Forum for Science, Industry and Business

Sponsored by:     3M 
Search our Site:

 

Online analytical toolbox for cancer and other biomedical research

27.06.2005


A new website, biogeowarehouse.cse.psu.edu, offers a prototype for online access to an analytical toolbox that enables biomedical researchers to integrate dissimilar data from a variety of sources and extract the most useful information from it by posing queries.



Dr. Raj Acharya, professor of computer science who headed the site development project, says, "Right now, the prototype focuses on prostate cancer data but our online toolbox could be used for dissimilar data sets for any disease."

For example, using the prostate cancer data sets, researchers can pose questions such as the following: What percentage of the patients recorded have a family history of prostate cancer? or How many patients have been categorized with different pathologic T stages? or Give me the average expression vector for patients with Gleason sum score of 4.


To come up with answers, the toolbox applies information fusion techniques to integrate multiple and dissimilar data sets so that all of the relevant data can be used simultaneously in advanced analysis.

Acharya says information fusion is new to the biological sciences as well as some of the other tools in the online toolbox, including software he and his research group developed to combine gene information with gene sequence information.

The toolbox is detailed in a paper, "An Online Analysis and Information Fusion Platform for Heterogeneous Biomedical Informatics Data," presented Thursday, June 23, at the IEEE Conference for Computer Based Medical Systems in Dublin, Ireland. The software will also be demonstrated during the International Symposium on Intelligent Systems for Molecular Biology on Wednesday, June 29, in Detroit, MI. The authors are Srivatsava Ranjit Ganta, doctoral candidate in computer science; Jyotsna Kasturi, doctoral candidate in computer science; Dr. John Gilbertson, M.D., assistant professor of cellular and molecular pathology, University of Pittsburgh, School of Medicine; and Acharya, who is also head of Penn State’s Department of Computer Science and Engineering.

The online toolbox uses data fusion techniques originally developed by the military to fuse laser radar, heat sensor and TV images as well as other information. The fusion software puts the data together in a way that makes it possible to consider all of it that is relevant to a particular question.

Current biomedical research requires analysis of patient demographics, clinical and pathology data, treatment history, and patient outcomes as well as gene expression, sequence and gene ontologies. Acharya says the extent of knowledge that can be extracted from any of the individual data sets is limited. However, using the online toolbox researchers can perform analyses in an integrated manner that could lead to better disease diagnosis, prognosis, treatment and drug discovery.

The toolbox performs information fusion using multidimensional analysis and clustering techniques. For example, to answer the question, Give me the average expression vector for patients with Gleason sum score of 4, the software classifies the data sets into categories from which the user chooses the facts and dimensions. Based on this selection, the system presents the user with an initial view of the information subset. The user is then allowed to explore this subset and further focus on the knowledge of interest by using the operations: Summarize and Detail.

Barbara Hale | EurekAlert!
Further information:
http://www.psu.edu

More articles from Information Technology:

nachricht New Foldable Drone Flies through Narrow Holes in Rescue Missions
12.12.2018 | Universität Zürich

nachricht NIST's antenna evaluation method could help boost 5G network capacity and cut costs
11.12.2018 | National Institute of Standards and Technology (NIST)

All articles from Information Technology >>>

The most recent press releases about innovation >>>

Die letzten 5 Focus-News des innovations-reports im Überblick:

Im Focus: An energy-efficient way to stay warm: Sew high-tech heating patches to your clothes

Personal patches could reduce energy waste in buildings, Rutgers-led study says

What if, instead of turning up the thermostat, you could warm up with high-tech, flexible patches sewn into your clothes - while significantly reducing your...

Im Focus: Lethal combination: Drug cocktail turns off the juice to cancer cells

A widely used diabetes medication combined with an antihypertensive drug specifically inhibits tumor growth – this was discovered by researchers from the University of Basel’s Biozentrum two years ago. In a follow-up study, recently published in “Cell Reports”, the scientists report that this drug cocktail induces cancer cell death by switching off their energy supply.

The widely used anti-diabetes drug metformin not only reduces blood sugar but also has an anti-cancer effect. However, the metformin dose commonly used in the...

Im Focus: New Foldable Drone Flies through Narrow Holes in Rescue Missions

A research team from the University of Zurich has developed a new drone that can retract its propeller arms in flight and make itself small to fit through narrow gaps and holes. This is particularly useful when searching for victims of natural disasters.

Inspecting a damaged building after an earthquake or during a fire is exactly the kind of job that human rescuers would like drones to do for them. A flying...

Im Focus: Topological material switched off and on for the first time

Key advance for future topological transistors

Over the last decade, there has been much excitement about the discovery, recognised by the Nobel Prize in Physics only two years ago, that there are two types...

Im Focus: Researchers develop method to transfer entire 2D circuits to any smooth surface

What if a sensor sensing a thing could be part of the thing itself? Rice University engineers believe they have a two-dimensional solution to do just that.

Rice engineers led by materials scientists Pulickel Ajayan and Jun Lou have developed a method to make atom-flat sensors that seamlessly integrate with devices...

All Focus news of the innovation-report >>>

Anzeige

Anzeige

VideoLinks
Industry & Economy
Event News

ICTM Conference 2019: Digitization emerges as an engineering trend for turbomachinery construction

12.12.2018 | Event News

New Plastics Economy Investor Forum - Meeting Point for Innovations

10.12.2018 | Event News

EGU 2019 meeting: Media registration now open

06.12.2018 | Event News

 
Latest News

Success at leading conference on silicon materials science and technology in Japan

13.12.2018 | Awards Funding

NSF-supported scientists present new research results on Earth's critical zone

13.12.2018 | Earth Sciences

Barely scratching the surface: A new way to make robust membranes

13.12.2018 | Materials Sciences

VideoLinks
Science & Research
Overview of more VideoLinks >>>