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Welcome to SAINT/S3EL Research Groups Website

The Service-Oriented Software & Systems Engineering Laboratory (S3EL), directed by UCSD CSE Professor Ingolf Krueger, researches innovative techniques for software and systems engineering using a service-oriented approach. Prof. Krueger also leads the software and systems architecture and integration team (SAINT) at Calit2, which provides a rich set of software engineering services to large-scale systems of systems integration projects within Calit2. 


Blog Posts

  • Blog post: Ruby Rapids Screencast created by
    Sep 22, 2012
  • Blog post: Earth Day 2009 - Ocean Observatories Initiative to Expand Research into World's Largest Ecosystem created by
    Nov 03, 2009
  • Blog post: UCSD to develop the next generation Ocean Observing Cyberinfrastructure created by
    Sep 02, 2009
  • Blog post: Project GreenLight Recognized for Sustainability Efforts created by
    Apr 30, 2009

  • Events

    • The Symposium on Automotive/Avionics Systems Engineering (SAASE) 2009 is part of a week-long summer school that includes tutorials, panel discussions, and the research paper presentations. SAASE will be held October 12-16, 2009 in San Diego, CA, USA, with tutorials and presentations at the San Diego Supercomputer Center Auditorium (SDSC).
    • The Automotive Service-Oriented Software (ASOSA) Workshop 2008 took place at Calit2 #4004 on June 16-17.
    • Consider submitting your best software engineering paper of the decade to the ICSE 2010 in Cape Town, May 2-8, 2010.
    • San Diego Software Industry Council event on SOA/Web Services BIG: SOA that Talks - May 08, 2007, 5:30-7:30pm.
    • Jayadev Misra visited the CSE Department as a Distinguished Lecturer; he gave a talk on 1/26, 11am, CSE 1201. (Slides)

    Latest Publications


    D. Meeker, X. Jiang, M. Matheny, C. Farcas, M. D'Arcy, L. Pearlman, L. Nookala, M. Day, K. Kim, H. Kim, A. Boxwala, R. El-Kareh, G. Kuo, F. Resnic, C. Kesselman, and L. Ohno-Machado, “A System to Build Distributed Multivariate Models and Manage Disparate Data Sharing Policies: Implementation in the Scalable National Network for Effectiveness Research,” Journal of the American Medical Informatics Association, 2015. (in press)


    G. Su, J.H. Morris, B. Demchak, and G.D. Bader, “Biological Network Exploration with Cytoscape 3,” Current Protocols in Bioinformatics, vol. 47, no. 8, Sep. 2014.

    J. A. Carlson, M. M. Jankowska, K. Meseck, S. Godbole, L. Natarajan, F. Raab, B. Demchak, K. Patrick, and J. Kerr, “Validity of PALMS GPS Scoring of Active and Passive Travel Compared to SenseCam,” Medicine & Science in Sports & Exercise, Jul. 2014. (e-published ahead of print)

    B. Demchak, T. Hull, M. Reich, T. Liefeld, M. Smoot, T. Ideker, and J. Mesirov, “Cytoscape: the network visualization tool for GenomeSpace workflows,” F1000 Research, vol. 3, no. 151, Jul. 2014.

    D. Welker and B. Demchak, “Porting and using PanGIA for Cytoscape 3: challenges and solutions,” F1000 Research, vol. 3, no. 150, Jul. 2014.

    J. Kim, E. Levy, A. Ferbrache, P. Stepanowsky, C. Farcas, S. Wang, S. Brunner, T. Bath, Y. Wu, and L. Ohno-Machado, “MAGI: a Node.js web service for fast MicroRNA-Seq Analysis in a GPU Infrastructure,” Bioinformatics, Jun. 2014.

    F. Resnic, D. Khodyakov, L. Armstead, T. Nagler, S. Morley, N. Anderson, D. Cooper, D. Phillips, D. Heber, Z. Li, M. K Ong, A. Patel, M. Zachariah, J. C Burns, L. B Daniels, S. Doan, C. Farcas, R. Germann-Kurtz, X. Jiang, H.-E. Kim, P. Paul, H. Taras, A. Tremoulet, S. Wang, W. Zhu, D. Berman, A. Rizk-Jackson, M. D'Arcy, C. Kesselman, T. Knight, L. Pearlman, P. Heidenreich, D. Rifkin, C. Stepnowsky, T. Zamora, S. L Duvall, L. J Frey, J. Scehnet, B. C Sauer, J. C Facelli, R. K Gouripeddi, J. Denton, F. Fitzhenry, J. Fly, V. Messina, F. Minter, L. Nookala, H. Sullivan, T. Speroff, and D. Westerman, “pSCANNER: patient-centered Scalable National Network for Effectiveness Research,” Journal of the American Medical Informatics Association, Apr. 2014.

    J. Dutkowski, K. Ono, M. Kramer, M. Yu, D. Pratt, B. Demchak, and T. Ideker, “NeXO Web: The NeXO Ontology Database and Visualization Platform,” Nucleic Acids Research (Database Issue), vol. 42, pp. 1269-1274, Jan. 2014.

    E. Farcas, C. Farcas, and I. Krueger, “Successful CyberInfrastructures for E-Health,” Economics-driven Software Architecture, I. Mistrik, R. Bahsoon, Y. Zhang, and R. Kazman (Eds.), ch. 12, pp. 259-296, Waltham, MA: Elsevier, 2014. (in press)

    S. Peterson, K Basen-Engquist, W Demark-Wahnefried, A. Prokhorov, E. Shinn, S. Martch, E. Farcas, C Baru, I. Krueger, A. Garden, B. Beadle, C Eng, P. Cinciripini, M. Karam-Hage, G. Gunn, C. Fuller, W. Morrison, D. Rosenthal, J Phan, and K Patrick, “Feasibility of using home-based mobile sensors for remote patient monitoring in cancer care and prevention.” ASCO Annual Meeting, May 30-June 3, 2014; Chicago, Illinois. J Clin Oncol 32:5s, 2014. (suppl; abstract 9585)


    S. Altschul, B. Demchak, R. Durbin, R. Gentleman, M. Krzywinski, H. Li, A. Nekrutenko, J. Robinson, W. Rasband, J. Taylor, and C. Trapnell, “The Anatomy of Successful Computational Biology Software,” Nature Biotechnology, vol. 31, no. 10, pp. 894-897, Oct. 2013.

    Y. Katsis, C. Baru, T. Chan, S. Dasgupta, C. Farcas, W. G. Griswold, J. Huang, L. Ohno-Machado, Y. Papakonstantinou, F. Raab, and K. Patrick, “DELPHI: Data E-Platform for Personalized Population Health,” in Proceedings of IEEE 15th International Conference on e-Health Networking, Applications & Services (Healthcom), vol. SSH: IEEE International Workshop on Service Science for eHealth. Oct. 2013, pp. 115-119.

    Copyright notice

    The materials on this page are presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each publisher's and author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder.

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