Forum for Science, Industry and Business

Sponsored by:     3M 
Search our Site:

 

World’s fastest algorithm for recognising regular DNA sequences

04.05.2015

The mathematical algorithm jointly developed by EURAC and the University of Bolzano (unibz) now permits exceptionally rapid recognition of regular DNA sequences: the previously required time of 20 days is reduced to just 5 hours under the new method.

Its efficiency and methodological rigour has now led the algorithm to be incorporated in the world’s most widely-used DNA-analysis software. This momentous scientific breakthrough is the work of Daniel Taliun: today at the faculty of Computer Science of the Free University of Bolzano he discussed his doctoral thesis in information technology, completed at the EURAC Center for Biomedicine.

DNA is made up of 3 billion bases, or letters, with the sequence formed of stable segments interspersed with breakpoints. Stable segments are inherited as a single block, while the breaks allow successive sequences to recombine in new ways, ensuring genetic variation between people.

The rapid recognition of regular sequences is of great value as it allows for much more straightforward representation of DNA and for greater precision and speed in identifying those areas of DNA associated with disease. The method developed by Daniel Taliun at the EURAC’s Center for Biomedicine and University of Bolzano is of great assistance in this field; the new algorithm processes the entire DNA in 1% of the time previously required, down from 20 days to just 5 hours.

“The results caught the attention of the leaders of PLINK, the most widely-used software at global level for genetic data analysis, who asked us if they could integrate our algorithm into their program,” explains Cristian Pattaro, head of the biostatistics group at EURAC’s Center for Biomedicine and the research group’s specialist on aspects related to genetics and biostatistics.

“This project combines mathematics with information technology and genetics and has merged the skill sets of two organisations. The University of Bolzano and EURAC have applied their areas of specialisation to achieve a level of excellence that has seen us both working outside of our usual fields of research,” says Johann Gamper, professor at the Faculty of Computer Science of the University of Bolzano and supervisor of Daniel’s PhD course.

The new algorithm can be applied both in the analysis of the genetic causes of disease and in population genetics. In disease analysis, the recognition of regular DNA segments allows for greater precision in the search for genetic variations associated with illness in that it allows the examination to be narrowed down to a smaller segment.

In population genetics, on the other hand, the recognition of a succession of regular sequences and breakpoints provides information on the study of background genetics, as we have seen that these successions are relatively stable within a single population but may alter between differing populations.

Daniel Taliun returned to Bolzano from the United States for his doctoral viva. “The results of the research have achieved great resonance internationally, and this has led me to obtain a post as researcher at the Department of Biostatistics of the University of Michigan, one of the world’s leading centres,” concludes Daniel – now Doctor – Taliun who, in developing his algorithm, formulated and demonstrated new mathematical theorems.

Stefanie Gius | idw - Informationsdienst Wissenschaft
Further information:
http://www.eurac.edu

More articles from Life Sciences:

nachricht Seeing on the Quick: New Insights into Active Vision in the Brain
15.08.2018 | Eberhard Karls Universität Tübingen

nachricht New Approach to Treating Chronic Itch
15.08.2018 | Universität Zürich

All articles from Life Sciences >>>

The most recent press releases about innovation >>>

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

Im Focus: Unraveling the nature of 'whistlers' from space in the lab

A new study sheds light on how ultralow frequency radio waves and plasmas interact

Scientists at the University of California, Los Angeles present new research on a curious cosmic phenomenon known as "whistlers" -- very low frequency packets...

Im Focus: New interactive machine learning tool makes car designs more aerodynamic

Scientists develop first tool to use machine learning methods to compute flow around interactively designable 3D objects. Tool will be presented at this year’s prestigious SIGGRAPH conference.

When engineers or designers want to test the aerodynamic properties of the newly designed shape of a car, airplane, or other object, they would normally model...

Im Focus: Robots as 'pump attendants': TU Graz develops robot-controlled rapid charging system for e-vehicles

Researchers from TU Graz and their industry partners have unveiled a world first: the prototype of a robot-controlled, high-speed combined charging system (CCS) for electric vehicles that enables series charging of cars in various parking positions.

Global demand for electric vehicles is forecast to rise sharply: by 2025, the number of new vehicle registrations is expected to reach 25 million per year....

Im Focus: The “TRiC” to folding actin

Proteins must be folded correctly to fulfill their molecular functions in cells. Molecular assistants called chaperones help proteins exploit their inbuilt folding potential and reach the correct three-dimensional structure. Researchers at the Max Planck Institute of Biochemistry (MPIB) have demonstrated that actin, the most abundant protein in higher developed cells, does not have the inbuilt potential to fold and instead requires special assistance to fold into its active state. The chaperone TRiC uses a previously undescribed mechanism to perform actin folding. The study was recently published in the journal Cell.

Actin is the most abundant protein in highly developed cells and has diverse functions in processes like cell stabilization, cell division and muscle...

Im Focus: Lining up surprising behaviors of superconductor with one of the world's strongest magnets

Scientists have discovered that the electrical resistance of a copper-oxide compound depends on the magnetic field in a very unusual way -- a finding that could help direct the search for materials that can perfectly conduct electricity at room temperatur

What happens when really powerful magnets--capable of producing magnetic fields nearly two million times stronger than Earth's--are applied to materials that...

All Focus news of the innovation-report >>>

Anzeige

Anzeige

VideoLinks
Industry & Economy
Event News

Within reach of the Universe

08.08.2018 | Event News

A journey through the history of microscopy – new exhibition opens at the MDC

27.07.2018 | Event News

2018 Work Research Conference

25.07.2018 | Event News

 
Latest News

Unraveling the nature of 'whistlers' from space in the lab

15.08.2018 | Physics and Astronomy

Diving robots find Antarctic winter seas exhale surprising amounts of carbon dioxide

15.08.2018 | Earth Sciences

Early opaque universe linked to galaxy scarcity

15.08.2018 | Physics and Astronomy

VideoLinks
Science & Research
Overview of more VideoLinks >>>