John E. Stone

13.1k citations

64 papers · 6.4k indexed · 4 hit papers · h-index 32

Hardware and Architecture top 0.2%
- Parallel Computing and Optimization Techniques 19
Structural Biology top 2%
- Advanced Electron Microscopy Techniques and Applications 5
Computer Networks and Communications top 0.5%
- Distributed and Parallel Computing Systems 18
- Advanced Data Storage Technologies 11
Computer Graphics and Computer-Aided Design top 1%
- Computer Graphics and Visualization Techniques 5
Computer Vision and Pattern Recognition top 1%
Molecular Biology
- Protein Structure and Dynamics 21
Materials Chemistry
- Enzyme Structure and Function 9
Information Systems and Management
- Scientific Computing and Data Management 5

Co-authors: J. C. Phillips Klaus Schulten Guochun Shi John D. Owens David Luebke Michael Houston David W. Gohara David J. Hardy
Cited by: Hardware and Architecture Structural Biology Computer Networks and Communications
Journals: Computing in Science & Engineering (4 papers)Parallel Computing (4 papers)Journal of Chemical Information and Modeling (3 papers)
Partner nations: United States United Kingdom Spain

In The Last Decade

John E. Stone

62 papers receiving 6.2k citations

Hit Papers

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What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

2010 Computing in Science & Engineering
2008 Proceedings of the IEEE
2008 Proceedings of the IEEE
2007 Journal of Computational Chemistry

Peers

Countries citing papers authored by John E. Stone

Since Specialization

Citations

This map shows the geographic impact of John E. Stone's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by John E. Stone with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites John E. Stone more than expected).

Fields of papers citing papers by John E. Stone

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by John E. Stone. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by John E. Stone. The network helps show where John E. Stone may publish in the future.

