World Community Grid

World Community Grid
Developer(s) IBM
Initial release November 16, 2004 (2004-11-16)[1]
Stable release 7.6.22
Development status Active
Operating system Microsoft Windows, Linux, Android, Mac OS X
Platform BOINC
Type Volunteer computing
Average performance 492.597 TFLOPS[2]
Active users 55,810 (March 2016) [2]
Total users 500,939[2]
Active hosts 208,711[2]
Total hosts 2,573,545[2]
Website worldcommunitygrid.org

World Community Grid (WCG) is an effort to create the world's largest public computing grid to tackle scientific research projects that benefit humanity.[3] Launched on November 16, 2004, it is co-ordinated by IBM with client software currently available for Windows, Linux, Mac OS X, and Android operating systems.[4][5][6]

Using the idle time of computers around the world, World Community Grid's research projects have analyzed aspects of the human genome, HIV, dengue, muscular dystrophy, cancer, influenza, Ebola, virtual screening, rice crop yields, and clean energy. As of October 2014, the organization has partnered with 466 other companies and organizations to assist in its work, and has over 55,000 active registered users.[2][7]

History

In 2003, IBM and other research participants sponsored the Smallpox Research Grid Project to accelerate the discovery of a cure for smallpox.[8] The smallpox study used a massive distributed computing grid to analyze compounds' effectiveness against smallpox.[9] The project allowed scientists to screen 35 million potential drug molecules against several smallpox proteins to identify good candidates for developing into smallpox treatments. In the first 72 hours, 100,000 results were returned. By the end of the project, 44 strong treatment candidates had been identified.[10] Based on the success of the Smallpox study, IBM announced on the creation of World Community Grid on November 16, 2004, with the goal of creating a technical environment where other humanitarian research could be processed.[1][9]

World Community Grid initially only supported Windows, using the proprietary Grid MP software from United Devices which powered the grid.org distributed computing projects. Demand for Linux support led to the addition in November 2005 of open source Berkeley Open Infrastructure for Network Computing (BOINC) grid technology which powers projects such as SETI@home and Climateprediction,[11] and Mac OS X and Linux support was added since the introduction of BOINC.[4] In 2007, the World Community Grid migrated from Grid MP to BOINC for all of its supported platforms.[12]

Scale of the project

As of October 2014, World Community Grid had over 65,000 active user accounts, with over 249,000 active devices.[2] Over the course of the project, more than 1,000,000 cumulative years of computing time have been donated, and over 2 billion workunits have been completed.[7]

Operation

The client software's status window, displaying information about the work currently being done in the background. This particular computer is 60.3% complete with its current workunit. When it reaches 100%, it will start on a new workunit and the results of the previous workunit will be transmitted back to WCG.

The World Community Grid software uses the idle time of Internet-connected computers to perform research calculations.[13] Users install WCG client software onto their computers. This software works in the background, using spare system resources to process work for WCG.[13][14] When a piece of work or workunit is completed, the client software sends it back to WCG over the Internet and downloads a new workunit.[3][15] To ensure accuracy, the WCG servers send out multiple copies of each workunit.[16] Then, when the results are received, they are collected and validated against each other.[17][18] Users may choose to use graphics output by the current workunit as a screensaver.

While many public computing grids such as SETI@home and Folding@home are devoted to a single project, World Community Grid offers multiple humanitarian projects under a single umbrella. Users are included in a subset of projects by default, but may opt out of projects as they choose.[19]

When World Community Grid launched, they used the proprietary Grid MP client from United Devices. After adding support for the open source BOINC client in 2005, World Community Grid eventually discontinued the Grid MP client and consolidated on the BOINC platform in 2008.[20]

Even though WCG makes use of open source client software, the actual applications that perform the scientific calculations may not be. However, several of the science applications are available under a free license, although the source is not available directly from WCG.[21]

Potential problems

The picture shows particular two CPU usage history (under Hyper-threading) when BOINC client software is processing two tasks on each CPU under Microsoft Windows XP SP2. CPU usage history indicates almost 0% to 100% swing with peak to peak of 3 seconds interval, when view +update speed set to high, at first half recording period. The rest of half period of history is set to update speed normal, and upper CPU usage history indicates slightly more than 60% and lower CPU usage history show 35% approx. in average.

