Therefore, the availability of online pathway browsers will facilitate post-genomic research, just as genome browsers have contributed to genomics.
The induced gene ontology analysis was predicted using the online molecule annotation system of CapitalBio Corp (http://www.capitalbio.com/zh-hans/support/MAS). The typical enzyme-catalyzed reactions were predicted using the online pathway relationship database KEGG (http://www.genome.jp/kegg/).jp/kegg/
For GSEA analysis (http://www.broad.mit.edu/gsea/index.jsp), we used the molecular signature database C2, which contains 1892 curated gene sets that are collected from various sources including online pathway databases and knowledge of domain experts.
In this study, we focused on the canonical pathways, i.e.: the c2.cp library of "molecular signature database" of GSEA software (v2.0.4), which included 639 curated gene sets (canonical pathways) from online pathway databases, publications in PubMed, and knowledge of domain experts.
Based on the recent literature and assisted by the online pathway-visualization program Metacore™ (http://www.genego.com/metacore.php) we have made a selection of genes in the TLR signaling pathway that could be associated with pertussis vaccine-induced antibody responses (Fig. 1).
Online pathway analysis was performed to assess proteomic signatures in tamoxifen resistance.
These gene sets were curated from multiple sources including online pathway databases, biomedical literature, and mammalian microarray studies.
These gene sets were curated from multiple sources including online pathway databases, biochemical literature, and mammalian microarray studies.
Gene set C2 (curated gene sets) includes genes from online pathway databases, publications in PubMed, and knowledge from domain experts.
Hence, we applied the DAVID online pathway analysis tool to discover if there were common pathways in which these genes were involved.
