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Deprecated: Implicit conversion from float 247.2 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Bioinformatics 2015 ; 31 (7): 1044-52 Nephropedia Template TP
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Biological Dynamics Markup Language (BDML): an open format for representing quantitative biological dynamics data #MMPMID25414366
Kyoda K; Tohsato Y; Ho KHL; Onami S
Bioinformatics 2015[Apr]; 31 (7): 1044-52 PMID25414366show ga
Motivation: Recent progress in live-cell imaging and modeling techniques has resulted in generation of a large amount of quantitative data (from experimental measurements and computer simulations) on spatiotemporal dynamics of biological objects such as molecules, cells and organisms. Although many research groups have independently dedicated their efforts to developing software tools for visualizing and analyzing these data, these tools are often not compatible with each other because of different data formats.Results: We developed an open unified format, Biological Dynamics Markup Language (BDML; current version: 0.2), which provides a basic framework for representing quantitative biological dynamics data for objects ranging from molecules to cells to organisms. BDML is based on Extensible Markup Language (XML). Its advantages are machine and human readability and extensibility. BDML will improve the efficiency of development and evaluation of software tools for data visualization and analysis.Availability and implementation: A specification and a schema file for BDML are freely available online at http://ssbd.qbic.riken.jp/bdml/.Contact:sonami@riken.jpSupplementary Information:Supplementary data are available at Bioinformatics online.