24 papers · ranked by Valyu relevance
IK Indrajit, A Alam
Computers are an integral part of modern radiology practice. They are used in different radiology modalities to acquire, process, and postprocess imaging data. They have had a dramatic influence on contemporary radiology practice. Their impact has extended further with the emergence of Digital Imaging and…
Xavier Buffat
This lecture aims at providing a user's perspective on the main concepts used nowadays for the implementation of numerical algorithm on common computing architecture. In particular, the concepts and applications of Central Processing Units (CPUs), vectorisation, multithreading, hyperthreading and Graphical Processing…
Daniel Etiemble
MOS technologies obey an empirical law, stated in 1965 and known as Moore's law: the number of transistors integrated on a chip doubles every N months. Fig. 1 presents the evolution for DRAM memories, processors (MPU) and three types of readonly memories [1]. The growth rate decreases with years, from a doubling every…
Saugata Ghose
The first years of the 2000s led to an inflection point in computer architectures: while the number of available transistors on a chip continued to grow, crucial transistor scaling properties started to break down and result in increasing power consumption, while aggressive single-core performance optimizations were…
Johannes Hofmann, Jan Eitzinger, Dietmar Fey
—This report serves two purposes: To introduce and validate the Execution-Cache-Memory (ECM) performance model and to provide a thorough analysis of current Intel processor architectures with a special emphasis on Intel Xeon Haswell-EP. The ECM model is a simple analytical performance model which focuses on basic…
K. R. Chowdhary
This paper presents a brief journey to the evolution of computer hardware and software, and underlines that shift to multicore technology is natual part of the evolution, and highlights the various laws governing the advancement of computer industry. Looking to these, it appears that the HW-SW industry trend can be…
Andres F. Ocampo, Mah-Rukh Fida, Ahmed Elmokashfi, Haakon Bryhni + 1 more
'Wei Yi'] Cloud-based Radio Access Network (Cloud-RAN) leverages virtualization to enable the coexistence of multiple virtual Base Band Units (vBBUs) with collocated workloads on a single edge computer, aiming for economic and operational efficiency. However, this coexistence can cause performance degradation in vBBUs…
Karen Claesen, Joachim C. Mertens, Dorien Leenaerts, Dirk Hendriks
Procarboxypeptidase U (proCPU, TAFI, proCPB2) is a basic carboxypeptidase zymogen that is converted by thrombin(-thrombomodulin) or plasmin into the active carboxypeptidase U (CPU, TAFIa, CPB2), a potent attenuator of fibrinolysis. As CPU forms a molecular link between coagulation and fibrinolysis, the development of…
Guoqing Lei, Yong Dou, Wen Wan, Fei Xia + 3 more
'Dan Zou'] Background Prediction of ribonucleic acid (RNA) secondary structure remains one of the most important research areas in bioinformatics. The Zuker algorithm is one of the most popular methods of free energy minimization for RNA secondary structure prediction. Thus far, few studies have been reported on the…
Piotr Marek Markowski, Mirosław Gierczak, Andrzej Dziedzic
This paper has three main purposes. The first is to investigate whether it is appropriate to use a planar thick-film thermoelectric sensor to monitor the temperature difference in a processor heat sink. The second is to compare the efficiency of two heat sink models. The third is to compare two kinds of sensors…
Danny H.C. Kim, Lynne J. Williams, Moises Hernandez-Fernandez, Bruce H. Bjornson
The correct estimation of fibre orientations is a crucial step for reconstructing human brain tracts. Bayesian Estimation of Diffusion Parameters Obtained using Sampling Techniques (bedpostx) is able to estimate several fibre orientations and their diffusion parameters per voxel using Markov Chain Monte Carlo (MCMC) in…
Constantin Scholl, Kassian Kobert, Tomáš Flouri, Alexandros Stamatakis
Motivated by load balance issues in parallel calculations of the phylogenetic likelihood function, we recently introduced an approximation algorithm for efficiently distributing partitioned alignment data to a given number of CPUs. The goal is to balance the accumulated number of sites per CPU, and, at the same time…
