Search Results - "Capuccini, Marco"

Estimating diagnostic uncertainty in artificial intelligence assisted pathology using conformal prediction by Olsson, Henrik, Kartasalo, Kimmo, Mulliqi, Nita, Capuccini, Marco, Ruusuvuori, Pekka, Samaratunga, Hemamali, Delahunt, Brett, Lindskog, Cecilia, Janssen, Emiel A. M., Blilie, Anders, Egevad, Lars, Spjuth, Ola, Eklund, Martin

“…Unreliable predictions can occur when an artificial intelligence (AI) system is presented with data it has not been exposed to during training. We demonstrate…”
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Efficient iterative virtual screening with Apache Spark and conformal prediction by Ahmed, Laeeq, Georgiev, Valentin, Capuccini, Marco, Toor, Salman, Schaal, Wesley, Laure, Erwin, Spjuth, Ola

“…Background Docking and scoring large libraries of ligands against target proteins forms the basis of structure-based virtual screening. The problem is…”
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PhenoMeNal: processing and analysis of metabolomics data in the cloud by Peters, Kristian, Bradbury, James, Bergmann, Sven, Capuccini, Marco, Cascante, Marta, de Atauri, Pedro, Ebbels, Timothy M D, Foguet, Carles, Glen, Robert, Gonzalez-Beltran, Alejandra, Günther, Ulrich L, Handakas, Evangelos, Hankemeier, Thomas, Haug, Kenneth, Herman, Stephanie, Holub, Petr, Izzo, Massimiliano, Jacob, Daniel, Johnson, David, Jourdan, Fabien, Kale, Namrata, Karaman, Ibrahim, Khalili, Bita, Emami Khonsari, Payam, Kultima, Kim, Lampa, Samuel, Larsson, Anders, Ludwig, Christian, Moreno, Pablo, Neumann, Steffen, Novella, Jon Ander, O'Donovan, Claire, Pearce, Jake T M, Peluso, Alina, Piras, Marco Enrico, Pireddu, Luca, Reed, Michelle A C, Rocca-Serra, Philippe, Roger, Pierrick, Rosato, Antonio, Rueedi, Rico, Ruttkies, Christoph, Sadawi, Noureddin, Salek, Reza M, Sansone, Susanna-Assunta, Selivanov, Vitaly, Spjuth, Ola, Schober, Daniel, Thévenot, Etienne A, Tomasoni, Mattia, van Rijswijk, Merlijn, van Vliet, Michael, Viant, Mark R, Weber, Ralf J M, Zanetti, Gianluigi, Steinbeck, Christoph

“…Abstract Background Metabolomics is the comprehensive study of a multitude of small molecules to gain insight into an organism's metabolism. The research field…”
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On-demand virtual research environments using microservices by Capuccini, Marco, Larsson, Anders, Carone, Matteo, Novella, Jon Ander, Sadawi, Noureddin, Gao, Jianliang, Toor, Salman, Spjuth, Ola

“…The computational demands for scientific applications are continuously increasing. The emergence of cloud computing has enabled on-demand resource allocation…”
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Container-based bioinformatics with Pachyderm by Novella, Jon Ander, Emami Khoonsari, Payam, Herman, Stephanie, Whitenack, Daniel, Capuccini, Marco, Burman, Joachim, Kultima, Kim, Spjuth, Ola

“…Abstract Motivation Computational biologists face many challenges related to data size, and they need to manage complicated analyses often including multiple…”
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MaRe: Processing Big Data with application containers on Apache Spark by Capuccini, Marco, Dahlö, Martin, Toor, Salman, Spjuth, Ola

“…Abstract Background Life science is increasingly driven by Big Data analytics, and the MapReduce programming model has been proven successful for…”
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Large-scale virtual screening on public cloud resources with Apache Spark by Capuccini, Marco, Ahmed, Laeeq, Schaal, Wesley, Laure, Erwin, Spjuth, Ola

