Tampere University of Technology

TUTCRIS Research Portal

Publications

  1. 2007
  2. Differentially expressed genes between primary cancer and paired lymph node metastases predict clinical outcome of node-positive breast cancer patients

    Feng, Y., Sun, B., Li, X., Zhang, L., Niu, Y., Xiao, C., Fang, Z., Ning, L., Wang, Y., Cheng, J., Zhang, W. & Hao, X., 2007, In : Breast Cancer Research and Treatment. 103, 3, p. 319-329

    Research output: Contribution to journalArticleScientificpeer-review

  3. Distribution and viral load of eight oncogenic types of human papillomavirus (HPV) and HPV 16 integration status in cervical intraepithelial neoplasia and carcinoma

    Guo, M., Sneige, N., Silva, E., Jan, Y. J., Cogdell, D., Lin, E., Luthra, R. & Zhang, W., 2007, In : Modern Pathology. 20, p. 256-266

    Research output: Contribution to journalArticleScientificpeer-review

  4. Effects of coupling strength and space on the dynamics of coupled toggle switches in stochastic gene networks with multiple-delayed reactions

    S. Ribeiro, A., 2007, In : Physical Review E. 75, 6, 061903.

    Research output: Contribution to journalArticleScientificpeer-review

  5. Published

    Effects of microarray noise on inference efficiency of a stochastic model of gene networks

    Charlebois, D. A., S. Ribeiro, A., Lehmussola, A., Lloyd-Price, J., Yli-Harja, O. & Kauffman, S. A., 2007, In : WSEAS Transactions on Biology and Biomedicine. 4, 2, p. 15-21

    Research output: Contribution to journalArticleScientificpeer-review

  6. Expression level of insulin-like growth factor binding protein 5 mRNA is a prognostic factor for breast cancer

    Li, X., Cao, X., Zhang, W. & Feng, Y., 2007, In : Cancer Science. 98, 10, p. 1592-1596

    Research output: Contribution to journalArticleScientificpeer-review

  7. Expression of receptor tyrosine kinases and apoptotic molecules in rhabdomyosarcoma: correlation with overall survival in 105 patients

    Armistead, P. M., Salganick, J., Roh, J. S., Steinert, D. M., Patel, S., Munsell, M., El-Naggar, A., Benjamin, R. S., Zhang, W. & Trent, J. C., 2007, In : Cancer. 110, 10, p. 2293-2303

    Research output: Contribution to journalArticleScientificpeer-review

  8. Highly accurate two-gene classifier for differentiating gastrointestinal stromal tumors and leiomyosarcomas

    Price, N., Trent, J., El-Naggar, A., Cogdell, D., Taylor, E. E., Hunt, K., Pollock, R., Hood, L., Shmulevich, I. & Zhang, W., 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, p. 3414-3419

    Research output: Contribution to journalArticleScientificpeer-review

  9. Independent motile microplast formation correlates with glioma cell invasiveness

    Yount, G., Taft, R., Luu, T., Rachlin, K., Moore, D. & Zhang, W., 2007, In : Journal of Neuro-Oncology. 81, 2, p. 113-121

    Research output: Contribution to journalArticleScientificpeer-review

  10. Insulin-like growth factor binding protein 2 promotes glioma development and progression

    Dunlap, S. M., Celestino, J., Wang, H., Jiang, R., Holland, E., Fueller, G. N. & Zhang, W., 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 28, p. 11736-11741

    Research output: Contribution to journalArticleScientificpeer-review

  11. In vitro expression levels of cell cycle checkpoint proteins are associated with cellular DNA repair capacity in peripheral blood lymphocytes: a multivariate analysis

    Fan, Y. H., Hu, Z. B., Li, C., Wang, L. E., Guo, Z., Qiao, Y., Zhang, L., Zhang, W., Mao, L. & Wei, Q. Y., 2007, In : Journal of Proteome Research. 6, 4, p. 1560-1567

    Research output: Contribution to journalArticleScientificpeer-review

  12. Lääketieteen kirjallisuustietokannat ja tiedonhaku

    Heikkinen, J., Isohanni, M. & Miettunen, J., 2007, In : Suomen Lääkärilehti. 62, 22, p. 2156-2170