Because the World Community Grid software increases CPU usage by consuming unused processing time, it is possible for the software to cause abnormal behavior on volunteered computers. Despite the unobtrusive nature of the software, decreases in system performance could still occur. High CPU usage could also cause a (misconfigured) computer to overheat.

The BOINC client avoids this using a variety of limits that suspend computation when there are insufficient free resources. Unlike other BOINC projects, World Community Grid set the BOINC defaults conservatively, making the chances of computer damage extremely small. The default CPU throttle is 60%. The throttle is coarse-grained; for example, if usage is set to 60% it will work at 100% for 3 seconds, then at 0% for 2 seconds, resulting in an average decrease of processor use.[22]

An add-on program for Windows computers – TThrottle – can solve the problem of overheating by directly limiting the BOINC project's use of the host computer. It does this by measuring the CPU and/or the GPU temperature and adjusts the run time accordingly. It also uses a shorter switching time of less than one second, resulting in less temperature change during switching.

Statistics and competition

The contributions of each user are recorded and user contribution statistics are publicly available.[7] Due to the fact that the processing time of each workunit varies from computer to computer depending on the difficulty of the workunit, the speed of the computer and the amount of idle resources available, contributions are usually measured in terms of points. Points are awarded for each workunit depending on the effort required to process that workunit.[23]

Upon completing a workunit, the BOINC client will request the number of points it thinks it deserves based on software benchmarks (see BOINC Credit System#Cobblestones). Since multiple computers process the same workunit to ensure accuracy, the World Community Grid servers can look at the points claimed by each of those computers. The WCG servers disregard statistical outliers, average the remaining values and award the resulting number of points to each computer.[24][25]

Within the grid, users may join teams that have been created by organizations, groups, or individuals. Teams allow for a heightened sense of community identity and can also inspire competition. As teams compete against each other, more work is done for the grid overall.[26]

Outreach

World Community Grid recognizes companies and organizations as partners if they promote WCG within their company or organization. As of October 2014, WCG had 466 partners.[27]

Also, as part of its commitment to improving human health and welfare, the results of all computations completed on World Community Grid are released into the public domain and made available to the scientific community.[3]

Scientific Results

Since its launch, several projects have run in the World Community Grid. Some of the results include:

Active projects

Help Stop TB

Help Stop TB was launched in March 2016 to help combat tuberculosis, a disease caused by a bacterium that is evolving resistance to currently available treatments. The computations of this project target mycolic acids in the bacterium's protective coat,[41] simulating the behavior of these molecules in their many configurations to better understand how they offer protection to the bacteria.

FightAIDS@Home

Main article: FightAIDS@Home

FightAIDS@Home (launched November 19, 2005[42]) was World Community Grid's second project and its first to target a single disease. Each individual computer processes one potential drug molecule and tests how well it would dock with HIV protease, acting as a protease inhibitor.[43] Scripps Research Institute published its first peer-reviewed scientific paper about the results of FightAIDS@Home on April 21, 2007.[44] This paper explains that the results up to that point will primarily be used to improve the efficiency of future FightAIDS@Home calculations.[45]

The Clean Energy Project

Main article: Clean Energy Project

The Clean Energy project is sponsored by the scientists of Harvard University's Department of Chemistry and Chemical Biology.[46] The mission of the Clean Energy Project is to find new materials for the next generation of solar cells and later, energy storage devices. Researchers are employing molecular mechanics and electronic structure calculations to predict the optical and transport properties of molecules that could become the next generation of solar cell materials.

Phase 1 was launched on December 5, 2008, and completed on October 13, 2009.[47] By harnessing the computing power of the World Community Grid, researchers were able to calculate the electronic properties of tens of thousands of organic materials – many more than could ever be tested in a lab – and determine which candidates are most promising for developing affordable solar energy technology.[48]

Phase 2 was launched June 28, 2010,[49] sponsored by the scientists of Harvard University's Department of Chemistry and Chemical Biology.[46] Further calculations about optical, electronic and other physical properties of the candidate materials are being conducted with the Q-Chem quantum chemistry software.[50]

