Featured Research

from universities, journals, and other organizations

New search engine links biomedical articles to nucleic acid sequences

Date:
November 16, 2010
Source:
Facultad de Informática de la Universidad Politécnica de Madrid
Summary:
Researchers in Spain have created a tool called PubDNA Finder. This tool is the first search engine specialized in linking biomedical articles to nucleic acid sequences.

Researchers from the Universidad Politécnica de Madrid's Biomedical Informatics Group based at the Facultad de Informática have created a tool called PubDNA Finder. This tool is the first search engine specialized in linking biomedical articles to nucleic acid sequences.

PubDNA Finder is an online repository created to link documents archived at PubMed Central with the nucleic acid sequences that they contain. PubMed Central is a free digital archive maintained by the United States National Institutes of Health. Developed and administered by the National Center for Biotechnology Information (NCBI), it contains the principal documentation related to biomedicine and the life sciences published in scientific journals all over the world.

PubDNA Finder extends the capabilities of the search engine provided by PubMed Central, enabling biomedical researchers to run advanced searches on nucleic acid sequences. One of its features is to search documents that cite one or more specific nucleic acid sequences and retrieve the genetic sequences appearing in different articles.

These additional consultation facilities are provided by a search index created by archiving all 176,672 documents available at PubMed Central and the nucleic acids that they contain.

The researchers used an original method to automatically extract the genetic sequences returned by each search: an innovative system combining combines natural language processing, text mining and knowledge engineering runs unsupervised searches to retrieve genetic sequences.

The database is automatically updated every month by means of a FTP connection to the PubMed Central site to retrieve the manuscripts and new indexes. Users can query the database over the Web.

The research team that has developed this tool is led by the Facultad de Informática faculty member Miguel García-Remesal. García-Remesal is also a member of the Biomedical Informatics Group led by Prof. Víctor Maojo.

PubDNA is available at: http://servet.dia.fi.upm.es:8080/pubdnafinder/


Story Source:

The above story is based on materials provided by Facultad de Informática de la Universidad Politécnica de Madrid. Note: Materials may be edited for content and length.


Journal Reference:

  1. M. Garcia-Remesal, A. Cuevas, D. Perez-Rey, L. Martin, A. Anguita, D. de la Iglesia, G. de la Calle, J. Crespo, V. Maojo. PubDNA Finder: a web database linking full-text articles to sequences of nucleic acids. Bioinformatics, 2010; DOI: 10.1093/bioinformatics/btq520

Cite This Page:

Facultad de Informática de la Universidad Politécnica de Madrid. "New search engine links biomedical articles to nucleic acid sequences." ScienceDaily. ScienceDaily, 16 November 2010. <www.sciencedaily.com/releases/2010/11/101116075756.htm>.
Facultad de Informática de la Universidad Politécnica de Madrid. (2010, November 16). New search engine links biomedical articles to nucleic acid sequences. ScienceDaily. Retrieved October 23, 2014 from www.sciencedaily.com/releases/2010/11/101116075756.htm
Facultad de Informática de la Universidad Politécnica de Madrid. "New search engine links biomedical articles to nucleic acid sequences." ScienceDaily. www.sciencedaily.com/releases/2010/11/101116075756.htm (accessed October 23, 2014).

Share This



More Computers & Math News

Thursday, October 23, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

Chameleon Camouflage to Give Tanks Cloaking Capabilities

Chameleon Camouflage to Give Tanks Cloaking Capabilities

Reuters - Innovations Video Online (Oct. 22, 2014) — Inspired by the way a chameleon changes its colour to disguise itself; scientists in Poland want to replace traditional camouflage paint with thousands of electrochromic plates that will continuously change colour to blend with its surroundings. The first PL-01 concept tank prototype will be tested within a few years, with scientists predicting that a similar technology could even be woven into the fabric of a soldiers' clothing making them virtually invisible to the naked eye. Matthew Stock reports. Video provided by Reuters
Powered by NewsLook.com
Internet of Things Aims to Smarten Your Life

Internet of Things Aims to Smarten Your Life

AP (Oct. 22, 2014) — As more and more Bluetooth-enabled devices are reaching consumers, developers are busy connecting them together as part of the Internet of Things. (Oct. 22) Video provided by AP
Powered by NewsLook.com
Google's Inbox Is The Latest Gmail Competitor

Google's Inbox Is The Latest Gmail Competitor

Newsy (Oct. 22, 2014) — Google's new e-mail app is meant for greater personalization and allows users to better categorize their mail, but Gmail isn't going away just yet. Video provided by Newsy
Powered by NewsLook.com
Free Math App Is A Teacher's Worst Nightmare

Free Math App Is A Teacher's Worst Nightmare

Newsy (Oct. 22, 2014) — New photo-recognition software from MicroBlink, called PhotoMath, solves linear equations and simple math problems with step-by-step results. Video provided by Newsy
Powered by NewsLook.com

Search ScienceDaily

Number of stories in archives: 140,361

Find with keyword(s):
 
Enter a keyword or phrase to search ScienceDaily for related topics and research stories.

Save/Print:
Share:  

Breaking News:

Strange & Offbeat Stories

 

Space & Time

Matter & Energy

Computers & Math

In Other News

... from NewsDaily.com

Science News

Health News

Environment News

Technology News



Save/Print:
Share:  

Free Subscriptions


Get the latest science news with ScienceDaily's free email newsletters, updated daily and weekly. Or view hourly updated newsfeeds in your RSS reader:

Get Social & Mobile


Keep up to date with the latest news from ScienceDaily via social networks and mobile apps:

Have Feedback?


Tell us what you think of ScienceDaily -- we welcome both positive and negative comments. Have any problems using the site? Questions?
Mobile iPhone Android Web
Follow Facebook Twitter Google+
Subscribe RSS Feeds Email Newsletters
Latest Headlines Health & Medicine Mind & Brain Space & Time Matter & Energy Computers & Math Plants & Animals Earth & Climate Fossils & Ruins