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Content about Health

July 13, 2011

It isn't easy to make grids user-friendly. Find out what lessons Vincent Breton, lead for the French NGI, learned while developing a system to monitor bird flu in Vietnam.

December 15, 2010

A new grid application may help biologists solve the structures of mystery proteins.

October 6, 2010

Feature - Achilles tendon a blessing, not a curse

Sprinters lining up for the start of the Women’s 100-meter at the Beijing Olympics. Image courtesy LIM CK, under Creative Commons license.

Compared with other runners on this planet, humans are feeble.
If Olympic sprinters competed against mammals of comparable size, they would never even qualify for the finals. The top speed for an in-shape male human is normally between 15 and 18 miles per hour (24 to 29 kilometers per hour). The world record is 27 mph (43kmh), and that was sustainable for only a few seconds.
Meanwhile, horses have been clocked at about 48 miles per hour, wolves about 42, and the speed champion — the cheetah — at 70 miles per hour. (That’s about 77 kmh, 68 kmh, and 113 kmh, respectively.)
Even warthogs are faster than us.
But in the field of endurance racing however, we leave everyone else in the dust. Over long distances, a well-trained human can outrun a horse.
What is the ke

August 11, 2010

Announcement - DECIDE launch event, 23 September, Rome, Italy

Photo courtesy DECIDE

On behalf of the Project Consortium, it is my pleasure to invite you to the DECIDE project launch event, which will take place on next 23 September 2010 in Rome. Co-funded by European Commission as a part of FP7, DECIDE (Diagnostic Enhancement of Confidence by an International Distributed Environment) aims at designing, implementing, and validating a GRID-based e-Infrastructure and service for the computer-aided extraction of diagnostic disease markers for Alzheimer's disease and schizophrenia from medical images. The public launch event is intended to present the DECIDE objectives and work plan to projects, organizations and communities that work in the field of e-Health and are likely to liaise and collaborate with the project, as well as to benefit from its results. The event will be held at Spazio Europa, the public space of the European Commission's Representation in Italy, located in Via IV Novembre

July 14, 2010

Feature - RadiotherapyGrid

Gamma-ray map for treatment. Image courtesy BEinGRID

Cancer is Europe’s second largest cause of death. One of the most common and effective treatments is external radiotherapy, where a Linear Accelerator (Linac) attacks the cancerous tissue with radiation delivered from several different directions. The treatment plan — the direction, size and length of dosages — has to be carefully calculated to avoid damaging healthy tissue. These calculations can take a long time — speeding up this process would allow earlier treatment and more patients to be treated.RadiotherapyGrid is a solution based on grid technology that helps hospitals plan the best possible treatment for each patient. It has two core functions: verification of plans using accurate — but computationally expensive — techniques; and searching for the optimal treatments. These tools improve the efficiency and effectiveness of planned treatm

July 7, 2010

Link of the week - GridCast blogs from HealthGrid 2010

Posters on display at HealthGrid 2010.
Image courtesy of Daniela Skrowny.

Last week, HealthGrid 2010 attendees gathered in Orsay, France to discuss the state of the art for integration of grid practices into the fields of biology, medicine, and health. Naturally, GridCast bloggers were there to cover it.
Over the course of the three-day conference, GridCast bloggers posted four videoblogs and six blog posts, including:

Daniela Skrowny, a computational medicine and grid computing researcher, writes about the highlights of a poster session.
Faustin Roman, a grid researcher, closes out the conference by sharing his overall impressions.
HealthGrid’s Executive Director Samuel Keuchkerian writes in response to Joan Dzenowagis’ keynote presentation.

Check it all out at the link of the week!

June 30, 2010

Feature - Computing a way out of poverty

In northwest Bangladesh, 72% of the population live below the poverty line, according to the Asian Development Bank. Photo here and on front page courtesy of ADB and Eric Sales, from an ADB Photo Essay entitled New Hope for Bangladesh’s Extreme Poor. 

In the Philippines, the Asian Development Bank and grid specialists are getting together to figure out best investment strategies for Asia’s poorest regions.
One of the outcomes of the EUAsiaGrid Project, funded by the European Commission under Framework Program 7, has been to spark new grid-based collaborations in Southeast Asia.
One example is the result of a meeting that occurred last October, when representatives from EUAsiaGrid partners went to the Asian Development Bank (ADB) Headquarters in Manila, The Phillipines, to explore ways to model the impact of poverty alleviation investments that ADB makes.
In the past, investments by development banks such as the ADB and the

June 23, 2010

Announcement - NSF announces Smart Health and Wellbeing program

The National Science Foundation announced on 11 June 2010 a new cross-cutting program called “Smart Health and Wellbeing,” for which they are accepting proposals.
Jeannette Wing, Assistant Director for NSF/CISE, wrote in a blog post, “We are looking for your great ideas for how advances in computer and information science and engineering can transform the nature and conduct of healthcare and wellness as we know it today.”
For more information, please visit the program solicitation.

