The Human Proteome Folding Project (HPF) is a collaborative effort between New York University (
Bonneau Lab), the
Institute for Systems Biology
Institute for Systems Biology (ISB) is a non-profit research institution located in Seattle, Washington, United States. ISB concentrates on systems biology, the study of relationships and interactions between various parts of biological systems, ...
(ISB) and the University of Washington (
Baker
A baker is a tradesperson who baking, bakes and sometimes Sales, sells breads and other products made of flour by using an oven or other concentrated heat source. The place where a baker works is called a bakery.
History
Ancient histo ...
Lab), using the
Rosetta
Rosetta ( ) or Rashid (, ; ) is a port city of the Nile Delta, east of Alexandria, in Egypt's Beheira governorate. The Rosetta Stone was discovered there in 1799.
Founded around the 9th century on the site of the ancient town of Bolbitine, R ...
software developed by the Rosetta Commons. The project is managed by the Bonneau lab.
HPF Phase 1 applied Rosetta v4.2x software on the
human genome
The human genome is a complete set of nucleic acid sequences for humans, encoded as the DNA within each of the 23 distinct chromosomes in the cell nucleus. A small DNA molecule is found within individual Mitochondrial DNA, mitochondria. These ar ...
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
Malaria is a Mosquito-borne disease, mosquito-borne infectious disease that affects vertebrates and ''Anopheles'' mosquitoes. Human malaria causes Signs and symptoms, symptoms that typically include fever, Fatigue (medical), fatigue, vomitin ...
.
Phase 1 ran on two
volunteer computing
Volunteer computing is a type of distributed computing in which people donate their computers' unused resources to a research-oriented project, and sometimes in exchange for credit points. The fundamental idea behind it is that a modern desktop ...
grids: on
United Devices
United Devices, Inc. was a privately held, commercial volunteer computing company that focused on the use of grid computing to manage high-performance computing systems and enterprise cluster management. Its products and services allowed users t ...
'
grid.org
grid.org was a website and online community established in 2001 for cluster computing and grid computing software users. For six years it operated several different volunteer computing projects that allowed members to donate their spare computer c ...
, and on the
World Community Grid
World Community Grid (WCG) is an effort to create the world's largest volunteer computing platform to perform scientific research that benefits humanity. Launched on November 16, 2004, with proprietary Grid MP client from United Devices and add ...
, an
IBM
International Business Machines Corporation (using the trademark IBM), nicknamed Big Blue, is an American Multinational corporation, multinational technology company headquartered in Armonk, New York, and present in over 175 countries. It is ...
philanthropic initiative. Phase 2 of the project ran exclusively on the World Community Grid; it terminated in 2013 after more than 9 years of IBM involvement.
The Institute for Systems Biology will use the results of the computations within its larger research efforts.
Publications
*
**
* (Used fold enrichment and function predictions)
[
* (Used predictions as hypothesis for further experimental characterization)][
]
See also
* BOINC
The Berkeley Open Infrastructure for Network Computing (BOINC, pronounced rhymes with "oink") is an open-source middleware system for volunteer computing (a type of distributed computing). Developed originally to support SETI@home, it became the ...
* Folding@home
Folding@home (FAH or F@h) is a distributed computing project aimed to help scientists develop new therapeutics for a variety of diseases by the means of simulating protein dynamics. This includes the process of protein folding and the movements ...
* Foldit
Foldit is an online puzzle video game about protein folding. It is part of an experimental research project developed by the University of Washington, Center for Game Science, in collaboration with the UW Department of Biochemistry. The objectiv ...
* Human proteome project
The Human Proteome Project (HPP) is a collaborative effort coordinated by the Human Proteome Organization. Its stated goal is to experimentally observe all of the proteins produced by the sequences translated from the human genome.
History
The Hu ...
* List of volunteer computing projects
This is a comprehensive list of volunteer computing projects, which are a type of distributed computing where volunteers donate computing time to specific causes. The donated computing power comes from idle CPUs and GPUs in personal computers, vide ...
References
External links
HPF page at WCG
*Th
Yeast Resource Center Public Data Repository
offers predicted structures for many organisms (humans, yeast, bacteria, phages) produced by the HPF
{{DEFAULTSORT:Human Proteome Folding Project
Berkeley Open Infrastructure for Network Computing projects
Proteomics
Protein structure
Volunteer computing projects