Name
Title | ||
|---|---|---|
Protein Structure Prediction on GPU: A Declarative Approach in a Multi-agent Framework |
Abstract | ||
|---|---|---|
This paper provides a novel perspective in the Protein Structure Prediction (PSP) problem. The PSP problem focuses on determining putative 3D structures of a protein starting from its primary sequence. The proposed approach relies on a multi-agents approach, where concurrent agents explore the folding of different parts of a protein. The strength of the approach lies in the agents' ability to apply different types of knowledge (expressed in the form of declarative constraints) to prune the local space of folding alternatives. The paper demonstrates the suitability of a GPU approach to implement such multi-agent infrastructure, with significant improvements in speed and quality of solutions w.r.t. other methods (e.g., based on fragments assembly approaches). |
Year | DOI | Venue |
|---|---|---|
2013 | 10.1109/ICPP.2013.57 | ICPP |
Keywords | Field | DocType |
bioinformatics,graphics processing units,multi-agent systems,proteins,GPU,PSP problem,concurrent agents,declarative approach,declarative constraints,folding alternatives,fragments assembly approach,graphics processing unit,multi-agent framework,protein structure prediction problem,putative 3D protein structures,Constraint Programming,GPU,Protein Structure Prediction | Kernel (linear algebra),Protein structure prediction,Descriptive knowledge,Instruction set,Computer science,Parallel computing,Constraint programming,Theoretical computer science,Multi-agent system | Conference |
ISSN | Citations | PageRank |
0190-3918 | 4 | 0.40 |
References | Authors | |
0 | 3 | |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Federico Campeotto | 1 | 46 | 3.87 |
| Agostino Dovier | 2 | 972 | 81.11 |
| Enrico Pontelli | 3 | 1901 | 181.26 |