Mapping Cancer Markers

Mapping Cancer Markers (launched November 8, 2013). The project aims to identify the markers associated with various types of cancer, and is analyzing millions of data points collected from thousands of healthy and cancerous patient tissue samples. These include tissues with lung, ovarian, prostate, pancreatic and breast cancers. By comparing these different data points, researchers aim to identify patterns of markers for different cancers and correlate them with different outcomes, including responsiveness to various treatment options. The project is focusing on 4 types of cancer, with the first focus being on lung cancer, and will move on to ovarian cancer, prostate cancer and sarcoma.[51][52]

Uncovering Genome Mysteries

Uncovering Genome Mysteries project launched on October 16, 2014 and is a joint collaboration between Australian and Brazilian scientists.[53] The project aims to examine close to 200 million genes from many life forms and compare them with known genes in order to find out what their function is. The results could have an effect in fields such as medicine and environmental research.

Outsmart Ebola Together

Outsmart Ebola Together is a collaboration with the Scripps Research Institute to help find chemical compounds to fight Ebola Virus Disease.[54] It was launched on 3 December 2014.[55] The aim is to block crucial steps in the life cycle of the virus, by finding drugs with high binding affinity with certain of its proteins. There are two targets: a surface protein used by the virus to infect human cells, and "transformer" proteins which change shape to carry out different functions.[56]

Completed projects

Help Fight Childhood Cancer

Help Fight Childhood Cancer project (launched March 13, 2009[57]) is sponsored by the scientists at Chiba Cancer Center Research Institute and Chiba University.[58] The mission of the Help Fight Childhood Cancer project is to find drugs that can disable three particular proteins associated with neuroblastoma, one of the most frequently occurring solid tumors in children. Identifying these drugs could potentially make the disease much more curable when combined with chemotherapy treatment.[59]

Say No to Schistosoma

Say No to Schistosoma (launched February 22, 2012[60]) was the 20th research project to be launched on World Community Grid. The researchers at Infórium University in Belo Horizonte and FIOCRUZ-Minas, Brazil, ran this project on World Community Grid to perform computer simulations of the interactions between millions of chemical compounds and certain target proteins in the hope of finding effective treatments for schistosomiasis.[61] As of April 2015, subsequent analysis had been performed, and the three most promising candidate substances had been identified for in-vitro testing.[40]

Human Proteome Folding – Phase 1

The first project launched on World Community Grid was the Human Proteome Folding Project, or HPF1, which aims to predict the structure of human proteins. The project was launched on November 16, 2004,[62] and completed on July 18, 2006.[62] This project was unique in that computation was done in tandem with the grid.org distributed computing project.[63] Devised by Richard Bonneau at the Institute for Systems Biology, the project used grid computing to produce the likely structures for each of the proteins using a Rosetta Score. From these predictions, researchers hope to predict the function of the myriad proteins. This increased understanding of the human proteins could prove vital in the search for cures to human diseases.[64] Computing for this project was officially completed on July 18, 2006.[65] Research results for the yeast portion of HPF1 have been published.[66]

Help Defeat Cancer

Main article: Help Defeat Cancer

The Help Defeat Cancer project seeks to improve the ability of medical professionals to determine the best treatment options for patients with breast, head, or neck cancer. The project was launched on July 20, 2006,[62] and completed in April 2007.[62] The project worked by identifying visual patterns in large numbers of tissue microarrays taken from archived tissue samples. By correlating the pattern data with information about treatment and patient outcome, the results of this project could help provide better targeted treatment options.[67]

Genome Comparison

The Genome Comparison project is sponsored by the Brazilian research institution Fiocruz.[68] The project was launched on November 21, 2006,[62] and completed on July 21, 2007.[62] The project seeks to compare gene sequences of different organisms against each other in order to find similarities between them. Scientists hope to discover what purpose a particular gene sequence serves in a particular function of one organism, via comparing it to a similar gene sequence of known function in another organism.[69]

Help Cure Muscular Dystrophy – Phase 1

Help Cure Muscular Dystrophy is run by Décrypthon, a collaboration between French Muscular Dystrophy Association, French National Center for Scientific Research and IBM. Phase 1 was launched on December 19, 2006,[68] and completed on June 11, 2007.[70] The project investigated protein–protein interactions for 40,000 proteins whose structures are known, with particular focus on those proteins that play a role in neuromuscular diseases. The database of information produced will help researchers design molecules to inhibit or enhance binding of particular macromolecules, hopefully leading to better treatments for muscular dystrophy and other neuromuscular diseases.[71] This project was available only to agents running the Grid MP client, making it unavailable to users running BOINC.[72]

Discovering Dengue Drugs – Together

Discovering Dengue Drugs – Together is sponsored by scientists at the University of Texas and the University of Chicago and will run in two phases.[73] Phase 1, launched August 21, 2007,[68] used AutoDock 2007 (the same software used for FightAIDS@Home) to test potential antiviral drugs (through NS3 protease inhibition) against viruses from the family flaviviridae and completed on August 11, 2009.[74][75] Phase 2 "[uses] a more computationally intensive program to screen the candidates that make it through Phase 1."[76] The drug candidates that make it through Phase 2 will then be lab-tested.[76]

Influenza Antiviral Drug Search

Influenza Antiviral Drug Search project is sponsored by Dr. Stan Watowich and his research team at The University of Texas Medical Branch (Galveston, Texas, USA).[77] The project was launched on May 5, 2009, and completed on October 22, 2009.[78] The mission of the Influenza Antiviral Drug Search project is to find new drugs that can stop the spread of an influenza infection in the body. The research will specifically address the influenza strains that have become drug resistant as well as new strains that are appearing. Identifying the chemical compounds that are the best candidates will accelerate the efforts to develop treatments that would be useful in managing seasonal influenza outbreaks, and future influenza epidemics and even pandemics.[79] Phase 1 of The Influenza Antiviral Drug Search project has already finished on October 22, 2009. Now the researchers are performing post-processing on the results from Phase 1 and are preparing for Phase 2.[78]

In November 2012, the project's scientists stated that, given the fact that there is no immediate danger of an influenza outbreak, all of the project's results would be posted online and their resources would be refocused on the Dengue Project.[80]

Nutritious Rice for the World

The Nutritious Rice for the World project is carried out by Ram Samudrala's Computational Biology Research Group at the University of Washington. The project was launched on May 12, 2008, and completed on April 6, 2010.[81] The purpose of this project is to predict the structure of proteins of major strains of rice, in order to help farmers breed better rice strains with higher crop yields, promote greater disease and pest resistance, and utilize a full range of bioavailable nutrients that can benefit people around the world, especially in regions where malnutrition is a critical concern. The project has been covered by more than 200 media outlets since its inception.[82] On April 13, 2010, World Community Grid officially announced that the Nutritious Rice for the World project finished on April 6, 2010.[81]

In April 2014, an update was posted stating that the research team was able to publish structural information about thousands of proteins, and advance the field of computational protein modeling. These results – which were only possible because of the massive amount of donated computing power they had available – are expected to guide future research and plant science efforts.[83]

Help Cure Muscular Dystrophy – Phase 2

World Community Grid and researchers supported by Decrypthon, a partnership between AFM (French Muscular Dystrophy Association), CNRS (French National Center for Scientific Research), Universite Pierre et Marie Curie, and IBM were investigating protein–protein interactions for more than 2,200 proteins whose structures are known, with particular focus on those proteins that play a role in neuromuscular diseases. Phase 2 was launched on May 12, 2009,[84] and completed on September 26, 2012. The database of information produced will help researchers design molecules to inhibit or enhance binding of particular macromolecules, hopefully leading to better treatments for muscular dystrophy and other neuromuscular diseases.[85]

Phase 2 of the Help Cure Muscular Dystrophy project began once the results from the first phase had been analyzed. Phase 2 ran on the BOINC platform.[20][86]

Computing for Sustainable Water

Computing for Sustainable Water was the 21st research project to be launched on World Community Grid. The researchers at the University of Virginia were running this project on World Community Grid to study the effects of human activity on a large watershed and gain deeper insights into what actions can support the restoration, health and sustainability of this important water resource.[87] The project was launched on April 17, 2012,[88] and completed on October 17, 2012.

Discovering Dengue Drugs – Together – Phase 2

Discovering Dengue Drugs – Together – Phase 2 (launched February 17, 2010[89]) is sponsored by The University of Texas Medical Branch (UTMB) in Galveston, Texas, USA and the University of Chicago in Illinois, USA. The mission is to identify promising drug candidates to combat the Dengue, Hepatitis C, West Nile, Yellow Fever, and other related viruses. The extensive computing power of World Community Grid will be used to complete the structure-based drug discovery calculations required to identify these drug candidates.[90]

The project finished in March 2013.