Chun-Liang Lee, Yi-Shan Lin, Yaw-Chung Chen, Sergio Gómez
The large quantities of data now being transferred via high-speed networks have made deep packet inspection indispensable for security purposes. Scalable and low-cost signature-based network intrusion detection systems have been developed for deep packet inspection for various software platforms. Traditional approaches…
Authors not listed
Recent advances in machine learning force fields (MLFF) have significantly extended the reach of atomistic simulations. Continuous progress in this field requires reliable reference datasets, accurate MLFF architectures, and efficient active learning strategies to enable robust modeling of complex molecular and…
Hasindu Gamaarachchi, Chun Wai Lam, Gihan Jayatilaka, Hiruna Samarakoon + 3 more
Nanopore sequencing has the potential to revolutionise genomics by realising portable, real-time sequencing applications, including point-of-care diagnostics and in-the-field genotyping. Achieving these applications requires efficient bioinformatic algorithms for the analysis of raw nanopore signal data. For instance…
Daniel Etiemble
The appearance and disappearance of coprocessors by integration into the CPU, the success or failure of coprocessors are examined by summarizing their characteristics from the mainframes of the 1960s. The coprocessors most particularly reviewed are the IBM 360 and CDC-6600 I/O processors, the Intel 8087 math…
Authors not listed
Machine learning interatomic potentials (MLIPs) have revolutionized molecular simulations, but as they evolve, so does the demand for advanced computing architectures, particularly graphics processing units (GPUs). However, the high cost of GPUs limits accessibility, making it crucial to compare GPU and central…
Roy Ben-Shalom, Nikhil S. Artherya, Christopher Cross, Hersh Sanghevi + 2 more
Generating biologically detailed models of neurons is an important goal for modern neuroscience. Unfortunately, constraining parameters within biologically detailed models can be difficult, leading to poor model predictions, especially if such models are extended beyond the specific problems for which they were…
Wen Jiang, Denis Feliers, W. Jim Zheng, Fangyuan Zhang + 1 more
Gene expression is time-consuming, and the delay from transcription activation to produced proteins is sequentially longer from bacteria to yeast and to humans. How human cells overcome the delay and attain operational efficiency, i.e., quick proteomic response to signals, is not well understood. The computer has…
Jingcheng Shen, Jie Mei, Marcus Walldén, Fumihiko Ino
FreeSurfer is among the most widely used suites of software for the study of cortical and subcortical brain anatomy. However, analysis using FreeSurfer can be time-consuming and it lacks support for the graphics processing units (GPUs) after the core development team stopped maintaining GPU-accelerated versions due to…
Madushanka Manathunga, Hasan Metin Aktulga, Andreas W. Goetz, Kenneth M. Merz + 1 more
We have ported and optimized the GPU accelerated QUICK and AMBER based ab initio QM/MM implementation on AMD GPUs. This encompasses the entire Fock matrix build and force calculation in QUICK including one-electron integrals, two-electron repulsion integrals, exchange-correlation quadrature, and linear algebra…
Authors not listed
The era of exascale computing presents both exciting opportunities and unique challenges for quantum mechanical simulations. While the transition from petaflops to exascale computing has been marked by a steady increase in computational power, the shift towards heterogeneous architectures, particularly the dominant…
Yann Garniron, Thomas Applencourt, Kevin Gasperich, Anouar Benali + 15 more
Quantum Package is an open-source programming environment for quantum chemistry specially designed for wave function methods. Its main goal is the development of determinant-driven selected configuration interaction (sCI) methods and multi-reference second-order perturbation theory (PT2). The determinant-driven…
Yann Garniron, Thomas Applencourt, Kevin Gasperich, Anouar Benali + 15 more
Quantum Package is an open-source programming environment for quantum chemistry specially designed for wave function methods. Its main goal is the development of determinant-driven selected configuration interaction (sCI) methods and multi-reference second-order perturbation theory (PT2). The determinant-driven…