Jaakko Hollmen

Senior University Lecturer

Research outputs

  1. 2007
  2. Published

    Mixture modeling of DNA copy number amplification patterns in cancer

    Tikka, J., Hollmén, J. & Myllykangas, S., 2007, 9th International Work-Conference on Artificial Neural Networks (IWANN 2007). Sandoval, F., Prieto, A., Cabestany, J. & Grana, M. (eds.). San Sebastián, p. 972-979

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

  3. Published

    Modeling the effects of varying data quality on trend detection in environmental monitoring

    Sulkava, M., Luyssaert, S., Rautio, P., Janssens, I. A. & Hollmén, J., 2007, In : Ecological Informatics. 2, 2, p. 167-176

    Research output: Contribution to journalArticleScientificpeer-review

  4. Published

    Model Selection and Estimation Via Subjective User Preferences

    Hollmén, J., 2007, The Tenth International Conference on Discovery Science (DS 2007). Corruble, V., Takeda, M. & Suzuki, E. (eds.). Sendai, p. 259-263

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

  5. Published

    Photosynthesis drives anomalies in net carbon-exchange of pine forests at different latitudes

    Luyssaert, S., Janssens, I. A., Sulkava, M., Papale, D., Dolman, A. J., Reichstein, M., Hollmén, J., Martin, J. G., Suni, T., Vesala, T. & 3 othersLousteau, D., Law, B. E. & Moors, E. J., 2007, In : Global Change Biology. 13, 10, p. 2110-2127

    Research output: Contribution to journalArticleScientificpeer-review

  6. Published

    Predictive value of histopathologic parameters in early squamous cell carcinoma of oral tongue

    Keski-Säntti, H., Atula, T., Tikka, J., Hollmén, J., Mäkitie, A. A. & Leivo, I., 2007, In : Oral Oncology. 43, 10, p. 1007-1013

    Research output: Contribution to journalArticleScientificpeer-review

  7. Published

    Segmenting multi-attribute sequences using Dynamic Bayesian Networks

    Gwadera, R., Toivola, J. & Hollmén, J., 2007, The Seventh IEEE International Conference on Data Mining - Workshops (ICDM Workshops 2007). IEEE Computer Society, p. 465-470

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

  8. 2006
  9. Published

    Analysis of Fast Input Selection: Application in Time Series Prediction

    Tikka, J., Lendasse, A. & Hollmén, J., 2006, International Conference on Artificial Neural Networks (ICANN), Athens, Greece, September 10-14, 2006. p. 161-170

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

  10. Published

    Analysis of Linux evolution using aligned source code segments

    Rasinen, A., Hollmén, J. & Mannila, H., 2006, Ninth International Conference on Discovery Science, Barcelona, Spain, October, 2006. Lavrac, N., Todorovski, L. & Jantke, K. P. (eds.). p. 209-218

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

  11. Published

    Asbestos-associated malignancies in the lung and pleura show distinct genetic aberrations

    Lindholm, P., Nymark, P., Wikman, H., Salmenkivi, K., Nicholson, A., Korpela, M. V., Kaski, S., Ruosaari, S., Hollmen, J., Vanhala, E. & 4 othersKarjalainen, A., Anttila, S., Kinnula, V. & Knuutila, S., 2006, In : LUNG CANCER. 54, p. pp. S15-S15

    Research output: Contribution to journalArticleScientificpeer-review

  12. Published

    DNA copy number amplification profiling of human neoplasms

    Myllykangas, S., Himberg, J., Böhling, T., Nagy, B., Hollmén, J. & Knuutila, S., 2006, In : Oncogene. 25, 55, p. 7324-7332

    Research output: Contribution to journalArticleScientificpeer-review

  13. Published

    Extending an Algorithm for Clustering Gene Expression Time Series

    Korpela, M. & Hollmén, J., 2006, Probabilistic Modeling and Machine Learning in Structural and Systems Biology, Tuusula, Finland, 2006. Rousu, J., Kaski, S. & Ukkonen, E. (eds.). Helsinki, p. 120-124

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

  14. Published

    Identification of specific gene copy number changes in asbestos-related lung cancer

    Nymark, P., Wikman, H., Ruosaari, S., Hollmén, J., Vanhala, E., Karjalainen, A., Anttila, S. & Knuutila, S., 2006, In : CANCER RESEARCH. 66, 11, p. 5737-5743

    Research output: Contribution to journalArticleScientificpeer-review

  15. Published

    Is N and S deposition altering the mineral nutrient composition of Norway spruce and Scots pine needles in Finland?

