Featured Research

from universities, journals, and other organizations

Researchers develop new method for analyzing cell function

Date:
June 26, 2012
Source:
Suomen Akatemia (Academy of Finland)
Summary:
Researchers have developed an open-source software that will make it significantly easier to process bioimaging data. The software, named BioImageXD, will help in analyzing cell and tissue functions.

Researchers in Finland and Germany have developed an open-source software that will make it significantly easier to process bioimaging data. The software, named BioImageXD, will help in analysing cell and tissue functions.

The work to develop the software has been funded by the Academy of Finland (through the FinNano Research Programme), the European Union and Tekes -- the Finnish Funding Agency for Technology and Innovation. Version 1.0 of BioImageXD has been accepted for publication in Nature Methods.

Among other things, the BioImageXD software is a tool for analysing how molecules move on cell surfaces and how they bond together. With the software, scientists can analyse the composition of cell surfaces, study how cancer cells spread in a three-dimensional environment, or measure how effectively viruses and targeted drugs enter cells. Such calculations have not been possible before.

In recent years, cell and tissue imaging with new, specialised microscopes has considerably advanced research in bioscience and biomedicine. The new methods also allow for studies on living cells. However, the microscopic images are not displayable as such and need to be rendered into three-dimensional models. These 3D renderings carry significant weight as evidence already by themselves, but reliable scientific data also requires numerical values, which can then be used in mathematical calculations. In addition, these calculations must be feasible with extremely large datasets.

So far, the lack of suitable software has clogged up this development. To solve the problem, researchers in Turku, Jyväskylä and Dresden drew up precise specifications for software for processing of imaging data. A key criterion was that the software would be based on the principles of open source, freely available to all researchers.

The work resulted in BioImageXD, a software program that thanks to its versatile and open-source nature has received much positive feedback from hundreds of researchers around the world.

From extensive development to test success

One of the unique features of BioImageXD is that it can be used to create completely new analysis methods (and users do not even need programming skills), process thousands of images at the same time and analyse millions of molecules. Comparison tests have shown that BioImageXD is faster and more sensitive than other similar programs.

The development of the BioImageXD software began ten years ago in a University of Jyväskylä research team led by Jyrki Heino. Since then, the work has continued through active collaboration between Heino's team, Varpu Marjomäki's team and Daniel White from Max Planck Institute of Molecular Cell Biology and Genetics.

The main development has been led by Pasi Kankaanpää, who now works at Turku Centre for Biotechnology as Coordinator of the Cell Imaging Core.

The BioImageXD software will be featured in a special issue of Nature Methods, focusing on the processing of biomedical images.


Story Source:

The above story is based on materials provided by Suomen Akatemia (Academy of Finland). Note: Materials may be edited for content and length.


Journal Reference:

  1. P. Kankaanpää, L. Paavolainen, S. Tiitta, M. Karjalainen, J. Päivärinne, J. Nieminen, V. Marjomäki, J. Heino and D. White. BioImageXD: an open, general-purpose and high-throughput image-processing platform. Nature Methods, (in press) 2012; 9: 683-689

Cite This Page:

Suomen Akatemia (Academy of Finland). "Researchers develop new method for analyzing cell function." ScienceDaily. ScienceDaily, 26 June 2012. <www.sciencedaily.com/releases/2012/06/120626064958.htm>.
Suomen Akatemia (Academy of Finland). (2012, June 26). Researchers develop new method for analyzing cell function. ScienceDaily. Retrieved April 24, 2014 from www.sciencedaily.com/releases/2012/06/120626064958.htm
Suomen Akatemia (Academy of Finland). "Researchers develop new method for analyzing cell function." ScienceDaily. www.sciencedaily.com/releases/2012/06/120626064958.htm (accessed April 24, 2014).

Share This



More Computers & Math News

Thursday, April 24, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

Will New FCC Rules Trigger Death Of Net Neutrality?

Will New FCC Rules Trigger Death Of Net Neutrality?

Newsy (Apr. 24, 2014) — The Federal Communications Commission will reportedly propose new rules for Net neutrality that could undermine the principles of a free and open Web. Video provided by Newsy
Powered by NewsLook.com
Apple Beats Estimates, Most Looking to Second Half of 2014

Apple Beats Estimates, Most Looking to Second Half of 2014

TheStreet (Apr. 24, 2014) — TheStreet's Stephanie Link and Real Money Contributor Dan Nathan discuss Apple's first quarter results. Link and Nathan expected the tech giant to lower guidance for the current quarter which they felt could send shares lower and present a buying opportunity. Nathan says options are cheap because Apple has been aggressively buying back shares. Video provided by TheStreet
Powered by NewsLook.com
Raw: Obama Plays Soccer With Japanese Robot

Raw: Obama Plays Soccer With Japanese Robot

AP (Apr. 24, 2014) — President Obama briefly played soccer with a robot during his visit to Japan on Thursday. The President has been emphasizing technology along with security concerns during his visit. (April 24) Video provided by AP
Powered by NewsLook.com
Obama Encourages Japanese Student-Scientists

Obama Encourages Japanese Student-Scientists

AP (Apr. 24, 2014) — President Obama spoke with student innovators in Japan and urged them to take part in increased opportunities for student exchanges with the US. (April 24) Video provided by AP
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:
from the past week

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