June 23, 2010

Feature - Cancer researchers speed crystallography

Scientists have trained a system to recognize the formation of 3-D protein crystals, automating a time-intensive, manual process necessary for scrutinizing the structure of cancer-related proteins.
Image courtesy of IBM and the World Community Grid.

Using the World Community Grid, scientists at the Help Conquer Cancer Project have found a way to automate and speed up protein crystallography, according to a recent paper in the Journal of Structural and Functional Genomics.
X-ray crystallography is the process of using x-rays to map the structure of crystals. Although biological molecules such as proteins and DNA are not normally crystalline in form, they can be prompted to form crystals through exposure to the right chemical compounds. Once crystallized, the scientists can use x-rays to map the protein; knowing the structure of a protein is invaluable to scientists who are trying to understand how a protein interacts with the human

June 16, 2010

Feature - Grid makes drug discovery “crystal clear” Real crystals grown in the lab overlaid with a computer-generated crystal structure. Image courtesy OMII-UK From aspirin to the most sophisticated and specialized drugs, it is difficult to overstate the impact that pharmaceutical chemistry has made on modern medicine. Less widely known is that a drug’s operation is dictated by a host of properties that depend on the drug’s crystal structure. A new drug might be the silver bullet for a killer virus, but if it dissolves at the wrong rate in the human bloodstream, it may be useless - or dangerous. In legal matters, patents apply only to a single crystalline form. It’s therefore no surprise that big pharmaceutical companies and other researchers are eager for a computational technique that can predict the possible crystal structures of amolecule. Crystal-structure prediction aims to provide that technique.The hitch has been harnessing the computing resour

May 12, 2010

SAFE-BioPharma - A new domain standard for secure identity

Mollie Shields-Uehling, pictured above, is the CEO of the SAFE-BioPharma Association. Image courtesy Mollie Shields-Uehling.

In medical and pharmaceutical research, researchers deal with sensitive private information on a daily basis. That makes secure identity management a crucial need. Mollie Shields-Uehling is the CEO of the SAFE-BioPharma Association, a non-profit organization charged with creating a standard that meets that need.
iSGTW: Thank you for joining us for this discussion, Mollie. Could you tell us a little bit about SAFE-BioPharma?
Shields-Uehling: SAFE-BioPharma Association is a non-profit industry collaboration established by the world's leading biopharmaceutical companies to develop and maintain a global interoperable digital identity and signature standard for the biopharmaceutical and healthcare communities. The purpose of the standard is to allow the transformation of business and regulatory process to

April 14, 2010

Feature - Mean Shift Smoothie interprets medical images 66 times faster

One of the very first X-rays, taken by William Röentgen in 1896, and showing his wife’s hand. What is the dark blob on one finger?* Image courtesy Wikipedia
*Answer at very bottom of this article.

As any lay-person who has ever looked at an X-ray knows, it can be very difficult to tell what you are looking at, let alone differentiate what is healthy from what is diseased or damaged or otherwise not normal human tissue. (See image at right.)Pity the poor medical expert, then, who must deal with not only two-dimensional images but also interpret information from three-dimensions, such as is the case with magnetic resonance imaging or computer-aided tomography, to name just two imaging modes. These multidimensional data bring additional information, but are also much more difficult to process and interpret.But with advanced algorithms such as clustering, the really useful informatio

March 10, 2010

Feature - Dealing with dengue

Close-up of the Aedis aegypti mosquito that carries dengue. Image courtesy Centers for Disease Control and Prevention (CDC)

First, you get a bad headache. Then your joints feel like they are being crushed. This is followed by fever and a bright red rash on your legs and chest. You may also start vomiting or have diarrhea. This is dengue fever, and it affects two-fifths of the planet’s population. Thanks to the EUAsiaGrid project, grid technology is doing its part to help reduce the burden of this devastating disease.
For most, dengue fever passes after a very unpleasant week, but for some it leads to dengue haemorrhagic fever, which is often fatal. Like malaria, dengue is borne by mosquitoes. Unlike malaria, though, it affects people in cities as much as in the countryside. As a result, it has a particularly high incidence in heavily populated parts of South–East Asia, where it is a significant source of infant mortality in several countrie

February 17, 2010

Video of the week - Computational analysis methods and issues in neuroscience

A talk given by University of California, Berkeley doctoral candidate Bradley Voytek, uploaded on 14 January 2010. Video courtesy of Google engEDU Tech Talks Channel on YouTube.

