Giorgio Fotia, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/51 techreport - 1999

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[7-BBF99]

Integration of numerical tools for the combined thermal-hydraulics and structural analysis of energy amplifier components Valter Bellucci, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/14 techreport - 1999

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[7-MBB99]

NUMERICAL STUDIES RELATED TO THE DESIGN OF THE BEAM TARGET OF THE ENERGY AMPLIFIER PROTOTYPE Luca Maciocco, Valter Bellucci, Stefano Buono, Giorgio Fotia, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/50 techreport - 1999

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[7-ABF99]

Benchmark calculations of mercury flow experiments performed in riga for the ESS target design Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/21 techreport - 1999

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[7-CFM99]

Seismic wave simulation for complex applications using a hybrid higher order method F. Casadei, Giorgio Fotia, Fabio Maggio, Alfio Quarteroni, J. Sabadell CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/04 techreport - 1999

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[7-BBF99]

Phenomenology of liquid metal thermal-hydraulics Valter Bellucci, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/12 techreport - 1999

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[7-ABF99]

Review and application of free surface flow models in commercial codes Cosimo Aragonese, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 99/20 techreport - 1999

Contractual reports

[7-MBB98]

Design and optimisation of a liquid metal spallation target for the energy amplifier prototype Luca Maciocco, Valter Bellucci, Stefano Buono, Giorgio Fotia, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 98/51 techreport - 1998

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[7-BBF98]

Thermalhydraulic design of the fuel element of the energy amplifier prototype Valter Bellucci, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 98/37 techreport - 1998

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[7-MBB98]

DESIGN AND OPTIMISATION OF A LIQUID SPALLATION TARGET FOR THE ENERGY AMPLIFIER PROTOTYPE Luca Maciocco, Valter Bellucci, Stefano Buono, Giorgio Fotia, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 00/49 techreport - 1998

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[7-BBF98]

Requirements of the beam target of the energy amplifier prototype Valter Bellucci, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 98/38 techreport - 1998

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[7-BBF98]

Preliminary sizing of the window-type target of the energy amplifier prototype Valter Bellucci, Stefano Buono, Giorgio Fotia, Luca Maciocco, Vincent Moreau, Marco Mulas, Giuliana Siddi, Luca Sorrentino CRS4, Center for Advanced Studies, Research and Development in Sardinia Cagliari, Italy num. 98/36 techreport - 1998

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