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 October 23, 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 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
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
Rate Hike Worries Down on Inflation Data

Rate Hike Worries Down on Inflation Data

Reuters - Business Video Online (Oct. 22, 2014) — Inflation remains well under control according to the latest consumer price index, giving the Federal Reserve more room to keep interest rates low for awhile. 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