Lena Strömbäck, David Hall, Patrick Lambrix:
A review of standards for data exchange within systems biology.
Abstract
The rapid increase in experimental data within systems biology
has increased the need for exchange of data to allow analysis and
comparison of larger datasets. This has resulted in a need for
standardized formats for representation of such results and currently many
formats for representation of data have been developed or are under
development. In this paper, we give an overview of the current state of
available standards and ontologies within systems biology. We focus on
XML-based standards for exchange of data and give a thorough description
of similarities and differences of currently available formats. For each
of these, we discuss how the important concepts such as substances,
interactions, and experimental data can be represented. In particular, we
note that the purpose of a standard is often visible in the structures it
provides for the representation of data. A clear purpose is also crucial
for the success of a standard. Moreover, we note that the development of
representation formats is parallel to the development of ontologies and
the recent trend is that representation formats make more and more use of
available ontologies.
URL:
http://rewerse.net/publications/rewerse-publications.html#REWERSE-RP-2007-003
@article{REWERSE-RP-2007-003, author = {Lena Str\"omb\"ack and David Hall and Patrick Lambrix}, title = {A review of standards for data exchange within systems biology}, journal = {Proteomics}, year = {2007}, volume = {7}, number = {6}, pages = {857--867}, url = {http://rewerse.net/publications/rewerse-publications.html#REWERSE-RP-2007-003} }