    Luyssaert, S., Sulkava, M., Raitio, H., Hollmén, J. & Merilä, P., 2006, Göttingen, Germany, p. 80-81, (Forests in a Changing Environment - Results of 20 years ICP Forests Monitoring, Symposium, Göttingen, Germany, October 2006).

    Research output: Working paperProfessional

  16. Published

    Photosynthesis drives interannual variability in net carbon-exchange of pine forests at different latitudes

    Luyssaert, S., Janssens, I. A., Sulkava, M., Papale, D., Dolman, A. J., Reichstein, M., Suni, T., Hollmén, J., Vesala, T., Lousteau, D. & 2 othersLaw, B. & Moors, E. J., 2006, Jena, Germany, p. 86-87, (Open Science Conference on the GHG Cycle in the Northern Hemisphere, Sissi-Lassithi, Greece, November 2006).

    Research output: Working paperProfessional

  17. Published

    Sparse Regression for Analyzing the Development of Foliar Nutrient Concentrations in Coniferous Trees

    Sulkava, M., Tikka, J. & Hollmén, J., 2006, In : Ecological Modelling. 191, p. 118-130

    Research output: Contribution to journalArticleScientificpeer-review

  18. 2005
  19. Published

    Are N and S Deposition Altering the Chemical Composition of Norway Spruce and Scots Pine Needles in Finland?

    Luyssaert, S., Sulkava, M., Raitio, H. & Hollmén, J., 2005, In : Environmental Pollution. 138, 1, p. 5-17

    Research output: Contribution to journalArticleScientificpeer-review

  20. Published

    Combining Measurement Quality into Monitoring Trends in Foliar Nutrient Concentrations

    Sulkava, M., Rautio, P. & Hollmén, J., 2005, ICANN 2005: 15th International Conference, Warsaw, Poland, September 2005. Duch, W., Kacprzyk, J., Oja, E. & Zadrozny, S. (eds.). p. 761-767

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

  21. Published

    Input Selection for Long-Term Prediction of Time Series

    Tikka, J., Hollmén, J. & Lendasse, A., 2005, 8th International Work-Conference on Artificial Neural Networks (IWANN 2005), Barcelona, Spain, June 8-10, 2005. Cabestany, J., Prieto, A. & Sandoval, F. (eds.). Berlin, p. 1002-1009

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

  22. Published

    L1CAM, INP10, P-cadherin, tPA and ITGB4 Over-Expression in Malignant Pleural Mesotheliomas Revealed by Combined Use of cDNA and Tissue Microarray

    Kettunen, E., Nicholson, A. G., Nagy, B., Wikman, H., Seppänen, J. K., Stjernvall, T., Ollikainen, T., Kinnula, V., Nordling, S., Hollmén, J. & 2 othersAnttila, S. & Knuutila, S., 2005, In : Carcinogenesis. 26, 1, p. 17-25

    Research output: Contribution to journalArticleScientificpeer-review

  23. Published

    Ohjeita jatko-opiskelijalle

    Kuosmanen, P., Kärhä, P., Hiisilä, H., Mauno, A. & Hollmen, J., 2005, Espoo, p. 20, (Helsinki University of Technology Publications in Machine Design; no. 1).

    Research output: Working paperProfessional

  24. Published

    Opinnäytetyön ohjaus Teknillisessä korkeakoulussa

    Kärhä, P., Hollmen, J., Karling, S., Kujala, J., Kuosmanen, P. & Lindqvist, J., 2005, Espoo, p. 38, (Metrology Research Institute Report; no. Report 28/2005).

    Research output: Working paperProfessional

  25. Published

    Proceedings of KRBIO05, Symposium on Knowledge Representation in Bioinformatics, Espoo, Finland, June 15-17, 2005

    Bounsaythip, C., Hollmén, J., Kaski, S. & Oresic, M., 2005, Espoo, Finland: Helsinki University of Technology. 50 p.

