Forum for Science, Industry and Business

Sponsored by:     3M 
Search our Site:

 

Spanish Scientists Develop Powerful New Tool For Exploration And Integration Of Biological Information

06.07.2004


Robert Hoffmann and Alfonso Valencia of the Spanish National Centre of Biotechnology (CNB/CSIC) in Madrid have developed a new web-based tool called iHOP (Information Hyperlinked over Proteins) to help researchers explore scientific literature and integrate information in a more controlled and targeted manner.



Reporting in the Nature Genetics journal (Nature Genetics 36, 664, 01 Jul 2004), the two scientists describe how iHOP, which was developed as part of the EU-funded ORIEL and TEMBLOR projects, converts the 14 million abstracts in the PubMed (National Library of Medicine) bibliographic database into a network of interlinked references to genes, proteins, mutations, diseases and (bio)chemical compounds. By using genes and proteins as hyperlinks between sentences and articles, iHOP makes the information stored in PubMed accessible as one navigable resource.

Technology


The technology behind iHOP is a combination of state-of-the-art components and novel in-house developments. Key features are the organisation of textual and genomic information in a relational database and the use of the latest text-mining technology for the detection of biomedical entities in natural text. Production of state data is based entirely on XML technology and avoidance of complex front-end database queries means response times are extremely fast.

Connecting biomedical concepts

While conventional keyword searches result in long and not always informative lists of abstracts, navigation along this gene-guided network allows for a stepwise and controlled exploration of the information space. The iHOP system shows that distant medical and biological concepts can be related by surprisingly few intermediate genes; the shortest path between any two genes involving on average only four steps.

Hoffmann and Valencia expect this highly connected network to trigger a revolution in new text-mining tools that will bring biomedicine within closer reach of both the scientific community and the wider public.

Les Grivell | alfa
Further information:
http://www.embo.org

More articles from Life Sciences:

nachricht Small but ver­sat­ile; key play­ers in the mar­ine ni­tro­gen cycle can util­ize cy­anate and urea
10.12.2018 | Max-Planck-Institut für Marine Mikrobiologie

nachricht Carnegie Mellon researchers probe hydrogen bonds using new technique
10.12.2018 | Carnegie Mellon University

All articles from Life Sciences >>>

The most recent press releases about innovation >>>

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

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...

Im Focus: Three components on one chip

Scientists at the University of Stuttgart and the Karlsruhe Institute of Technology (KIT) succeed in important further development on the way to quantum Computers.

Quantum computers one day should be able to solve certain computing problems much faster than a classical computer. One of the most promising approaches is...

Im Focus: Substitute for rare earth metal oxides

New Project SNAPSTER: Novel luminescent materials by encapsulating phosphorescent metal clusters with organic liquid crystals

Nowadays energy conversion in lighting and optoelectronic devices requires the use of rare earth oxides.

Im Focus: A bit of a stretch... material that thickens as it's pulled

Scientists have discovered the first synthetic material that becomes thicker - at the molecular level - as it is stretched.

Researchers led by Dr Devesh Mistry from the University of Leeds discovered a new non-porous material that has unique and inherent "auxetic" stretching...

Im Focus: The force of the vacuum

Scientists from the Theory Department of the Max Planck Institute for the Structure and Dynamics of Matter (MPSD) at the Center for Free-Electron Laser Science (CFEL) in Hamburg have shown through theoretical calculations and computer simulations that the force between electrons and lattice distortions in an atomically thin two-dimensional superconductor can be controlled with virtual photons. This could aid the development of new superconductors for energy-saving devices and many other technical applications.

The vacuum is not empty. It may sound like magic to laypeople but it has occupied physicists since the birth of quantum mechanics.

All Focus news of the innovation-report >>>

Anzeige

Anzeige

VideoLinks
Industry & Economy
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

Expert Panel on the Future of HPC in Engineering

03.12.2018 | Event News

 
Latest News

Small but ver­sat­ile; key play­ers in the mar­ine ni­tro­gen cycle can util­ize cy­anate and urea

10.12.2018 | Life Sciences

New method gives microscope a boost in resolution

10.12.2018 | Physics and Astronomy

Carnegie Mellon researchers probe hydrogen bonds using new technique

10.12.2018 | Life Sciences

VideoLinks
Science & Research
Overview of more VideoLinks >>>