A Prospective Study on the Integration of Microarray Data in HIS/EPR

  • Daniel F. Polónia
  • Joel Arrais
  • José Luis Oliveira
Part of the Lecture Notes in Computer Science book series (LNCS, volume 4345)


The successful completion of the Human Genome Project promised an increase on our knowledge about the way our organism works and therefore would have a major impact in medicine. DNA microarray is one of the techniques that appeared in this “-omic” era and that will certainly change the way diagnosis and disease treatment are made. However, despite the successive scientific breakthroughs the integration of microarrays in clinical practice will face yet the lack of proper information systems and communication standards inside the Health Information Systems (HIS) scenarios. We hereby review current information systems for microarrays’ laboratories and for healthcare institutions and also the latest integration efforts, assessing the shortcomings and structural difficulties derived from integrating two distinct fields. We also present the expected difficulties that may arise from the developments in the genetic diagnosis field and its interactions with other diagnostic areas such as imaging and/or radiology. From this prospective analysis we propose a model where the laboratorial microarray data can be integrated with other diagnostic systems in clinical environments, performing structured diagnostic workflows and integrating information from multiple diagnostic sources onto the HIS.


Hospital Information System Health Information System Laboratory Information Management System Healthcare Enterprise Healthcare Information System 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.


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  1. 1.
    Bertucci, F., Viens, P., Birnbaum, D.: DNA microarrays for gene expression profiling of breast cancer: principles and prognostic applications. Pathol. Biol (Paris) 54, 49–54 (2006)Google Scholar
  2. 2.
    Fadiel, A., Naftolin, F.: Microarray applications and challenges: a vast array of possibilities. Int Arch Biosci, 1111–1121 (2003)Google Scholar
  3. 3.
    Kumar, A., Goel, G., Fehrenbach, E., Puniya, A.K., Singh, K.: Microarrays: The Technology, Analysis and Application. Microarray 5, 215–222 (2005)Google Scholar
  4. 4.
    Kuo, W.P.: Overview of bioinformatics and its application to oral genomics. Adv. Dent. Res. 17, 89–94 (2003)CrossRefGoogle Scholar
  5. 5.
    van Berkum, N.L., Holstege, F.C.: DNA microarrays: raising the profile. Curr. Opin. Biotechnol. 12, 48–52 (2001)CrossRefGoogle Scholar
  6. 6.
    Hess, K.R., Zhang, W., Baggerly, K.A., Stivers, D.N., Coombes, K.R.: Microarrays: handling the deluge of data and extracting reliable information. Trends Biotechnol. 19, 463–468 (2001)CrossRefGoogle Scholar
  7. 7.
    Arrais, J., Campos, G.L., Carreto, L., Oliveira, J.L., Santos, M.A.S.: Microarray data: from the hybridisation to the analysis, presented at “Best of” European Summer School in Biomedical Informatics Balatonfüred, Hungary (2006)Google Scholar
  8. 8.
    Arrais, J., Silva, L., Rodrigues, M., Carreto, L., Oliveira, J.L., Santos, M.A.S.: Why another microarray LIMS. presented at EMBEC 2005, Prage, Czech Republic (2005)Google Scholar
  9. 9.
    Killion, P.J., Sherlock, G., Iyer, V.R.: The Longhorn Array Database (LAD): an open-source, MIAME compliant implementation of the Stanford Microarray Database (SMD). BMC Bioinformatics 4, 32 (2003)CrossRefGoogle Scholar
  10. 10.