Help Conquer Cancer

Main article: Help Conquer Cancer

Help Conquer Cancer project (launched November 1, 2007[91]) is sponsored by the Ontario Cancer Institute (OCI), Princess Margaret Hospital and University Health Network of Toronto, Canada. The project involves X-ray crystallography. The mission of Help Conquer Cancer is to improve the results of protein X-ray crystallography, which helps researchers not only annotate unknown parts of the human proteome, but importantly improves their understanding of cancer initiation, progression and treatment.[92]

The HCC project was the first WCG project benefiting from graphics processing units (GPU)s which helped finish it a lot earlier than initially projected due to the massive power of GPUs. In the April 2013 status report[93] the scientists report there is still a lot of data to analyze but that they are preparing a new project that will search for prognostic and predictive signatures (sets of genes, proteins, microRNAs, etc.) that help predict patient survival and response to treatment. The project finished in May 2013.

GO Fight Against Malaria Project

The mission of the GO Fight Against Malaria project (launched November 16, 2011[94]) is to discover promising drug candidates that could be developed into new drugs that cure drug resistant forms of malaria. The computing power of World Community Grid will be used to perform computer simulations of the interactions between millions of chemical compounds and certain target proteins, to predict their ability to eliminate malaria. The best compounds will be tested by scientists at The Scripps Research Institute of La Jolla, California, U.S.A. and further developed into possible treatments for the disease.[95]

Human Proteome Folding – Phase 2

Human Proteome Folding - Phase 2 (HPF2) (launched June 23, 2006[68]) was the third project to run on World Community Grid, and completed in 2013. This project, following on from HPF1, focused on human-secreted proteins, with special focus on biomarkers and the proteins on the surface of cells as well as Plasmodium, the organism that causes malaria. HPF2 generates higher-resolution protein models than HPF1. Though these higher-resolution models are more useful, they also require more processing power to generate.[96]

In a July 2012 status report, the project scientists reported that the results generated by the WCG calculations are being used by Dr. Markus Landthaler of the Max Delbruch Center for Molecular Medicine (MDC) in Berlin. The HPF2 results helped Dr. Markus Landthaler and his collaborators in writing up a new paper on "The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts" available here. More papers describing the results of the HPF2 project are available at its website.

Drug Search for Leishmaniasis

Drug Search for Leishmaniasis (launched September 7, 2011[97]) is spearheaded by the University of Antioquia in Medellín, Colombia, with assistance from researchers at the University of Texas Medical Branch in Galveston, Texas. The mission is to identify potential molecule candidates that could possibly be developed into treatments for Leishmaniasis. The extensive computing power of World Community Grid will be used to perform computer simulations of the interactions between millions of chemical compounds and certain target proteins. This will help find the most promising compounds that may lead to effective treatments for the disease.[98]

Computing for Clean Water

Computing for Clean Water (launched September 20, 2010[99][100]) is sponsored by the Center for Nano and Micro Mechanics of Tsinghua University in Beijing. The project's mission is to provide deeper insight on the molecular scale into the origins of the efficient flow of water through a novel class of filter materials. This insight will in turn guide future development of low-cost and more efficient water filters. It is estimated that 1.2 billion people lack access to safe drinking water, and 2.6 billion have little or no sanitation. As a result, millions of people die annually – an estimated 3,900 children a day due to a lack of clean water.[101] On April 25, 2014, the project scientists released an update stating that they had exciting results to report when the paper is submitted and that the project on WCG was finished.[102]

Inactive projects

AfricanClimate@Home

The mission of AfricanClimate@Home was to develop more accurate climate models of specific regions in Africa. It was intended to serve as a basis for understanding how the climate will change in the future so that measures designed to alleviate the adverse effects of climate change could be implemented. World Community Grid's tremendous computing power was used to understand and reduce the uncertainty with which climate processes were simulated over Africa. Phase 1 of African Climate@Home launched on September 3, 2007,[103] and ended in July 2008.[104] There are currently no plans for a second phase.

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