ArticleParallel computing2016
Atomic Detail Visualization of Photosynthetic Membranes with GPU-Accelerated Ray Tracing.
Article in Parallel computing, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
19 citing papers in PubMed, 41 citations in OpenAlex.
- VMD as a Platform for Interactive Small Molecule Preparation and Visualization in Quantum and Classical Simulations.Journal of chemical information and modeling · 2023Article
- #COVIDisAirborne: AI-enabled multiscale computational microscopy of delta SARS-CoV-2 in a respiratory aerosol.The international journal of high performance computing applications · 2023Article
- A brief history of visualizing membrane systems in molecular dynamics simulations.Frontiers in bioinformatics · 2023Article
- Intelligent resolution: Integrating Cryo-EM with AI-driven multi-resolution simulations to observe the severe acute respiratory syndrome coronavirus-2 replication-transcription machinery in action.The international journal of high performance computing applications · 2022Article
- Applications of Molecular Dynamics Simulation in Protein Study.Membranes · 2022Review
- #COVIDisAirborne: AI-Enabled Multiscale Computational Microscopy of Delta SARS-CoV-2 in a Respiratory Aerosol.bioRxiv : the preprint server for biology · 2021Article
- Lessons Learned from Responsive Molecular Dynamics Studies of the COVID-19 Virus.Proceedings of UrgentHPC 2021 : the Third International Workshop on HPC for Urgent Decision Making · 2021Article
- AI-driven multiscale simulations illuminate mechanisms of SARS-CoV-2 spike dynamics.The international journal of high performance computing applications · 2021Article
- AI-Driven Multiscale Simulations Illuminate Mechanisms of SARS-CoV-2 Spike Dynamics.bioRxiv : the preprint server for biology · 2020Article
- Multiscale modeling and cinematic visualization of photosynthetic energy conversion processes from electronic to cell scales.Parallel computing · 2020Article
- An immersive journey to the molecular structure of SARS-CoV-2: Virtual reality in COVID-19.Computational and structural biotechnology journal · 2020Review
- Molecular dynamics simulation of the nanosecond pulsed electric field effect on kinesin nanomotor.Scientific reports · 2019Article
- Challenges of Integrating Stochastic Dynamics and Cryo-Electron Tomograms in Whole-Cell Simulations.The journal of physical chemistry. B · 2017Article
- Early Experiences Porting the NAMD and VMD Molecular Simulation and Analysis Software to GPU-Accelerated OpenPOWER Platforms.High performance computing : 31st International Conference, ISC High Performance 2016, Frankfurt, Germany, June 19-23, 2016, Proceedings. ISC High Performance (Conference) (31st : 2016 : Frankfurt, Germany) · 2016Article
- QwikMD - Integrative Molecular Dynamics Toolkit for Novices and Experts.Scientific reports · 2016Article
- Immersive Molecular Visualization with Omnidirectional Stereoscopic Ray Tracing and Remote Rendering.IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum : [proceedings]. IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum · 2016Article
- High Performance Molecular Visualization: In-Situ and Parallel Rendering with EGL.IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum : [proceedings]. IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum · 2016Article
- Evaluation of Emerging Energy-Efficient Heterogeneous Computing Platforms for Biomolecular and Cellular Simulation Workloads.IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum : [proceedings]. IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum · 2016Article
- ANARI: A 3-D Rendering API Standard.Computing in science & engineeringArticle
Corrections and comments
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Authors and funding
16 authors at 3 institutions in 2 countries.
Funding
Abstract
The cellular process responsible for providing energy for most life on Earth, namely photosynthetic light-harvesting, requires the cooperation of hundreds of proteins across an organelle, involving length and time scales spanning several orders of magnitude over quantum and classical regimes. Simulation and visualization of this fundamental energy conversion process pose many unique methodological and computational challenges. We present, in two accompanying movies, light-harvesting in the photosynthetic apparatus found in purple bacteria, the so-called chromatophore. The movies are the culmination of three decades of modeling efforts, featuring the collaboration of theoretical, experimental, and computational scientists. We describe the techniques that were used to build, simulate, analyze, and visualize the structures shown in the movies, and we highlight cases where scientific needs spurred the development of new parallel algorithms that efficiently harness GPU accelerators and petascale computers.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.