Co-authorship network

The 25 scholars most cited alongside John E. Stone, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with John E. Stone Line = papers co-authored together John E. Stone links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	VMD as a Platform for Interactive Small Molecule Preparation and Visualization in Quantum and Classical Simulations Journal of Chemical Information and Modeling ·J. Peruchon De Brochard,John E. Stone,João V. Ribeiro,Jan Saam,Peter L. Freddolino,Rafael C. Bernardi,Emad Tajkhorshid	2023	45
2	ANARI: A 3-D Rendering API Standard Computing in Science & Engineering ·John E. Stone,정헌철鄭憲哲,唐滢,Shucheng Pan,William R. Sherman,Johannes Günther	2022	3
3	Lessons Learned from Responsive Molecular Dynamics Studies of the COVID-19 Virus PubMed ·David J. Hardy,John E. Stone,Barry Isralewitz,Emad Tajkhorshid	2021	1
4	Multiscale modeling and cinematic visualization of photosynthetic energy conversion processes from electronic to cell scales Parallel Computing ·Melih Şener,Natalia Błaszczyk,John E. Stone,Kaplan Renata,Barry Isralewitz,Robert Patterson,Javier Larreina-Pérez,Jeffrey R. Carpenter,C. Neil Hunter,Zaida Luthey‐Schulten,Donna Cox	2020	8
5	NAMD goes quantum: an integrative suite for hybrid simulations Nature Methods ·Marcelo C. R. Melo,Rafael C. Bernardi,Till Rudack,Maximilian Scheurer,Christoph Riplinger,J. C. Phillips,Rotter Iwona,Gerd B. Rocha,João V. Ribeiro,John E. Stone,Frank Neese,Klaus Schulten,Zaida Luthey‐Schulten	2018	159
6	QwikMD — Integrative Molecular Dynamics Toolkit for Novices and Experts Scientific Reports ·João V. Ribeiro,Rafael C. Bernardi,Till Rudack,John E. Stone,J. C. Phillips,Peter L. Freddolino,Klaus Schulten	2016	145
7	Immersive Molecular Visualization with Omnidirectional Stereoscopic Ray Tracing and Remote Rendering PubMed ·John E. Stone,William R. Sherman,Klaus Schulten	2016	23
8	Evaluation of Emerging Energy-Efficient Heterogeneous Computing Platforms for Biomolecular and Cellular Simulation Workloads PubMed ·John E. Stone,Gautamdatt,J. C. Phillips,J.R. Peterson,Zaida Luthey‐Schulten,Klaus Schulten	2016	20
9	Early Experiences Porting the NAMD and VMD Molecular Simulation and Analysis Software to GPU-Accelerated OpenPOWER Platforms Lecture notes in computer science ·John E. Stone,Küçükali,J. C. Phillips,Klaus Schulten	2016	19
10	High Performance Molecular Visualization: In-Situ and Parallel Rendering with EGL PubMed ·John E. Stone,Peter Messmer,Gita Yussetiani,Klaus Schulten	2016	7
11	Multilevel Summation Method for Electrostatic Force Evaluation Biophysical Journal ·Zhe Wu,David J. Hardy,J. C. Phillips,John E. Stone,Robert D. Skeel,Klaus Schulten	2015	4
12	Runtime and Architecture Support for Efficient Data Exchange in Multi-Accelerator Applications IEEE Transactions on Parallel and Distributed Systems ·Javier Cabezas,Isaac Gelado,John E. Stone,Nacho Navarro,David B. Kirk,Wen‐mei Hwu	2014	5
13	VMD as a Software for Visualization and Quantitative Analysis of Super Resolution Imaging and Single Particle Tracking Biophysical Journal ·Yanxin Liu,John E. Stone,En Cai,Jingyi Fei,Sang Hak Lee,Seongjin Park,Taekjip Ha,Paul R. Selvin,Klaus Schulten	2014	10
14	Simulation of reaction diffusion processes over biologically relevant size and time scales using multi-GPU workstations Parallel Computing ·Gautamdatt,John E. Stone,Elijah Roberts,Patrick Ribau,Zaida Luthey‐Schulten	2014	36
15	Stable Small Quantum Dots for Synaptic Receptor Tracking on Live Neurons Angewandte Chemie International Edition ·En Cai,Pinghua Ge,Sang Hak Lee,Okunola Jeyifous,Yong Wang,Yanxin Liu,Katie Wilson,Sung Jun Lim,Michelle A. Baird,John E. Stone,Kwan Young Lee,Michael W. Davidson,Hee Jung Chung,Klaus Schulten,Andrew M. Smith,William N. Green,Paul R. Selvin	2014	62
16	OpenCL: A Parallel Programming Standard for Heterogeneous Computing Systemsbreakdown → Computing in Science & Engineering ·John E. Stone,David W. Gohara,Guochun Shi	2010	902
17	GPU-accelerated molecular modeling coming of age Journal of Molecular Graphics and Modelling ·John E. Stone,David J. Hardy,Ivan S. Ufimtsev,Klaus Schulten	2010	298
18	Visualisation of cyclic and multi-branched molecules with VMD Journal of Molecular Graphics and Modelling ·Joyce M. Pair,Michelle M. Kuttel,John E. Stone,James Gain	2009	47
19	GPU Computingbreakdown → Proceedings of the IEEE ·John D. Owens,Michael Houston,David Luebke,Mateusz Mielcarek,John E. Stone,J. C. Phillips	2008	809
20	Multilevel summation of electrostatic potentials using graphics processing units Parallel Computing ·David J. Hardy,John E. Stone,Klaus Schulten	2008	96

About John E. Stone

John E. Stone is a scholar working on Structural Biology, Hardware and Architecture and Computer Graphics and Computer-Aided Design, having authored 64 papers that have together received 6.4k indexed citations. Recurring topics across this work include Protein Structure and Dynamics (21 papers), Parallel Computing and Optimization Techniques (19 papers), Distributed and Parallel Computing Systems (18 papers), Advanced Data Storage Technologies (11 papers), Enzyme Structure and Function (9 papers), Computer Graphics and Visualization Techniques (5 papers), Advanced Electron Microscopy Techniques and Applications (5 papers) and Scientific Computing and Data Management (5 papers). The work is most often cited by research in Hardware and Architecture (1.6k citations), Structural Biology (133 citations) and Computer Networks and Communications (1.5k citations). John E. Stone has collaborated with scholars based in United States, United Kingdom and Spain. Frequent co-authors include J. C. Phillips, Klaus Schulten, Guochun Shi, John D. Owens, David Luebke, Michael Houston, David W. Gohara, David J. Hardy, Peter L. Freddolino and Leonardo G. Trabuco. Their work appears in journals such as Computing in Science & Engineering, Parallel Computing, Journal of Chemical Information and Modeling, Journal of Molecular Graphics and Modelling and Journal of Computational Chemistry.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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