Bio-ontologies for everyone with new Microsoft Word Add-in
2010 March 3
A latest paper in BMC Bioinformatics describes a Microsoft Word Add-in for ontology recognition. Tool is freely available from Codeplex portal and as prerequisite you will need Microsoft Word 2007. This add-in enables the annotation of scientific documents based on terms that appear in ontologies and controlled vocabularies. I am sure this tool is going to fuel the debate on the article of the future as like everyone else I think that the next generation of scientific articles will be semantic rich and there is urgent need for semantic enrichment of scientific articles. Adding semantic data to scientific articles during the authoring process is one of the option discussed on several occasions but lack of noticeable tools to assist authors in these efforts remained biggest bottleneck in this process. Now this new add-in for one of the most widely used authoring program gives a new opportunity to authors to add semantic data to a scientific document as it is being written.
The configuration panel allows a user to download ontologies of interest from NCBO
or provide custom ontologies from the local machine or a remote source. Database ID
recognition can also be activated or deactivated via this panel.
Some of the features currently supported by the tool
*Inline Syntax Coloring of Informative Words
*Built-in Knowledge of Ontologies and Controlled Vocabularies maintained and delivered by NCBO
*Built-in Knowledge of Biological Databases (Protein Data Bank, UniProtKB, NCBI GenBank/RefSeq)
*Automatic Detection of Identifiers
*Custom Semantic Markup
Reference:
Fink, J., Fernicola, P., Chandran, R., Parastitidas, S., Wade, A., Naim, O., Quinn, G., & Bourne, P. (2010). Word add-in for ontology recognition: semantic enrichment of scientific literature BMC Bioinformatics, 11 (1) DOI: 10.1186/1471-2105-11-103
10 Responses
leave one →
Bio-ontologies for everyone with new Microsoft Word Add-in http://bit.ly/cX75bD
Bio-ontologies for everyone with new Microsoft Word Add-in http://bit.ly/cX75bD #fisheye
Bio-ontologies for everyone with new Microsoft Word Add-in http://goo.gl/fb/0INH
RT @abhishektiwari: Bio-ontologies for everyone with new Microsoft Word Add-in http://bit.ly/cX75bD
That would be terrible, I don’t want people to use excel to do bioinformatics… I really hope they won’t continue with these plans for bioinformatics, considering all the wrong deeds and problems that Microsoft caused in other fields..
This comment was originally posted on Fisheye Perspective
Thanks for you comment. I guess for bioinormaticians this is definitely a terrible news but for biologist I think this is quite a good feature. Writing your own code is always good but not for every small requirement and often biologist have to be dependent on bioinformatics programmer. In Chemistry R&D Excel is used widely for different things, in fact there are Excel add-ins for chemistry such as ISIS Excel and JChem for Excel and I always I wondered why no one given a thought to develop Excel extensions for bioinformatics. On other note I think this is very good to have quality competition here, there is lot of space for everyone and these projects are open source so overall its good thing.
This comment was originally posted on Fisheye Perspective
I could not agree more, but their restricted open licensing terms might be a big hurdle for external contributors and early adopters. Lets see how it goes.
This comment was originally posted on Fisheye Perspective
Bio-ontologies for everyone with new Microsoft Word Add-in http://bit.ly/cX75bD
Bio-ontologies for everyone with new Microsoft Word Add-in- by Fisheye Perspective http://bit.ly/9eUhme