    Research output: Book/ReportAnthologyScientificpeer-review

  26. 2004
  27. Published

    An Automated Report Generation Tool for the Data Understanding Phase

    Vesanto, J. & Hollmén, J., 2004, Innovations in Intelligent Systems: Design, Management and Applications, Studies in Fuzziness and Soft Computing Vol. 140. Abraham, A., Jain, L. & van der Zwaag, B. J. (eds.). Heidelberg: Springer (Physica) Verlag, p. chapter 5

    Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

  28. Published

    Caveolins as Tumor Markers in Lung Cancer Detected by Combined Use of cDNA and Tissue Microarrays

    Wikman, H., Seppänen, J. K., Sarhadi, V. K., Kettunen, E., Salmenkivi, K., Kuosma, E., Vainio-Siukola, K., Nagy, B., Karjalainen, A., Sioris, T. & 4 othersSalo, J., Hollmén, J., Knuutila, S. & Anttila, S., 2004, In : The American Journal of Pathology. 203, p. 584-593

    Research output: Contribution to journalArticleScientificpeer-review

  29. Published

    Differentially Expressed Genes in Non-Small Cell Lung Cancer (NSCLC).Expression Profiling of Cancer-Related Genes in Squamous Cell Lung Cancer

    Kettunen, E., Anttila, S., Seppänen, J. K., Karjalainen, A., Edgren, H., Lindström, I., Salovaara, R., Nissén, A-M., Salo, J., Mattson, K. & 3 othersHollmén, J., Knuutila, S. & Wikman, H., 2004, In : Cancer Genetics and Cytogenetics. 149, 2, p. 98-106

    Research output: Contribution to journalArticleScientificpeer-review

  30. Published

    Evaluation of Forest Nutrition Based on Large-Scale Foliar Surveys: Are Nutrition Profiles the Way of the Future?

    Luyssaert, S., Sulkava, M., Raitio, H. & Hollmén, J., 2004, In : Journal of Environmental Monitoring. 6, 2, p. 160-167

    Research output: Contribution to journalArticleScientificpeer-review

  31. Published

    Learning Linear Dependency Trees from Multivariate Time-series Data

    Tikka, J. & Hollmén, J., 2004, Workshop on Temporal Data Mining: Algorithms, Theory and Applications (in conjunction with The Fourth IEEE International Conference on Data Mining), Brighton, UK, November 2004.

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

  32. Published

    Model-Independent Bounding of the Supports of Boolean Formulae in Binary Data

    Bykowski, A., Seppänen, J. K. & Hollmén, J., 2004, Database Support for Data Mining Applications: Discovering Knowledge with Inductive Queries, Lecture Notes in Computer Science Vol. 2682. Meo, R., Lanzi, P. & Klemettinen, M. (eds.). vol. 2682 ed. Heidelberg, p. 234-249

    Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

  33. Published

    Sparse Regression for Analyzing the Development of Foliar Nutrient Concentrations in Coniferous Trees

    Sulkava, M., Tikka, J. & Hollmén, J., 2004, p. 57-58, (Fourth International Workshop on Environmental Applications of Machine Learning (EAML 2004), Bled, Slovenia, September 2004).

    Research output: Working paperProfessional

  34. 2003
  35. Published

    Finding Profiles of Forest Nutrition by Clustering of the Self-Organizing Map

    Sulkava, M. & Hollmén, J., 2003, Workshop on Self-Organizing Maps (WSOM'03), Hibikino, Kitakyushu, Japan, September 11-14, 2003. p. 243-248

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

  36. Published

    Identifying Differentially Expressed Genes

    Ruosaari, S. & Hollmén, J., 2003, (TICSP Workshop on Computational Systems Biology, Tampere, Finland, June 16-17, 2003,).

    Research output: Working paperProfessional

  37. Published

    Identifying Differentially Expressed Genes with Bootstrap-Based Testing

    Ruosaari, S. & Hollmén, J., 2003, (Bioinformatics 2003, Helsinki, Finland, May 22-24, 2003).

