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Documentation:

Publications of PHIDIAS and PHIDIAS programs:

  1. Lin Y, Xiang Z, He Y. Brucellosis Ontology (IDOBRU) as an extension of the Infectious Disease Ontology. Journal of Biomedical Semantics. 2011 Oct 31;2(1):9. [Epub ahead of print] PMID: 22041276.
  2. Zuoshuang Xiang, Yuying Tian, Yongqun He. PHIDIAS: a pathogen-host interaction data integration and analysis system. Genome Biology. 2007 Jul 30;8(7):R150. PMID: 17663773.
  3. Zuoshuang Xiang, Wenjie Zheng and Yongqun He. BBP: Brucella genome annotation with literature mining and curation. BMC Bioinformatics. 2006 Jul 16;7(1):347. PMID: 16842628.
  4. Yongqun He, Howard G. Rush, Rachel S. Liepman, Zuoshuang Xiang, Lesley A. Colby. Pathobiology and management of laboratory rodents administered CDC Category A agents. Comparative Medicine. 2007. Feb;57(1):18-32. PMID: 17348288.

Example on how to use PHIDIAS:

The following is an example shows the basic usage of the modules PHIDIAS.

1. Victors: Virulence Factors database

Please see related information in the Victors documentation page.

 

2. BBP: Brucella Bioinformatisc Portal

Please see related information in the BBP documentation page.

 

3. Phigen: integrated PHI gene information.

 

4. Pacodom: pathogen conserved domains.

 

5. Phinfo: General pathogen-host interaction information.

 

6. Phinet: PHI network, e.g., pathogenic Escherichia coli pathogenesis network.