    Research output: Contribution to journalReview ArticleScientificpeer-review

  13. Learning and distributed systems development

    Pekkola, S., 2007, ECSCW'07 workshop on The Challenges of Collaborative Work in Global Software Development.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  14. MicroRNA expression profiling in prostate cancer

    Porkka, K. P., Pfeiffer, M. J., Waltering, K. K., Vessella, R. I., Tammela, T. L. J. & Visakorpi, T., 2007, In : Cancer Research. 67, 13, p. 6130-6135

    Research output: Contribution to journalArticleScientificpeer-review

  15. Molecular approaches to resolve diagnostic dilemmas: the case of gastrointestinal stromal tumor and leiomyosarcoma

    Trent, J., Lazar, A. J. F. & Zhang, W., 2007, In : Future Oncology. 3, 6, p. 629-637

    Research output: Contribution to journalArticleScientificpeer-review

  16. Mutation analysis of aryl hydrocarbon receptor interacting protein (AIP) gene in colorectal, breast, and prostate cancers

    Georgitsi, M., Karhu, A., Winqvist, R., Visakorpi, T., Waltering, K., Vahteristo, P., Launonen, V. & Aaltonen, L. A., 2007, In : British Journal of Cancer. 96, 2, p. 352-356

    Research output: Contribution to journalArticleScientificpeer-review

  17. Noisy attractors and ergodic sets in models of gene regulatory networks

    S. Ribeiro, A. & Kauffman, S. A., 2007, In : Journal of Theoretical Biology. 247, 4, p. 743-755

    Research output: Contribution to journalArticleScientificpeer-review

  18. Online interaction with in vitro neuronal networks

    Weihberger, O., Mikkonen, J. E. & Egert, U., 2007, Proceedings of the Seventh Göttingen Meeting of the German Neuroscience Society, 29 March - 1 April 2007, Göttingen, Germany. p. 1 p

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  19. Published

    Open Source Contributions as Platform Specialization Units

    Hammouda, I. & Mikkonen, T., 2007, Proceedings of OSSPL 2007, Limerick, Ireland, June 2007.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  20. Published

    Polkka-blogit - Opetuskäyttöön TTY:lle räätälöity blogijärjestelmä

    Huhtamäki, J., Häkkinen, P., Kaikuvuo, I., Pohjanen, L., Rasi, E., Saarela, L., Silius, K., Tervakari, A-M. & Zetterberg, S., 2007

    Research output: Artistic and non-textual formSoftwareScientific

  21. Polymorphic TP53BP1 and TP53 gene interactions associated with risk of squamous cell carcinoma of the head and neck

    Chen, K. X., Hu, Z., Wang, L. E., Zhang, W., Sturgis, E. M. & Wei, Q., 2007, In : Clinical Cancer Research. 13, 14, p. 4300-4305

    Research output: Contribution to journalArticleScientificpeer-review

  22. SGN Sim, a stochastic genetic networks simulator

    S. Ribeiro, A. & Lloyd-Price, J., 2007, In : Bioinformatics. 23, 6, p. 777-779

    Research output: Contribution to journalArticleScientificpeer-review

  23. Single nucleotide polymorphisms at the TP53-binding or responsive promoter regions of BAX and BCL2 genes and risk of squamous cell carcinoma of the head and neck

    Chen, K., Hu, Z., Wang, L., Sturgis, E. M., El-Naggar, A. K., Zhang, W. & Wei, Q., 2007, In : Carcinogenesis. 28, 9, p. 2008-2012

    Research output: Contribution to journalArticleScientificpeer-review

  24. Published
  25. Studying genetic regulatory networks at the molecular level: Delayed reaction stochastic models

    Zhu, R., S. Ribeiro, A., Salahub, D. & Kauffman, S. A., 2007, In : Journal of Theoretical Biology. 246, 4, p. 725-745

    Research output: Contribution to journalArticleScientificpeer-review

  26. Studying utility of personal usage-history: A software tool for enabling empirical research

    Wideroos, K. & Pekkola, S., 2007, In : Lecture Notes in Computer Science. 4550, p. 976-984

    Research output: Contribution to journalArticleScientificpeer-review

  27. Published

    Time-interleaved simulcast and redundant intra picture insertion for reducing tune-in delay in DVB-H