    Brazma, A., Hingamp, P., Quackenbush, J., Sherlock, G., Spellman, P., Stoeckert, C., Aach, J., Ansorge, W., Ball, C.A., Causton, H.C., Gaasterland, T., Glenisson, P., Holstege, F.C.P., Kim, I.F., Markowitz, V., Matese, J.C., Parkinson, H., Robinson, A., Sarkans, U., Schulze-Kremer, S., Stewart, J., Taylor, R., Vilo, J., Vingron, M.: Minimum information about a microarray experiment (MIAME) – toward standard for microarray data. Nat. Genet. 29(4), 365–371 (2001)CrossRefGoogle Scholar
  11. 11.
    Vargas, B., Pradeep, R.: Interoperability of hospital information systems: a case study (2003)Google Scholar
  12. 12.
    Arrais, J., Oliveira, J.L., Grimes, G., Moodie, S., Robertson, K., Ghazal, P.: Microarray data sharing in BioMedicine, presented at MIE 2006, Maastricht, Netherlands (2006)Google Scholar
  13. 13.
    Shabo, A.: The implications of electronic health records for personalized medicine. Personalized Medicine 2, 251–258 (2005)CrossRefGoogle Scholar
  14. 14.
    Hardiman, G.: Microarray platforms–comparisons and contrasts. Pharmacogenomics 5, 487–502 (2004)CrossRefGoogle Scholar
  15. 15.
    Jares, P.: DNA microarray applications in functional genomics. Ultrastruct Pathol 30, 209–219 (2006)CrossRefGoogle Scholar
  16. 16.
    Haux: Health information systems - past, present, future. International Journal of Medical Informatics 75, 268–281 (2006)CrossRefGoogle Scholar
  17. 17.
    Collen, M.F.: General requirements for a Medical Information System (MIS). Computers and Biomedical Research 3, 393–406 (1970)CrossRefGoogle Scholar
  18. 18.
    Berg, M., Aarts, J., van der Lei, J.: ICT in health care: sociotechnical approaches. Methods Of Information In Medicine 42, 297–301 (2003)Google Scholar
  19. 19.
    Kulikowski, C.A.: The micro-macro spectrum of medical informatics challenges: from molecular medicine to transforming health care in a globalizing society. Methods Of Information In Medicine 41, 20–24 (2002)Google Scholar
  20. 20.
    Maojo, V., Martin-Sanchez, F.: Bioinformatics: towards new directions for public health. Methods Of Information In Medicine 43, 208–214 (2004)Google Scholar
  21. 21.
    Shamir, R., Maron-Katz, A., Tanay, A., Linhart, C., Steinfeld, I., Sharan, R., Shiloh, Y., Elkon, R.: EXPANDER–an integrative program suite for microarray data analysis. BMC Bioinformatics 6, 232 (2005)CrossRefGoogle Scholar
  22. 22.
    Sarkans, U.: Standardisation of Microarray Data, Pharmatech (2003)Google Scholar
  23. 23.
    Shado, A.: The implications of electronic health records for personalized medicine. Personalized medicine 2, 251–258 (2005)CrossRefGoogle Scholar
  24. 24.
    Garcia-Hernandez, O., Lopez-Campos, G., Sanchez, J.P., Blanco, R., Romera-Lopez, A., Perez-Villamil, B., Martin-Sanchez, F.: Microarray data analysis and management in colorectal cancer. In: Oliveira, J.L., Maojo, V., Martín-Sánchez, F., Pereira, A.S. (eds.) ISBMDA 2005. LNCS (LNBI), vol. 3745, pp. 391–400. Springer, Heidelberg (2005)CrossRefGoogle Scholar
  25. 25.
    Smith, B., Ceusters, W.: HL7 RIM: An Incoherent Standard, presented at MIE 2006, Maastricht, Netherlands (2006)Google Scholar
  26. 26.
  27. 27.
    Henderson, M.: HL7 Messaging: OTech (2003)Google Scholar
  28. 28.
  29. 29.
    IHE, IHE Laboratory Technical Framework (2006)Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2006

Authors and Affiliations

  • Daniel F. Polónia
    • 1
  • Joel Arrais
    • 1
  • José Luis Oliveira
    • 1
  1. 1.DETI/IEETAUniversity of AveiroAveiroPortugal

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