13 papers · ranked by Valyu relevance
Willem Jan Palenstijn, Jeroen Bédorf, Jan Sijbers, K. Joost Batenburg
'K. Joost Batenburg'] While iterative reconstruction algorithms for tomography have several advantages compared to standard backprojection methods, the adoption of such algorithms in large-scale imaging facilities is still limited, one of the key obstacles being their high computational load. Although GPU-enabled…
Marek Wiewiórka, Agnieszka Szmurło, Paweł Stankiewicz, Tomasz Gambin
Pileup analysis is a building block of many bioinformatics pipelines, including variant calling and genotyping. This step tends to become a bottleneck of the entire assay since the straightforward pileup implementations involve processing of all base calls from all alignments sequentially. On the other hand, a…
Adrián Noguero, Isidro Calvo, Federico Pérez, Luis Almeida
There is an increasing number of Ambient Intelligence (AmI) systems that are time-sensitive and resource-aware. From healthcare to building and even home/office automation, it is now common to find systems combining interactive and sensing multimedia traffic with relatively simple sensors and actuators (door locks…
Dorin Palanciuc, Florin Pop, Amir H. Gandomi
Aiming for simplicity and efficiency in the domain of edge computing, DOORS is a distributed system expected to scale up to hundreds of nodes, which encapsulates application state and behavior into objects and gives them the ability to exchange asynchronous messages. DOORS offers semi-synchronous replication and the…
J Kyle Medley, Shaik Asifullah, Joseph Hellerstein, Herbert M Sauro
Mechanistic kinetic models of biological pathways are an important tool for understanding biological systems. Constructing kinetic models requires fitting the parameters to experimental data. However, parameter fitting on these models is a non–convex, non–linear optimization problem. Many algorithms have been proposed…
M. Ali Al-Radhawi, Anh Phong Tran, Elizabeth A. Ernst, Tianchi Chen + 2 more
Starting in the early 2000s, a sophisticated technology has been developed for the rational construction of synthetic genetic networks that implement specified logical functionalities. Despite impressive progress, however, the scaling necessary in order to achieve greater computational power has been hampered by many…
Miguel Pincheira, Elena Donini, Massimo Vecchio, Salil Kanhere + 3 more
'Victor C.M. Leung' 'Zehua Wang' 'Sara Rouhani'] The data economy is based on data and information sharing and tremendously impacts society as it facilitates innovative collaborations and decision-making strategies. Nonetheless, most dataset-sharing solutions rely on a centralized authority that rules data ownership…
Gervasio Varela, Alejandro Paz-Lopez, Jose Antonio Becerra, Santiago Vazquez-Rodriguez + 1 more
'Santiago Vazquez-Rodriguez' 'Richard José Duro'] Human interaction environments (HIE) must be understood as any place where people carry out their daily life, including their work, family life, leisure and social life, interacting with technology to enhance or facilitate the experience. The integration of technology…
Swier Garst, Julian Dekker, Marcel Reinders
Federated learning is an upcoming machine learning paradigm which allows data from multiple sources to be used for training of classifiers without the data leaving the source it originally resides. This can be highly valuable for use cases such as medical research, where gathering data at a central location can be…
Benjamin R. Eisenreich, Rei Akaishi, Benjamin Y. Hayden
Executive control refers to the regulation of cognition and behavior by mental processes and is a hallmark of higher cognition. Most approaches to understanding its mechanisms begin with the assumption that our brains have anatomically segregated and functionally specialized control modules. The modular approach is…
Pierre Carrier, Bill Long, Richard Walsh, Jef Dawson + 4 more
High Performance Computing (HPC) Best Practice offers opportunities to implement lessons learned in areas such as computational chemistry and physics in genomics workflows, specifically Next-Generation Sequencing (NGS) workflows. In this study we will briefly describe how distributed-memory parallelism can be an…
Fabio F. de Oliveira, Leonardo A. Dias, Marcelo A. C. Fernandes
In bioinformatics, alignment is an essential technique for finding similarities between biological sequences. Usually, the alignment is performed with the Smith-Waterman (SW) algorithm, a well-known sequence alignment technique of high-level precision based on dynamic programming. However, given the massive data volume…
Vlad Bucur, Liviu-Cristian Miclea, Subhas Mukhopadhyay
Information technology is based on data management between various sources. Software projects, as varied as simple applications or as complex as self-driving cars, are heavily reliant on the amounts, and types, of data ingested by one or more interconnected systems. Data is not only consumed but is transformed or…