Navigating gene networks

Presentation (14/09/2007)

Presentation (.pdf, 2 mb)

Text mining

• Full quality BioLayout 2D and 3D images (7.8 mb)
• Lower quality images (1.7 mb)

Statistical analysis

• All statistical analysis images (1.2 mb)
• Boxplots for general comparisons (427 kb)
• Boxplots and histograms for homology (455 kb)
• Pie charts for floating base comparison (324 kb)

Combined results

• Scatter plots and connected boxplots (77 kb)
• Boxplots for general comparisons (382 kb)
• Boxplots for homology (438 kb)

Links

.: Programs and libraries

• BioLayout was used to visualize the gene networks
• Lucene is a free open-source Java library to make a text search engine
• Eclipse is a free Java Development Environment
• MySQL

.: Source data

• PubMed, the database of medical publications we used for making the gene network
• HUGO, for the list of known human genes
• ENSEMBL, we used the human genome database from this website
• ASTD, another database of genes and their exons, introns, sequence etc.
• OMIM, a database that was used for the list of disease genes
• GAD, this database provides a longer and less accurate list of disease genes

.: Other links

• Bioinformatics at K.U.Leuven
• Prospectr, a similar project

laatst aangepast op 14 september 2007