Navigation Links
Using computational biology for the annotation of proteins
Date:11/26/2012

This press release is available in Spanish.

Proteins are molecules that are formed by chains of amino acids and they play a fundamental role in all of life, given that they contain the coded information in genes; they, therefore, carry out numerous functions in an organism: immunological (antibodies), structural (they constitute the majority of cellular material), bioregulating (they form part of enzymes) and a long list of etceteras. In short, they regulate thousands of process that take place within all organisms, including inside the human organism, and they frequently do so by means of relationships they establish with other cells. "Analyzing and using this network of interactions is a very interesting task due to the large number of associations that exist and to the multiple forms in which one protein can influence the function of others," explains Professor Beatriz Garca, of UC3M's Computer Science department. "In such a complex biological scenario, determining the functional associations through experiments is very costly, so we have tried to apply computational tools to predict these functions and so orient experimentation," she points out. Thus, the idea is to use techniques from the field of Artificial Intelligence, specifically from the area of Machine Learning, to obtain useful results for Biology, as part of an emerging interdisciplinary field known as Biocomputing or Computational Biology.

In this context, this line of research goes further in the annotation of the function of proteins, that is, in the determination of which protein or which group of proteins performs which task within an organism. In short, these scientists have dealt with two specific problems: the prediction of functional associations between pairs of proteins in the bacteria Escherichia coli and the extension of biological pathways in humans. In addition, they offer conclusions regarding the interpretation of those predictions, which may help explain the function of the cellular processes that were studied. "In particular," states Beatriz Garca, "the predictions obtained regarding two human proteins stand out (E3 SUMO-protein ligase y E3 ubiquitin-protein ligase DTX1); these were previously related to the controlled degradation of certain proteins, and we can now propose a new function related to the stabilization of telomeres and, therefore, their possible implication in cellular aging and the development of cancer, which will require experimental verification."

For this study, part of which was recently published in the journal PLOS ONE, the researcher has received the award for the best doctoral dissertation in her field (Experimental Sciences and Technology) from the Real Academia de Doctores de Espaa (Spanish Royal Academy of Doctors). The implications that this work holds for the scientific community are already being felt. In fact, the results of the first problem that the project analyzes have already been integrated into the predictions server EcID (E.coli Interaction Database) and they offer a reliability value for the predictions that improves the system's performance when finding functional associations among the proteins that appear in this database. Moreover, the second biological problem dealt with in the study opens a new area of research in Biocomputing, by extending already existing pathways. "The procedure it presents complements the only previously existing publication in the field, extending the pathways with many more proteins and exploring a greater surface of the network of interactions," comments the researcher. In addition, it could be applied to many more problems of functional annotation in Biology and other fields in which there is relevant information with multiple relationships.

In any case, much work remains to be done in the area of Biocomputation. "There are still so many unresolved biological problems that need computational solutions," assures Beatriz Garca, who highlights the relevance of this field, which is growing with the advances in new technologies; yet many computational challenges remain, such as the analysis of the new generation of sequencing. "This is an area that needs more trained professionals who can integrate Biology and Computer Science, in order to improve our knowledge of our organism at the molecular level and, finally, to facilitate the treatment of diseases," she concludes.


'/>"/>

Contact: Ana Herrera
oic@uc3m.es
Carlos III University of Madrid
Source:Eurekalert  

Related biology news :

1. Detective work using terahertz radiation
2. International team discovers likely basis of birth defect causing premature skull closure in infants
3. Taking the pulse of volcanoes using satellite images
4. UCSB scientists report new beginning in split-brain research, using new analytical tools
5. Primates brains make visual maps using triangular grids
6. UC Davis researchers develop new drug delivery system for bladder cancer using nanoparticles
7. Using planarian flatworms to understand organ regeneration
8. The slippery slope to slime: Overgrown algae causing coral reef declines
9. App lets you monitor lung health using only a smartphone
10. Deep-sea crabs seek food using ultraviolet vision
11. New study shows promise in using RNA nanotechnology to treat cancers and viral infections
Post Your Comments:
*Name:
*Comment:
*Email:
Related Image:
Using computational biology for the annotation of proteins
(Date:8/23/2018)... ... August 21, 2018 , ... Mandy is an eight-year-old mini Australian shepherd and a tripod. When ... She went through three surgeries to try to repair the leg and each time it ... leg so her owner, along with her veterinarian, decided to amputate. With only one ...
(Date:8/23/2018)... ... 22, 2018 , ... Lajollacooks4u is proud to have hosted a variety of groups this year ... such as Illumina, Qualcomm, Hewlett Packard, Sequenom and more, have all visited the La Jolla-based ... , Part of the reason clientele return is due to Lajollacooks4u’s signature team-building format, a ...
(Date:8/21/2018)... MADISON, Wis. (PRWEB) , ... August 21, 2018 ... ... of high throughput screening (HTS) solutions, Bellbrook Labs is dedicated to offering customers ... regarding biochemical assays, visitors will find a seamless transition between products, with relevant ...
Breaking Biology News(10 mins):
(Date:9/7/2018)... ... September 05, 2018 , ... Now available on live stream, the ... on Sept. 19, 2018. With a panel of industry leaders from Harvard, Cornell, RPI, ... reveal industry insights from experts in the field. Register today to be a ...
(Date:9/1/2018)... Albania (PRWEB) , ... August 31, 2018 , ... ... announces research results of the impact of a proprietary biofield energy treated nutraceutical ... research assessed biomarkers for immune function response and blood, as well as, organ-specific ...
(Date:8/29/2018)... , ... August 28, 2018 , ... ... retailer of contact lenses, has been ranked in 1138th place on the 27th ... companies. , The list represents the most successful companies within the American ...
(Date:8/26/2018)... ... August 24, 2018 , ... ExoCoBio ... exosomes dramatically relieves atopic dermatitis and inhibits a variety of inflammatory targets in ... paper, the symptoms of mice having severe atopic dermatitis were significantly improved after ...
Breaking Biology Technology: