Publications CRS4 - Equipe SCA

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Publications en 2015

Various talks, works and publications

[2-BCZ15]

Quality assessment for different haplotyping methods and GWAS sensitivity to phasing errors

Giovanni Busonera, Marco Cogoni, Gianluigi Zanetti

bioRxiv Cold Spring Harbor Labs Journals pages 015669 - 2015

[2-BCZ15]

Transition to congestion in communication/computation networks via Montecarlo simulations: from optimal resource allocation to real-world routing algorithms

Giovanni Busonera, Marco Cogoni, Gianluigi Zanetti

Arxiv Cornell University Library - 2015

Contractual reports

[7-BC15]

Infrastruttura software scalabile per l’analisi di log di processi industriali complessi. Caso di studio 1: log automazione

Giovanni Busonera, Marco Cogoni

CRS4 - 2015

Publications en 2014

Peer-reviewed publications in International Journals

[2-LPC14]

BioBlend.objects: metacomputing with Galaxy

Simone Leo, Luca Pireddu, Gianmauro Cuccuru, Luca Lianas, Nicola Soranzo, Enis Afgan, Gianluigi Zanetti

Bioinformatics Oxford University Press pages 2816-2817 vol. 30 num. 19 - 2014 doi: 10.1093/bioinformatics/btu386

[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

[2-CBA14]

Critical phenomena in communication/computation networks with different topologies and optimal resources allocation

Marco Cogoni, Giovanni Busonera, Paolo Anedda, Gianluigi Zanetti

Journal of Physics: Conference Series (JPCS) IOP - 2014

[2-LTM14]

The burden of comorbid psychiatric disorders in worsening the quality of life in multiple sclerosis patients

L Lorefice, G Trincas, MF Moro, G Fenu, G Coghe, Jessica Frau, A Picardi, Giovanni Busonera, MG Carta, Eleonora Cocco, Maria Giovanna Marrosu

Joint ACTRIMS-ECTRIMS Meeting (MSBoston 2014) MS Journal Online: Poster Session 1. Multiple Sclerosis (Houndmills, Basingstoke, England). SAGE pages 153 vol. 20 num. 1 - 2014 doi: 10.1177/1352458514546077

[2-CLB14]

VISPA: a computational pipeline for the identification and analysis of genomic vector integration sites

Andrea Calabria, Simone Leo, Fabrizio Benedicenti, Daniela Cesana, Giulio Spinozzi, Massimiliano Orsini, Stefania Merella, Elia Stupka, Gianluigi Zanetti, Eugenio Montini

Genome Medicine BioMed Central vol. 6 num. 9 - september 2014 doi: 10.1186/s13073-014-0067-5

Peer-reviewed publications in international events

[4-PLS14]

A Hadoop-Galaxy adapter for user-friendly and scalable data-intensive bioinformatics in Galaxy

Luca Pireddu, Simone Leo, Nicola Soranzo, Gianluigi Zanetti

Proc. of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics ACM BCB '14 pages 184--191 New York, NY, USA - 2014
isbn: 978-1-4503-2894-4 doi: 10.1145/2649387.2649429

[4-LFD14]

pyEHR: A scalable clinical data management toolkit for biomedical research projects

Luca Lianas, Francesca Frexia, Giovanni Delussu, Paolo Anedda, Gianluigi Zanetti

e-Health Networking, Applications and Services (Healthcom), 2014 IEEE 16th International Conference on E-health Networking, Application & Services IEEE pages 370-374 - october 2014 doi: 10.1109/HealthCom.2014.7001871

[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

Various talks, works and publications

[6-SF14]

IHE Laboratory Technical Framework Supplement- Labels and Containers Delivered

Alessandro Sulis, Francesca Frexia

- 2014

Contractual reports

[7-AGD14]

Progetto Pro.Sa. - Report sullo stato dell’arte e l’analisi del contesto

Paolo Anedda, Massimo Gaggero, Giovanni Delussu, Marco Enrico Piras, Mauro Del Rio

CRS4 - december 2014

[7-AGD14]

Progetto Pro.Sa. - Report sullo studio e sviluppo di nuovi modelli matematici predittivi simulativi di gestione e interazione

Paolo Anedda, Massimo Gaggero, Giovanni Delussu, Marco Enrico Piras, Mauro Del Rio

CRS4 - april 2014

Publications en 2013

Peer-reviewed publications in International Journals

[2-SPK13]

Scripting for large-scale sequencing based on Hadoop

André Schumacher, Luca Pireddu, Aleksi Kallio, Matti Niemenmaa, Eija Korpelainen, Gianluigi Zanetti, Keijo Heljanko

EMBnet.journal pages 84--85 vol. 19 - 2013
issn: 2226-6089 doi: 10.14806/ej.19.A.628

[2-SPN13]

SeqPig: simple and scalable scripting for large sequencing data sets in Hadoop

André Schumacher, Luca Pireddu, Matti Niemenmaa, Aleksi Kallio, Eija Korpelainen, Gianluigi Zanetti, Keijo Heljanko

Bioinformatics Oxford University Press - october 2013 doi: 10.1093/bioinformatics/btt601

[2-OSC13]

Genetic Variants Regulating Immune Cell Levels in Health and Disease

Valeria Orrú, Maristella Steri, Sidore Carlo, Francesca Virdis, Mariano Dei, Sandra Lai, Magdalena Zoledziewska, Fabio Busonero, Antonella Mulas, Matteo Floris, Wieslawa Mentzen, Silvana Urru, michele marongiu, Stefania Olla, MG Piras, Lobina M., Andrea Maschio, Maristella Pitzalis, Maria Francesca Urru, Marco Marcelli, Roberto Cusano, Francesca Deidda, Manuela Oppo, Rosella Pilu, Frederic Reinier, Riccardo Berutti, Luca Pireddu, Ilenia Zara, Eleonora Porcu, Alan Kwong , Christine Brennan , Brendan Tarrier, Hyun Kang , Robert Lyons, Sergio Uzzau, Rossano Atzeni, Maria Valentini, Firinu D., Lidia Leoni, Gianluca Rotta, Silvia Naitza, Andrea Angius, Mauro Congia, Michael Whalen, Christopher M. S. Jones, David Schlessinger, Gonçalo R. Abecasis, Edoardo Fiorillo, Serena Sanna, Francesco Cucca

Cell Elsevier Inc pages 242-256 vol. 155 num. 1 - september 2013 doi: 10.1016/j.cell.2013.08.041

[2-BML13]

Lentiviral Hematopoietic Stem Cell Gene Therapy Benefits Metachromatic Leukodystrophy

Alessandra Biffi, Eugenio Montini, Laura Lorioli, Martina Cesani, Francesca Fumagalli, Tiziana Plati, Cristina Baldoli, Sabata Martino, Andrea Calabria, Sabrina Canale, Fabrizio Benedicenti, Giuliana Vallanti, Luca Biasco, Simone Leo, Nabil Kabbara, Gianluigi Zanetti, William B. Rizzo, Nalini A. L. Mehta, Maria Pia Cicalese, Miriam Casiraghi, Jaap J. Boelens, Ubaldo Del Carro, David J. Dow, Manfred Schmidt, Andrea Assanelli, Victor Neduva, Clelia Di Serio, Elia Stupka, Jason Gardner, Christof von Kalle, Claudio Bordignon, Fabio Ciceri, Attilio Rovelli, Maria Grazia Roncarolo, Alessandro Aiuti, Maria Sessa, Luigi Naldini

Science AAAS pages 1233158 vol. 341 num. 6148 - august 2013 doi: 10.1126/science.1233158

[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

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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