    Malamal Vadakital, V. K., Hannuksela, M. M. & Gabbouj, M., 2007, Proceedings of the 16th International Packet Video Workshop, Packet Video 2007, Lausanne, Swizerland, 12-13 November 2007. p. 10 p

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  28. Towards industrial service business: Challenges in Designing ICT support for the networks of companies

    Hiippavuori, S., Hänninen, M., Pekkola, S. & Luostarinen, K., 2007, Proceedings of the 9th International Conference on Enterprise Information Systems ICEIS'07, June 12-16 2007.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  29. Published

    User-centered design of a mobile application for sharing life memories

    Olsson, T., Lehtonen, M., Pavel, D. & Väänänen-Vainio-Mattila, K., 2007, MC07 Mobility '07 Proceedings of the 4th international conference on mobile technology, applications, and systems and the 1st international symposium on Computer human interaction in mobile technology, Singapore, September 12 - 14, 2007. p. 524-531

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  30. Published

    Wille Visualisation System

    Haapaniemi, M., Huhtamäki, J., Kortemaa, A., Mannio, M., Nykänen, O. & Salonen, J., 2007

    Research output: Artistic and non-textual formSoftwareScientific

  31. 2006
  32. 3D mesh coding using multiple description scalar quantizers

    Bici, M. O. & Akar, G. B., 2006, Proceedings of the IEEE 14th Signal Processing, Communication and Applications Conference, SIU 2006, Antalya, Turkey, 17-19 April 2006. p. 4 p

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  33. A general model for gene regulatory networks with stochastic dynamics

    S. Ribeiro, A., Zhu, R. & Kauffman, S. A., 2006, In : WSEAS Transactions on Biology and Biomedicine. 3, 3, p. 261-266

    Research output: Contribution to journalArticleScientificpeer-review

  34. A general modeling strategy for gene regulatory networks with stochastic dynamics

    Ribeiro, A., Zhu, R. & Kauffman, S. A., 2006, In : Journal of Computational Biology. 13, 9, p. 1630-1639

    Research output: Contribution to journalArticleScientificpeer-review

  35. Alternative splicing variants of IRF-1 lacking wxons 7, 8, and 9 in cervical cancer

    Lee, E., Jo, M., Park, J., Zhang, W. & Lee, J. H., 2006, In : Biochemical and Biophysical Research Communications. 347, 4, p. 882-888

    Research output: Contribution to journalArticleScientificpeer-review

  36. An interaction between insulin-like growth factor binding protein 2 and integrin 5 is essential for IGFMP2-induced cell mobility

    Wang, G., Hu, L., Fuller, G. N. & Zhang, W., 2006, In : Journal of Biological Chemistry. 281, 20, p. 14085-14091

    Research output: Contribution to journalArticleScientificpeer-review

  37. A proposed model for small-world structural organization of mission teams and tasks in order to optimize efficiency and minimize costs

    S. Ribeiro, A. & Almeida, M., 2006, In : Acta Astronautica. 59, 8-11, p. 1086-1092

    Research output: Contribution to journalArticleScientificpeer-review

  38. Published

    A UML-based approach for abstracting interfaces to REST-like services

    Laitkorpi, M., Koskinen, J. & Systä, T., 2006, WCRE '06, Proceedings of the 13th Working Conference on Reverse Engineering, Benevento, Italy, Oct. 2006. p. 134-146

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  39. Chemical genetic identification of the IGF-linked pathway that is mediated by STAT6 and MFP2

    Choi, Y., Shimogawa, H., Murakami, K., Ramdas, L., Zhang, W., Qin, L. & Uesugi, M., 2006, In : Chemistry and Biology. 13, 3, p. 241-249

    Research output: Contribution to journalArticleScientificpeer-review

  40. Different perspectives on learning in information system development

    Pirinen, A. & Pekkola, S., 2006, Proceedings of the 29th Information Systems Research Seminar in Scandinavia, IRIS'29.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  41. Early effects of imatinib mesylate on the expression of insulin-like growth factor binding proetein 3 and psitrom emission tomography in patients with gastrointestinal stromal tumor