Love them or hate them, you have to admit that Google has been a regular source of innovation throughout the years.
So it should come as no surprise that Google fosters creativity in their employees by regularly hosting talks from researchers in a wide variety of fields ranging from current affairs, science, engineering, humanities, business, law, entertainment, medicine, and the arts.
In keeping with Google's usual culture, they post these talks on YouTube at a rate of about two each week. The top three most viewed talks? “Sex on the Internet,” with 1,492,499 views; “How to count all human carbon,” with 228,633 views; and “jQuery,” with 189,719 views. The three highest rated videos, on the othe

December 9, 2009

Announcement - US eHealth Collaborative seeks board members

Image courtesy NeHC.

National eHealth Collaborative is now accepting nominations for leaders in the health and healthcare fields to serve on the NeHC Board of Directors.
National eHealth Collaborative is a public-private partnership developed through an open, multi-year, multi-stakeholder process and operates under a cooperative agreement with the Office of the National Coordinator for Health Information Technology (ONC). As NeHC turns the corner into its second year, NeHC leaders are looking to their many stakeholders for recommendations on who should be asked to fill vacancies on the NeHC Board of Directors.
“By encouraging the broad adoption and use of health information technologies and electronic health information exchange, we help to create a true patient-centered health system. Public and private sector efforts to expand funding and develop policies and standards are having a significant impact in driving this mo

November 18, 2009

Feature - HSVO connects the dots

A screen capture of HSVO's patient simulator user interface. This mock-up of the patient simulator used videos from a training scenario in which students had to save the life of a teenager severely injured during a basketball game. An advanced mannequin stands in for the teenager. During this particular scenario, the students and mannequin were located in Montreal, the mannequin operator and a tutor were in Ottawa, and another tutor was located in Sudbury, Ontario. Image courtesy of McGill University and HSVO.

Don’t let the name of Health Services Virtual Organization fool you. If HSVO is a success, it will be proof of concept for generic middleware that enables cloud-based workflows to access any number of services. And that could have implications for any scientific field.
Web portals that give researchers access to data, services, applications and computational resources are becoming increasingly common. Researchers can access a variety of servi

November 11, 2009

Feature - Big science facilities meet the cloud

Dylan Maxwell explains the Science Studio system to a bystander at Summit 2009 in Banff, Alberta. Photo by Miriam Boon.

Lab notebooks are so passé. In the brave new world of cloud computing, the entire experimental process will take place in your web browser.
And if a team of Canadian researchers at the University of Western Ontario and the Canadian Light Source in Saskatchewan has anything to say about it, researchers around the world will be using a web platform called Science Studio.
“One of the aims of Science Studio is to be able to access big science facilities such as the Canadian Light Source,” said Marina Fuller, a chemistry researcher with the project. “It’s a complete experiment management system.”
The test case for Science Studio is the VESPERS beamline at the Canadian Light Source synchrotron. When Science Studio is complete in 2011, researchers will be able to use the platform to apply

November 4, 2009

Feature - Vietnam welcomes three new grid sites; hospitals get new ‘HOPE’

Participants from ACGRID school at Institute for Francophone Informatics (IFI) in Hanoi, October 2009. Image courtesy ACGRID. Image of Vietnamese flag on front page courtesy Wikipedia/Creative Commons

Vietnam hosts some of the world’s most biodiverse areas — with six biosphere reserves — along with one of the lowest unemployment rates in the third world and, as of last month, three of the newest grid sites to join the world’s largest grid computing infrastructure.EUAsiaGrid was launched in April of 2008 to foster grid computing technology within Asia, and to create ties between the e-Infrastructure communities of Asia and Europe. Last month, EUAsiaGrid partners co-organized with the French research institute Centre National de la Recherche Scientifique (CNRS) the second ACGRID school, or Advanced Computing and Grid Technologies for Research, to train current and up

September 9, 2009

Feature - A SLiM chance for viruses

Viruses hijack the replication machinery of cells. Image courtesy Simon Hettrick

Viruses have evolved a clever way of reproducing. They hijack the replication machinery of their host cell, which is controlled and regulated by a variety of signaling pathways, and fool them into producing copies of the virus.
Richard Edwards, head of the Bioinformatics and Molecular Evolution group at the University of Southampton, UK, is trying to better understand signaling pathways in order to develop treatments for viruses — and for diseases that operate similarly.  This is an enormous task, because to understand signaling pathways in the human body requires studying the interactions between the 20,000 or so proteins contained within the cells.
To do so, Edwards is focusing on short, linear motifs known as SLiMs. “A protein can be thought of as a sequence of amino acids, like beads on a string” explains Edwards. “[SLiMs] consist o

August 26, 2009

Feature - Asian computers join forces against avian flu

Computer simulation of potential drug candidate attacking avian flu virus. Image courtesy Dr. Ying-Ta Wu, Academia Sinica, Taiwan 

