Featured Research

from universities, journals, and other organizations

Algorithm for reducing errors in transcriptome analysis

Date:
August 18, 2014
Source:
Biogerontology Research Foundation
Summary:
Researchers are proposing a new concept for signalome-wide analysis of changes in intracellular pathways, called OncoFinder, which allows for accurate and robust cross-platform analysis of gene expression data. This new technique will allow scientists to derive useful information from and compare the hundreds of thousands of data sets obtained using legacy equipment as well as data sets obtained from biological samples preserved in paraffin blocks and partially-degraded samples.

Scientists from the Biogerontology Research Foundation (BGRF), a UK-based charity founded to support aging research and address the challenges of a rapidly aging population, propose a new concept for signalome-wide analysis of changes in intracellular pathways, called OncoFinder, which allows for accurate and robust cross-platform analysis of gene expression data. This new technique will allow scientists to derive useful information from and compare the hundreds of thousands of data sets obtained using legacy equipment as well as data sets obtained from biological samples preserved in paraffin blocks and partially-degraded samples.

Related Articles


The original research, published in the journal Frontiers in Molecular Biosciences, shows that the OncoFinder method significantly reduces errors introduced by transcriptome-wide experimental techniques. Scientists compared gene expression data for the same biological samples obtained by both next generation sequencing (NGS) and microarray methods, finding that these different techniques have almost no correlation between the gene expression values for all datasets analysed. In contrast, when the OncoFinder algorithm is applied to the data, a clear correlation between next generation sequencing and microarray gene expression datasets was seen.

"For several years the potential for the use of gene expression data in research and clinical applications has been underappreciated due to the inconsistency of the data coming from the various types of equipment. There is just too much variation and complexity when comparing the massive number of individual genes. But when this complexity is reduced and the gene expression is mapped onto signalling pathways, we can evaluate the pathway activation drift and analyse the changes and transitions much more effectively. The OncoFinder algorithm enables scientists to characterise the functional states of transcriptomes more accurately than before and we hope that this will become a method of choice in genetics, physiology, biomedicine and molecular diagnostics," said Alex Zhavoronkov, PhD, director of the BGRF and co-author of the study.


Story Source:

The above story is based on materials provided by Biogerontology Research Foundation. Note: Materials may be edited for content and length.


Journal Reference:

  1. Anton A. Buzdin, Alex Zhavoronkov, Mikhail Korzinkin, Sergey A Roumiantsev, Alexander M Aliper, Larisa S. Venkova, Philip Smirnov and Nicolay M Borisov. The OncoFinder algorithm for minimizing the errors introduced by the high-throughput methods of transcriptome analysis. Frontiers in Molecular Biosciences, 2014; DOI: 10.3389/fmolb.2014.00008

Cite This Page:

Biogerontology Research Foundation. "Algorithm for reducing errors in transcriptome analysis." ScienceDaily. ScienceDaily, 18 August 2014. <www.sciencedaily.com/releases/2014/08/140818095214.htm>.
Biogerontology Research Foundation. (2014, August 18). Algorithm for reducing errors in transcriptome analysis. ScienceDaily. Retrieved March 28, 2015 from www.sciencedaily.com/releases/2014/08/140818095214.htm
Biogerontology Research Foundation. "Algorithm for reducing errors in transcriptome analysis." ScienceDaily. www.sciencedaily.com/releases/2014/08/140818095214.htm (accessed March 28, 2015).

Share This


More From ScienceDaily



More Computers & Math News

Saturday, March 28, 2015

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

Facebook Building Plane-Sized Drones For Global Internet

Facebook Building Plane-Sized Drones For Global Internet

Newsy (Mar. 27, 2015) Facebook on Thursday revealed more details about its Internet-connected drone project. The drone is bigger than a 737, but lighter than a car. Video provided by Newsy
Powered by NewsLook.com
Robot Returns from International Space Station and Sets Two Guinness World Records

Robot Returns from International Space Station and Sets Two Guinness World Records

Reuters - Light News Video Online (Mar. 27, 2015) The companion robot "Kirobo" returns to earth from the International Space Station and sets two Guinness World Records. Sharon Reich reports. Video provided by Reuters
Powered by NewsLook.com
Smart Bracelet Changes Design With the Touch of a Button

Smart Bracelet Changes Design With the Touch of a Button

Reuters - Innovations Video Online (Mar. 27, 2015) Interactive jewellery that allows users to change designs and doesn&apos;t need charging. Sharon Reich reports. Video provided by Reuters
Powered by NewsLook.com
Twitter's Periscope New Rival for Meerkat

Twitter's Periscope New Rival for Meerkat

Reuters - Business Video Online (Mar. 26, 2015) Twitter has unveiled Periscope, its live-streaming app to rival Meerkat and other emerging apps that have captured the attention of the social media industry. Bobbi Rebell reports. Video provided by Reuters
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