In a paper entitled Boosting Haplotype Inference with Local Search, just published in Constraints: An International Journal, Professor Joao Marques-Silva, at the University's School of Electronics and Computer Science and collaborators, describe a new approach to the process of inferring haplotype information from genotype data.
A haplotype can be defined as a group of alleles of one or more genes on a single chromosome that are closely enough linked to be inherited usually as a unit and a genotype refers to the combination of alleles inherited from both parents.
According to Professor Marques-Silva, the current method of extracting haplotypes from genotype data is based on statistical approaches, which can take a long time to compute.
Professor Marques-Silva and collaborators approached this scenario by taking the Haplotype Inference by Pure Parsimony (HIPP), a solution that minimises the total number of distinct haplotypes used, and developed new algorithms which they applied to achieve faster results.
'Biologists have been using these statistical approaches for a long time and may not be open to change,' he said. 'However, these methods can take days, even months to terminate, whereas our approach produces an almost instant result.'
Further research is being carried out currently by Professor Marques-Silva and collaborators to validate this new method and to prove that it could replace statistical methods in a number of settings.
'This is the biggest development that we have made in this field so far,' said Professor Marques-Silva. 'It remains to be seen whether biologists will use this instead of existing techniques.'
Helene Murphy | alfa
A Map of the Cell’s Power Station
18.08.2017 | Albert-Ludwigs-Universität Freiburg im Breisgau
On the way to developing a new active ingredient against chronic infections
21.08.2017 | Deutsches Zentrum für Infektionsforschung
Whether you call it effervescent, fizzy, or sparkling, carbonated water is making a comeback as a beverage. Aside from quenching thirst, researchers at the University of Illinois at Urbana-Champaign have discovered a new use for these "bubbly" concoctions that will have major impact on the manufacturer of the world's thinnest, flattest, and one most useful materials -- graphene.
As graphene's popularity grows as an advanced "wonder" material, the speed and quality at which it can be manufactured will be paramount. With that in mind,...
Physicists at the University of Bonn have managed to create optical hollows and more complex patterns into which the light of a Bose-Einstein condensate flows. The creation of such highly low-loss structures for light is a prerequisite for complex light circuits, such as for quantum information processing for a new generation of computers. The researchers are now presenting their results in the journal Nature Photonics.
Light particles (photons) occur as tiny, indivisible portions. Many thousands of these light portions can be merged to form a single super-photon if they are...
For the first time, scientists have shown that circular RNA is linked to brain function. When a RNA molecule called Cdr1as was deleted from the genome of mice, the animals had problems filtering out unnecessary information – like patients suffering from neuropsychiatric disorders.
While hundreds of circular RNAs (circRNAs) are abundant in mammalian brains, one big question has remained unanswered: What are they actually good for? In the...
An experimental small satellite has successfully collected and delivered data on a key measurement for predicting changes in Earth's climate.
The Radiometer Assessment using Vertically Aligned Nanotubes (RAVAN) CubeSat was launched into low-Earth orbit on Nov. 11, 2016, in order to test new...
A study led by scientists of the Max Planck Institute for the Structure and Dynamics of Matter (MPSD) at the Center for Free-Electron Laser Science in Hamburg presents evidence of the coexistence of superconductivity and “charge-density-waves” in compounds of the poorly-studied family of bismuthates. This observation opens up new perspectives for a deeper understanding of the phenomenon of high-temperature superconductivity, a topic which is at the core of condensed matter research since more than 30 years. The paper by Nicoletti et al has been published in the PNAS.
Since the beginning of the 20th century, superconductivity had been observed in some metals at temperatures only a few degrees above the absolute zero (minus...
16.08.2017 | Event News
04.08.2017 | Event News
26.07.2017 | Event News
21.08.2017 | Materials Sciences
21.08.2017 | Health and Medicine
21.08.2017 | Materials Sciences