    Trent, J. C., Ramdas, L., Dupart, J. J., Hunt, K., Oyedeji, C., Taylor, E. E., Hu, L., Chen, L. L., Benjamin, R. S., Pollock, R. & Zhang, W., 2006, In : Cancer. 107, 8, p. 1898-1908

    Research output: Contribution to journalArticleScientificpeer-review

  42. End users in information systems development: Perceptions, involvement, practice and implications

    Isomäki, H. & Pekkola, S., 2006, Proceedings of Hawaii International Conference on System Sciences, 2006, Hawaii, HICSS-38.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  43. Evaluating end-user support: Validating the use of multiple media in a CSCW application

    Pekkola, S. & Isomäki, H., 2006, Proceedings of the 39th Annual Hawaii International Conference on System Sciences, 4-7 January 2006. p. 10 p

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  44. Expression of Bcl-2 in gastrointestinal stromal tumors: correlation with progression-free survival in 81 patients treated with imatinib mesylate

    Steinert, D. M., Oyarzo, M., Wang, X., Choi, H., Thall, P. F., Medeiros, L. J., Raymond, A. K., Benjamin, R. S., Zhang, W. & Trent, J. C., 2006, In : Cancer. 106, 7, p. 1617-1623

    Research output: Contribution to journalArticleScientificpeer-review

  45. Inactivation of IkB contributes to transcriptional activation of spermidine/spermine N(1)-acetyltransferase

    Choi, W., Proctor, L., Xia, Q., Feng, Y., Gerner, E. W., Chiao, P. J., Hamilton, S. R. & Zhang, W., 2006, In : Molecular Carcinogenesis. 45, 9, p. 685-693

    Research output: Contribution to journalArticleScientificpeer-review

  46. Insulin-like growth factor binding protein 2 and 5 are differentially regulated in ovarian cancer of different histologic types

    Wang, H., Rosen, D. G., Fuller, G. N., Zhang, W. & Liu, J., 2006, In : Modern Pathology. 19, 9, p. 1149-1156

    Research output: Contribution to journalArticleScientificpeer-review

  47. Measuring information propagation and retention in Boolean networks and its implications to a model of human organizations

    S. Ribeiro, A., Este, R. A., Lloyd-Price, J. & Kauffman, S. A., 2006, In : WSEAS Transactions on Biology and Biomedicine. 5, 12, p. 2935-2942

    Research output: Contribution to journalArticleScientificpeer-review

  48. Mitochondrial respiration defects in cancer cells cause activation of Akt survival pathway through a redox-mediated mechanism

    Pelicano, H., Xu, R. H., Du, M., Feng, L., Sasaki, R., Carew, J. S., Hu, Y., Ramdas, L., Hu, L., Keating, M. J., Zhang, W., Plunkett, W. & Huang, P., 2006, In : Journal of Cell Biology. 175, 6, p. 913-923

    Research output: Contribution to journalArticleScientificpeer-review

  49. Multiple description scalar quantization based 3D mesh coding

    Bici, M. O. & Akar, G. B., 2006, Proceedings of 2006 IEEE International Conference on Image Processing, ICIP 2006, Atlanta, Georgia, USA, 8-11 October 2006. p. 553-556

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

  50. Mutation screening of the androgen receptor promoter and untranslated regions in prostate cancer

    Waltering, K. K., Wallen, M. J., Tammela, T. L. J., Vessella, R. L. & Visakorpi, T., 2006, In : Prostate. 66, 15, p. 1585-1591

    Research output: Contribution to journalArticleScientificpeer-review

  51. Overexpression of IGFBP5, but not IGFBP3, correlates with the histologic grade of human diffuse glioma: a tissue microarray and immunohistochemical study

    Wang, H., Zhang, W. & Fuller, G. N., 2006, In : Technology in Cancer Research and Treatment. 5, 3, p. 195-200

    Research output: Contribution to journalArticleScientificpeer-review

  52. Published

    Performance Implications of Design Pattern Usage in Distributed Applications - Case Studies in J2EE and .NET.

    Rudzki, J. & Systä, T., 2006, ROSATEA '06 Proceedings of the ISSTA 2006 workshop on Role of software architecture for testing and analysis, Portland, Maine, USA, July 17-20, 2006. p. 1-11 11 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

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