Dealing with deadly diseases is not just a matter of test-tubes and petri dishes. Increasingly, grid computing is being used to simulate the ways that new drugs could attack viruses, looking for a magic bullet that could cure diseases or even prevent epidemics.
Computers can simulate a large number of chemical compounds and measure their ability to fit snugly into the chemical coating of a virus, thereby blocking its ability to function properly. Launched in March 2009, this so-called “Avian Flu DC2 Refinement” is the latest attack on avian flu using grid computing power. This initiative is supported by the EUAsiaGrid community, a partnership of Asian and European research institutions co-funded by the European commission to foster new uses of grid computing for science and society

August 26, 2009

Feature - Improving Alzheimer’s research, a million scans at a time

Alzheimer’s is one of the most feared diseases associated with aging. Fortunately, early detection can slow its development. Image courtesy stock.xchng

As you read this, your brain is busily working. In a complex but unconscious process, it scans the pixels on your screen, analyzes the images and turns them into meaningful information.
This week, a similar work began, neuGRID, that might help keep our minds whirring wonderfully as we (alas) age.
This massive scanning project will feed 6,300 magnetic resonance (MR) scans from more than 700 patients — a bit less than 200 images per patient, making for an impressive total of 1,260,000 images — through an automated series of calculations. This “pipeline” will analyze the cortical thickness of the brain (a measurement aligned with brain health) and its deterioration over time. The images are from the Alzheimer’s Disease Neur

August 12, 2009

 

Video of the Week: Health-e-Child documentary

Athenaweb, one of the hosts for the Health-e-Child video, can be thought of as “the YouTube of science,” with hundreds of films and videos available. Image courtesy Athenaweb 

The Health-e-Child project (See iSGTW 28 May, 2008 and the 8 July, 2009 HealthGrid roundup) has video documentaries about its work that can now be seen as broadcasts on the Euronews website. (Click on the “Science-Tech” banner up on the right.) The first broadcast is entitled “New frontiers of imaging the human body.”
All European public televisions and main private ones receive the broadcasts, and some of them will be re-aired during the summer. 
They are also accesible on YouTube and other smaller, regional streaming online websites. The reports will be also broadcast on athenaweb.org, a website specializing in Worldwide Research TV reports.
A special broadcast has also been scheduled for Friday, September

July 8, 2009

News of the Week - HealthGrid roundup

Brandenburg Gate. Image courtesy stock.xchng 

 

Last week, Berlin hosted the 7th HealthGrid conference, from 29 June – 1 July. The feeling pervading the event was that the HealthGrid community had progressed a long way — and yet for grids to reach their full promise in the area of health care, a lot of work remains.“I first participated in the conference three years ago in 2006,” said Xin Zhou, a conference presenter and maintainer of the grid infrastructure inside the University of Geneva Hospital. He added, “Back then, we were talking about ‘the plan.’ Many people then presented what they were going to do; now they are presenting the applications. This represents real progress in the research domain and shows movement towards practice.”Simple intuitive interfaces, appealing to non-specialist users, were an oft-called for commodity. In a demonstration of just such an interface, Tobi

July 1, 2009

Feature - Cancer Knowledge Cloud for a new generation of medicine

Kenneth Buetow, shown speaking at a conference in 2005.Image courtesy of NCRI.

Kenneth Buetow is the National Cancer Institute’s Associate Director of Bioinformatics and IT, and Director of the Center for Biomedical Informatics and IT, where he initiated and oversees the caBIG (cancer Biomedical Informatics Grid) program. He spoke last April at the Bio-IT World conference on caBIG: An interoperable IT framework for uniting research and care.
Thinking BIGKen Buetow thinks BIG.  He envisions what he calls a Cancer Knowledge Cloud — an IT environment designed to foster information connectivity among cancer patients, cancer researchers and clinical care providers. This environment, powered by caBIG tools and infrastructure, would enable a continuous and accelerated cycle of discovery, diagnostic and pharmaceutical product development, and improved clinical care.Cancer care and research still operate on a lin

June 17, 2009

Feature - Grid-enabled virus hunting

3D replica of senecavirus, a pathogen discovered several years ago by researchers in Pennsylvania. UC San Francisco researcher Eric Delwart and his colleague Chunlin Wang of Stanford University use the RENCI-developed TeraGrid Science Gateway and the Open Science Grid to access grid computing resources in their search for new viruses.
Image courtesy of the Institute for Animal Health, UK

Researchers use distributed computing to make sequence analysis faster and easier.DNA sequencing and sequence analysis happens daily in many biological sciences laboratories, but analyzing large sets of genetic data increasingly requires computing resources beyond the capabilities of most labs. The search for the best hardware and software led Eric Delwart, a professor of laboratory medicine at the University of California, San Francisco, and a senior investigator at the Blood Systems Research Institute, and Chunlin Wang, a research associate at the Stanford Univ