Human Proteome Folding Project
Encyclopedia
The Human Proteome Folding Project (HPF) is a collaborative effort between New York University (Bonneau
Lab), the Institute for Systems Biology
(ISB) and the University of Washington (Baker Lab), using the Rosetta software developed by the Rosetta Commons.
The HPF project is currently in Phase 2, which is running exclusively on the World Community Grid
. Phase 1 ran on two distributed computing
grids: the World Community Grid
, an IBM
philanthropic initiative, and on United Devices
' grid.org
.
The Institute for Systems Biology designed the Human Proteome Folding project for World Community Grid and will use the results within its larger research efforts.
and 89 others, starting in November 2004. Phase 1 ended in July 2006. HPF Phase 2 (HPF2) applies the Rosetta v4.8x software in higher resolution, "full atom refinement" mode, concentrating on cancer biomarkers (proteins found at dramatically increased levels in cancer tissues), human secreted proteins and malaria.
Richard Bonneau
Richard Bonneau is an American computational biologist who studies methods to analyze systems biology datasets and methods to predict the three-dimensional structures of proteins. He is an Assistant Professor in the New York University Department of Biology and the Courant Institute for...
Lab), the Institute for Systems Biology
Institute for Systems Biology
The Institute for Systems Biology is a non-profit research institution, located in Seattle, Washington, United States. Leroy Hood co-founded the Institute with Alan Aderem and Ruedi Aebersold in 2000....
(ISB) and the University of Washington (Baker Lab), using the Rosetta software developed by the Rosetta Commons.
The HPF project is currently in Phase 2, which is running exclusively on the World Community Grid
World Community Grid
World Community Grid is an effort to create the world's largest public computing grid to tackle scientific research projects that benefit humanity...
. Phase 1 ran on two distributed computing
Distributed computing
Distributed computing is a field of computer science that studies distributed systems. A distributed system consists of multiple autonomous computers that communicate through a computer network. The computers interact with each other in order to achieve a common goal...
grids: the World Community Grid
World Community Grid
World Community Grid is an effort to create the world's largest public computing grid to tackle scientific research projects that benefit humanity...
, an IBM
IBM
International Business Machines Corporation or IBM is an American multinational technology and consulting corporation headquartered in Armonk, New York, United States. IBM manufactures and sells computer hardware and software, and it offers infrastructure, hosting and consulting services in areas...
philanthropic initiative, and on United Devices
United Devices
United Devices, Inc. was a privately held, commercial distributed computing company that focused on the use of grid computing to manage HPC infrastructures and enterprise cluster management...
' grid.org
Grid.org
grid.org was a website and online community established in 2001 that focuses on cluster computing and grid computing software for users. For the first 6 years of its history it operated several different volunteer computing projects that allowed members to donate their spare computer cycles to...
.
The Institute for Systems Biology designed the Human Proteome Folding project for World Community Grid and will use the results within its larger research efforts.
Current project status
HPF Phase 1 applied Rosetta v4.2x software on the human genomeHuman genome
The human genome is the genome of Homo sapiens, which is stored on 23 chromosome pairs plus the small mitochondrial DNA. 22 of the 23 chromosomes are autosomal chromosome pairs, while the remaining pair is sex-determining...
and 89 others, starting in November 2004. Phase 1 ended in July 2006. HPF Phase 2 (HPF2) applies the Rosetta v4.8x software in higher resolution, "full atom refinement" mode, concentrating on cancer biomarkers (proteins found at dramatically increased levels in cancer tissues), human secreted proteins and malaria.
Publications
See also
- BOINC
- Folding@homeFolding@homeFolding@home is a distributed computing project designed to use spare processing power on personal computers to perform simulations of disease-relevant protein folding and other molecular dynamics, and to improve on the methods of doing so...
- FolditFolditFoldit is an online puzzle video game about protein folding. The game is part of an experimental research project, and is developed by the University of Washington's Center for Game Science in collaboration with the UW Department of Biochemistry...
- List of distributed computing projects
- Rosetta@homeRosetta@homeRosetta@home is a distributed computing project for protein structure prediction on the Berkeley Open Infrastructure for Network Computing platform, run by the Baker laboratory at the University of Washington...
- World Community GridWorld Community GridWorld Community Grid is an effort to create the world's largest public computing grid to tackle scientific research projects that benefit humanity...