R
Ronak Buch
Researcher at University of Illinois at Urbana–Champaign
Publications - 7
Citations - 1267
Ronak Buch is an academic researcher from University of Illinois at Urbana–Champaign. The author has contributed to research in topics: Comparative genomics & Gene prediction. The author has an hindex of 5, co-authored 6 publications receiving 400 citations.
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Journal ArticleDOI
Scalable molecular dynamics on CPU and GPU architectures with NAMD.
James C. Phillips,David J. Hardy,Julio D.C. Maia,John E. Stone,João V. Ribeiro,Rafael C. Bernardi,Ronak Buch,Giacomo Fiorin,Jérôme Hénin,Wei Jiang,Ryan McGreevy,Marcelo C. R. Melo,Brian K. Radak,Robert D. Skeel,Abhishek Singharoy,Yi Wang,Benoît Roux,Aleksei Aksimentiev,Zaida Luthey-Schulten,Laxmikant V. Kale,Klaus Schulten,Christophe Chipot,Emad Tajkhorshid +22 more
TL;DR: The main features of NAMD are reviewed, including the variety of options offered by NAMD for enhanced-sampling simulations aimed at determining free-energy differences of either alchemical or geometrical transformations and their applicability to specific problems.
Proceedings ArticleDOI
Optimizing the performance of parallel applications on a 5D torus via task mapping
Abhinav Bhatele,Nikhil Jain,Katherine E. Isaacs,Ronak Buch,Todd Gamblin,Steven H. Langer,Laxmikant V. Kale +6 more
TL;DR: This paper presents a methodological study of optimizing application performance on a five-dimensional torus network via the technique of topology-aware task mapping and focuses on the IBM Blue Gene/Q machine and two production applications.
Runtime coordinated heterogeneous tasks in charm
TL;DR: A runtime managed system for coordinating heterogeneous execution that manages data transfers to and from GPU devices and schedules work across the computational resources of the system.
Journal ArticleDOI
Construction of Red Fox Chromosomal Fragments from the Short-Read Genome Assembly
Halie M. Rando,Marta Farré,Michael P. Robson,Naomi B. Won,Jennifer L. Johnson,Ronak Buch,Estelle R. Bastounes,Xueyan Xiang,Shaohong Feng,Shiping Liu,Zijun Xiong,Jaebum Kim,Guojie Zhang,Guojie Zhang,Lyudmila N. Trut,Denis M. Larkin,Anna V. Kukekova +16 more
TL;DR: The genome of a red fox was recently sequenced and assembled using next-generation sequencing (NGS), and the continued improvement of the red fox genome can in turn offer insight into canid and carnivore chromosome evolution.