Internet-Based Grid Computing
By Denny Lancaster
An open letter to members of D'Wild West (A The Site Fights Team) was sent in October 2000, which is below. After seven years the UD grid accomplished its goals and remains silent as of Friday April 27, 2007.
The research centered on proteins that were been determined to be a possible target for cancer therapy. Through a process called virtual screening, special analysis software identified molecules that interacted with these proteins, and determined which of the molecular candidates had a high likelihood of being developed into a drug. The process is similar to finding the right key to open a special lock by looking at millions upon millions of molecular keys.
Participants in the Cancer Research Project were sent a ligand library over the Internet. Their PC analyzed the molecules using a docking software called LigandFit by Accelrys. The LigandFit software analyzed the molecular data by using a three-dimensional model to attempt to interact with a protein binding site. When a ligand docked successfully with a protein, the resulting interaction was scored and the interactions that generated the highest scores were recorded and filed for further evaluation.
We need a better answer. Over five decades of cancer research effort in drug discovery and development have yielded more than 40 drugs for the treatment of cancers. These anti-cancer drugs are extending the lives of many people with cancer, but often at great cost. The side effects commonly associated with cancer therapy often may seem as bad as the disease itself. Side effects can be so severe that they limit the dosages patients can receive. And half of all cancer patients fail to respond to the therapies currently available.
Despite these shortcomings, these therapies are still quite costly a considerable amount of money is spent on treating cancer. Treatment of cancers account for over 6% of all health care costs. The National Institutes of Health estimate cancer is responsible for $37 billion for direct medical costs, and $11 billion in lost productivity due to illness. The discovery of new drugs represents the best hope to fight both the rising medical costs and the suffering associated with current cancer therapies.
There could hardly be a scourge more worth fighting the high mortality rate, the suffering experienced by patients, and the high costs of treatment make fighting this disease a research priority.
Even with extensive pre-screening, the whittled-down number of molecules to review for this project is estimated at over two hundred million for each protein a daunting number. Analyzing this quantity of anything requires an enormous amount of computational power. And when the numbers are this big, even supercomputing is limited. A super computer has a peak capacity. That is, if a workload is three times the capacity of the computer, the jobs must be queued up and attacked consecutively. A project like this one might take so much time that a researcher wouldn't even embark on it he or she wouldn't see the end result in their lifetime. However, with distributed computing, thousands or even millions of individual computers can each work on different molecules simultaneously, and the time to results can be significantly lessened.
Diana Campbell's Letter
I have had Stage IV Breast Cancer (metastases to the bones) since Sept. 2000, and was first diagnosed as Stage IIIB in January, 1992. The past decade has been a roller coaster ride and if you, a family member or friend has cancer, then you know what I'm talking about.
I began researching Stage IV Breast Cancer in the summer of 1999 when an X-ray during a checkup showed a suspicious sliver on a back rib. Many months later, this sliver was a huge tumor, but it had previously biopsied negative. I had a feeling something was not right so I began researching. I found there was not as much info on Stage IV as there was on Breast Cancer prevention and awareness as well as early stage, primary diagnosis and treatment.
So I created this website and the associated Survivor webring, email lists, research project and stores. My goal was to provide the information here that we all want to know at this Stage -- mostly associated with what we can do to prolong our lives. I am in the process of updating and adding but I hope this site will be of some help to you. Please join the UD grid too as this project will help speed cancer research and possibly help me and others too very shortly as we cope with stage IV breast cancer.
Diana Campbell
Diana passed away on February 19, 2003
Within a month of joining Diana's team in December 2000 I found that cancer had vested itself in my frailer human body too.
The initial team which Diana formed began to dwindle as cancer took its ugly toll. Wishing always remember my dear friend and make a contribution, my resources were transferred to the AS! team-CureNow. AS! is now exploring forming another team with broader appeal beyond the very small awards community and will be making a decision in the very near future. I will certainly join and a new team graphic with a link will be updated in this space.
To keep the memory of Diana alive there are now various Internet-based grid computing schemas available, thanks to the pioneering work of Oxford University and United Devices.
The World Community Grid software uses the idle time of Internet-connected computers and applies this computing power toward the advancement of humanity.
The agent works like a screen saver, only using a computer's resources when it would otherwise be idle and relinquishing the resources back to the users when they start using the computers again. The agent can also be run like an application, always running in the background unless specifically disabled/paused.
While many public computing grids such as SETI@home or Folding@home have been devoted to a single project, the World Community Grid offers multiple humanitarian projects under a single umbrella. Projects are approved by an advisory board, with members from most of the major research institutions and universities, as well as the UN and WHO.
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 attempts to inspire competitiveness.
World Community Grid also differs from other grid projects by offering support for more than one grid infrastructure. The open source BOINC client is available for Linux, Windows, and Mac; the proprietary Grid MP from United Devices Inc. is only available for Windows.
History
The United Devices Smallpox Research Grid Project was sponsored by IBM and other Research Participants to accelerate the discovery of a smallpox cure. The Smallpox study employed computational chemistry on a massive distributed computing grid to analyze candidates for a medical therapy to fight the smallpox virus.
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 and 44 strong treatment candidates were identified at the completion of the project.
Based on the success of the Smallpox study, IBM announced on November 16, 2004 the creation of World Community Grid with the goal of creating a technical environment where other humanitarian research could be processed.
World Community Grid initially only supported Windows, using the proprietary grid technology from United Devices which powers grid.org projects. Strong demand for Linux support led to the open source BOINC grid technology which powers the Seti@home and Climateprediction (among others) being added. Mac OS X support is now also included.
As of March 24, 2007, the World Community Grid had nearly 272,000 members with over 550,000 registered work stations. It had a total process run time equivalent to about 82,000 years and about 80 million results have been sent. The World Community Grid updates these statistics several times a day, making the information available through a dedicated statistics page.
APEX
Article Source: http://EzineArticles.com/?expert=DennyLancaster
http://EzineArticles.com/?Internet-Based-Grid-Computing&id=553920
