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 Information integration and artificial intelligence for better diagnosis and therapy decisions
24.05.2017 | Fraunhofer MEVIS - Institut für Bildgestützte Medizin

nachricht World's thinnest hologram paves path to new 3-D world
18.05.2017 | RMIT University

All articles from Information Technology >>>

The most recent press releases about innovation >>>

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

Im Focus: Strathclyde-led research develops world's highest gain high-power laser amplifier

The world's highest gain high power laser amplifier - by many orders of magnitude - has been developed in research led at the University of Strathclyde.

The researchers demonstrated the feasibility of using plasma to amplify short laser pulses of picojoule-level energy up to 100 millijoules, which is a 'gain'...

Im Focus: Can the immune system be boosted against Staphylococcus aureus by delivery of messenger RNA?

Staphylococcus aureus is a feared pathogen (MRSA, multi-resistant S. aureus) due to frequent resistances against many antibiotics, especially in hospital infections. Researchers at the Paul-Ehrlich-Institut have identified immunological processes that prevent a successful immune response directed against the pathogenic agent. The delivery of bacterial proteins with RNA adjuvant or messenger RNA (mRNA) into immune cells allows the re-direction of the immune response towards an active defense against S. aureus. This could be of significant importance for the development of an effective vaccine. PLOS Pathogens has published these research results online on 25 May 2017.

Staphylococcus aureus (S. aureus) is a bacterium that colonizes by far more than half of the skin and the mucosa of adults, usually without causing infections....

Im Focus: A quantum walk of photons

Physicists from the University of Würzburg are capable of generating identical looking single light particles at the push of a button. Two new studies now demonstrate the potential this method holds.

The quantum computer has fuelled the imagination of scientists for decades: It is based on fundamentally different phenomena than a conventional computer....

Im Focus: Turmoil in sluggish electrons’ existence

An international team of physicists has monitored the scattering behaviour of electrons in a non-conducting material in real-time. Their insights could be beneficial for radiotherapy.

We can refer to electrons in non-conducting materials as ‘sluggish’. Typically, they remain fixed in a location, deep inside an atomic composite. It is hence...

Im Focus: Wafer-thin Magnetic Materials Developed for Future Quantum Technologies

Two-dimensional magnetic structures are regarded as a promising material for new types of data storage, since the magnetic properties of individual molecular building blocks can be investigated and modified. For the first time, researchers have now produced a wafer-thin ferrimagnet, in which molecules with different magnetic centers arrange themselves on a gold surface to form a checkerboard pattern. Scientists at the Swiss Nanoscience Institute at the University of Basel and the Paul Scherrer Institute published their findings in the journal Nature Communications.

Ferrimagnets are composed of two centers which are magnetized at different strengths and point in opposing directions. Two-dimensional, quasi-flat ferrimagnets...

All Focus news of the innovation-report >>>

Anzeige

Anzeige

Event News

Marine Conservation: IASS Contributes to UN Ocean Conference in New York on 5-9 June

24.05.2017 | Event News

AWK Aachen Machine Tool Colloquium 2017: Internet of Production for Agile Enterprises

23.05.2017 | Event News

Dortmund MST Conference presents Individualized Healthcare Solutions with micro and nanotechnology

22.05.2017 | Event News

 
Latest News

New insights into the ancestors of all complex life

29.05.2017 | Earth Sciences

New photocatalyst speeds up the conversion of carbon dioxide into chemical resources

29.05.2017 | Life Sciences

NASA's SDO sees partial eclipse in space

29.05.2017 | Physics and Astronomy

VideoLinks
B2B-VideoLinks
More VideoLinks >>>