Advertisement

iHOP Web Services Family

  • José M. Fernández
  • Robert Hoffmann
  • Alfonso Valencia
Part of the Lecture Notes in Computer Science book series (LNCS, volume 6620)

Abstract

iHOP provides fast, accurate, comprehensive, and up-to-date summary information on thousands of biological molecules by automatically extracting key sentences from millions of PubMed documents. iHOP web services are providing public programmatic access to all this information since their publication in 2007.

This manuscript describes recent improvements on the iHOP web services family and some of the scenarios in which the web services have been applied.

Availability. iHOP web services family is documented at its website http://ws.bioinfo.cnio.es/iHOP/

Keywords

Text mining web services whole genome analysis 

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. 1.
    EMBRACE Grid Network of Excellence, http://www.embracegrid.info/
  2. 2.
    ENFIN Network of Excellence, http://www.enfin.org/
  3. 3.
    Semantic Annotations for WSDL Working Group, http://www.w3.org/2002/ws/sawsdl/
  4. 4.
    Bruford, E.A., Lush, M.J., Wright, M.W., Sneddon, T.P., Povey, S., Birney, E.: The HGNC database in 2008: a resource for the human genome. Nucl. Acids Res. 36(suppl_1), D445–D448 (2008)Google Scholar
  5. 5.
    Cases, I., Pisano, D.G., Andres, E., Carro, A., Fernández, J.M., Gómez-López, G., Rodriguez, J.M., Vera, J.F., Valencia, A., Rojas, A.M.: CARGO: a web portal to integrate customized biological information. Nucleic Acids Research 35(Web Server issue), W16–W20 (2007); PMC1933121 CrossRefGoogle Scholar
  6. 6.
    Feine, O., Zur, A., Mahbubani, H., Brandeis, M.: Human kid is degraded by the APC/C(Cdh1) but not by the APC/C(Cdc20). Cell Cycle (Georgetown, Tex.) 6(20), 2516–2523 (2007); PMID: 17726374CrossRefGoogle Scholar
  7. 7.
    Fernández, J.M., Hoffmann, R., Valencia, A.: iHOP web services. Nucleic Acids Research 35(Web Server issue), W21–W26 (2007); PMC1933131CrossRefGoogle Scholar
  8. 8.
    Fielding, T.: Architectural Styles and the Design of Network-based Software Architectures. Ph.D. thesis, University of California, Irvine (2000), http://www.ics.uci.edu/~fielding/pubs/dissertation/top.htm
  9. 9.
    Hoffmann, R., Valencia, A.: A gene network for navigating the literature. Nat. Genet. 36(7), 664 (2004)CrossRefGoogle Scholar
  10. 10.
    Pettifer, S., Ison, J., Kalas, M., Thorne, D., McDermott, P., Jonassen, I., Liaquat, A., Fernandez, J.M., Rodriguez, J.M., Partners, I., Pisano, D.G., Blanchet, C., Uludag, M., Rice, P., Bartaseviciute, E., Rapacki, K., Hekkelman, M., Sand, O., Stockinger, H., Clegg, A.B., Bongcam-Rudloff, E., Salzemann, J., Breton, V., Attwood, T.K., Cameron, G., Vriend, G.: The EMBRACE web service collection. Nucl. Acids Res. 38(suppl_2), W683–W688 (2010)CrossRefGoogle Scholar
  11. 11.
    Ranea, J., Morilla, I., Lees, J.G., Reid, A., Yeats, C., Clegg, A.B., Fernández, J.M., Valencia, A., Sanchez-Jiménez, F., Orengo, C.: Angiogenic protein sub-network report for ENFIN. Personal Communication (October 2009)Google Scholar
  12. 12.
    Ranea, J., Morilla, I., Lees, J.G., Reid, A., Yeats, C., Clegg, A.B., Sanchez-Jiménez, F., Orengo, C.: “Dark Matter” assessment in protein network prediction and modelling. In: JBI 2010 Proceedings (October 2010)Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2012

Authors and Affiliations

  • José M. Fernández
    • 1
  • Robert Hoffmann
    • 3
  • Alfonso Valencia
    • 2
  1. 1.GN2, Spanish National Bioinformatics Institute (INB)CNIOSpain
  2. 2.Spanish National Bioinformatics Institute (INB), Structural Biology and Biocomputing ProgrammeCNIOSpain
  3. 3.Computational Biology Center, Memorial Sloan Kettering Cancer CenterNew YorkUSA

Personalised recommendations