So what is Ali Baba? According the the website “Ali Baba parses PubMed abstracts for biological objects and their relations as discussed in the texts. Ali Baba visualizes the resulting network in graphical form, thus presenting a quick overview over all information contained in the abstracts.” There is a lot more detail about the kind of information available on the About page. The list of features is quite large and appears to be quite useful. For example, you can visualize the known or suspected genes associated with Parkinson’s disease using a simple query like “parkinson disease genetic cause”. The result is the following graph
Ali Baba – Mining PubMed with Natural Language Processing
So what is Ali Baba? According the the website “Ali Baba parses PubMed abstracts for biological objects and their relations as discussed in the texts. Ali Baba visualizes the resulting network in graphical form, thus presenting a quick overview over all information contained in the abstracts.” There is a lot more detail about the kind of information available on the About page. The list of features is quite large and appears to be quite useful. For example, you can visualize the known or suspected genes associated with Parkinson’s disease using a simple query like “parkinson disease genetic cause”. The result is the following graph
The application has been developed by a team at Humbloldt University in Berlin, is a Java program that uses Natural Language Processing to generate data for the visualizations. More details on the methods page.
Further reading:
Mining PubMed
It’s not just the EBI
Mashing up the bioinformatics web
Technorati Tags: Natual Language Processing, Data Mining, Bioinformatics, Ali Baba, Visualization