“…Background Structure-based virtual screening is an in-silico method to screen a target receptor against a virtual molecular library. Applying docking-based…”
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Interoperable and scalable data analysis with microservices: applications in metabolomics by Emami Khoonsari, Payam, Moreno, Pablo, Bergmann, Sven, Burman, Joachim, Capuccini, Marco, Carone, Matteo, Cascante, Marta, de Atauri, Pedro, Foguet, Carles, Gonzalez-Beltran, Alejandra N, Hankemeier, Thomas, Haug, Kenneth, He, Sijin, Herman, Stephanie, Johnson, David, Kale, Namrata, Larsson, Anders, Neumann, Steffen, Peters, Kristian, Pireddu, Luca, Rocca-Serra, Philippe, Roger, Pierrick, Rueedi, Rico, Ruttkies, Christoph, Sadawi, Noureddin, Salek, Reza M, Sansone, Susanna-Assunta, Schober, Daniel, Selivanov, Vitaly, Thévenot, Etienne A, van Vliet, Michael, Zanetti, Gianluigi, Steinbeck, Christoph, Kultima, Kim, Spjuth, Ola

“…Abstract Motivation Developing a robust and performant data analysis workflow that integrates all necessary components whilst still being able to scale over…”
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Approaches for containerized scientific workflows in cloud environments with applications in life science [version 1; peer review: 2 not approved] by Spjuth, Ola, Capuccini, Marco, Carone, Matteo, Larsson, Anders, Schaal, Wesley, Novella, Jon Ander, Stein, Oliver, Ekmefjord, Morgan, Tommaso, Paolo Di, Floden, Evan, Notredame, Cedric, Moreno, Pablo, Hellander, Andreas, Khoonsari, Payam Emami, Herman, Stephanie, Kultima, Kim, Lampa, Samuel

“…Containers are gaining popularity in life science research as they provide a solution for encompassing dependencies of provisioned tools, simplify software…”
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MaRe: a MapReduce-Oriented Framework for Processing Big Data with Application Containers by Capuccini, Marco, Dahlö, Martin, Toor, Salman, Spjuth, Ola

“…Background. Life science is increasingly driven by Big Data analytics, and the MapReduce programming model has been proven successful for data-intensive…”
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SNIC Science Cloud (SSC): A National-Scale Cloud Infrastructure for Swedish Academia by Toor, Salman, Lindberg, Mathias, Falman, Ingemar, Vallin, Andreas, Mohill, Olof, Freyhult, Pontus, Nilsson, Linus, Agback, Martin, Viklund, Lars, Zazzik, Henric, Spjuth, Ola, Capuccini, Marco, Moller, Joakim, Murtagh, Donal, Hellander, Andreas

“…The cloud computing paradigm have fundamentally changed the way computational resources are being offered. Although the number of large-scale providers in…”
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On-Demand Virtual Research Environments using Microservices by Capuccini, Marco, Larsson, Anders, Carone, Matteo, Novella, Jon Ander, Sadawi, Noureddin, Gao, Jianliang, Toor, Salman, Spjuth, Ola

“…The computational demands for scientific applications are continuously increasing. The emergence of cloud computing has enabled on-demand resource allocation…”
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Conformal Prediction in Spark: Large-Scale Machine Learning with Confidence by Capuccini, Marco, Carlsson, Lars, Norinder, Ulf, Spjuth, Ola

“…Increasing size of datasets is challenging for machine learning, and Big Data frameworks, such as Apache Spark, have shown promise for facilitating model…”
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Metabolomics in the Cloud: Scaling Computational Tools to Big Data by Gao, Jianliang, Sadawi, Noureddin, Karaman, Ibrahim, Pearce, Jake T M, Moreno, Pablo, Larsson, Anders, Capuccini, Marco, Elliott, Paul, Nicholson, Jeremy K, Ebbels, Timothy M D, Glen, Robert

“…Background: Metabolomics datasets are becoming increasingly large and complex, with multiple types of algorithms and workflows needed to process and analyse…”
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