    Research output: Working paperProfessional

  38. Published

    Mixture Models and Frequent Sets: Combining Global and Local Methods for 0-1 Data

    Hollmén, J., Seppänen, J. K. & Mannila, H., 2003, Third SIAM International Conference on Data Mining, San Francisco, CA, USA, May 1-3, 2003. Barbará, D. & Kamath, C. (eds.). Society of Industrial and Applied Mathematics, p. 289-293

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

  39. Published

    On the Decomposition of the Self-Organizing Map Distortion Measure

    Vesanto, J., Sulkava, M. & Hollmén, J., 2003, Workshop on Self-Organizing Maps (WSOM'03), Hibikino, Kitakyushu, Japan, September 11-14, 2003. p. 11-16

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

  40. Published

    Simulation Model for Gene Expression Data

    Katajamaa, M. & Hollmén, J., 2003, p. 249-250, (Currents in Computational Molecular Biology 2003, Seventh Annual International Conference on Research in Computational Molecular Biology, RECOMB, April 2003).

    Research output: Working paperProfessional

  41. 2002
  42. Published

    An Automated Report Generation Tool for the Data Understanding Phase

    Vesanto, J. & Hollmén, J., 2002, Recent Advances in Intelligent Paradigms and Applications, Studies in Fuzziness and Soft Computing (Vol. 113). Abraham, A. & Kacprzyk, J. (eds.). Heidelberg: Physica (Springer) Verlag

    Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

  43. Published

    An Automated Report Generation Tool for the Data Understanding Phase

    Vesanto, J. & Hollmén, J., 2002, First International Conference on Hybrid Intelligent Systems (HIS'01), Adelaide, Australia, Dec. 11-12, 2001. Abraham, A. & Köppen, M. (eds.). Heidelberg: Physica-Verlag, p. 611-625

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

  44. Published

    Expression of Myeloid-Specific Genes in Childhood Acute Lymphoblastic Leukemia -- a cDNA Array Study

    Niini, T., Vettenranta, K., Hollmén, J., Larramendy, M. L., Aalto, Y., Wikman, H., Nagy, B., Seppänen, J. K., Salvador, A. F., Mannila, H. & 2 othersSaarinen-Pihkala, U. M. & Knuutila, S., 2002, In : Leukemia. 16, 11, p. 2213-2221

    Research output: Contribution to journalArticleScientificpeer-review

  45. Published

    Identification of Differentially Expressed Genes in Pulmonary Adenocarcinoma by Using a cDNA Array

    Wikman, H., Kettunen, E., Seppänen, J. K., Karjalainen, A., Hollmén, J., Anttila, S. & Knuutila, S., 2002, In : Oncogene. 21, 37, p. 5804-5813

    Research output: Contribution to journalArticleScientificpeer-review

  46. Published

    Image Analysis for Detecting Faulty Spots from Microarray Images

    Ruosaari, S. & Hollmén, J., 2002, p. 259-266, (5th International Conference on Discovery Science (DS'2002), Lübeck, Germany, November 24-26, 2002).

    Research output: Working paperProfessional

  47. Published

    Investigatory and Analytical Approaches to Differential Gene Expression Profiling in Mantle Cell Lymphoma

    Zhu, Y., Hollmén, J., Räty, R., Aalto, Y., Nagy, B., Elonen, E., Kere, J., Mannila, H., Franssila, K. & Knuutila, S., 2002, In : British Journal of Haematology. 119, 4, p. 905-915

    Research output: Contribution to journalArticleScientificpeer-review

  48. Published

    Model-independent Bounding of the Supports of Boolean Formulae in Binary Data

    Bykowski, A., Seppänen, J. & Hollmén, J., 2002, First International Workshop Knowledge Discovery in Inductive Databases (KDID'02), Helsinki, Finland, August 2002. Mika Klemettinen, R. M. (ed.). p. 20-31

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

  49. Published

    Nonnegative Matrix Factorization on Gene Expression Data

    Seppänen, J., Hollmén, J., Bingham, E. & Mannila, H., 2002, p. poster 49, (Bioinformatics 2002, Bergen, Norway, April 4-7, 2002).

    Research output: Working paperProfessional

  50. Published

    Residuals Generation and Visualization for Understanding Novel Process Conditions

    Díaz, I. & Hollmén, J., 2002, IEEE 2002 International Joint Conference on Neural Networks (IJCNN'02), Honolulu, Hawaii, USA, May 12-17, 2002. p. 2070-2075

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

  51. 2001
  52. Published

    Models from data Analysis of Industrial Processes and Telecommunication Systems

    Simula, O., Hollmén, J. & Alhoniemi, E., 2001, Automazione'2001, Ancona, Italy, Nov. 22-23, 2001. p. 13-19

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

  53. 2000
  54. Published

    Hidden Markov Model for Metric and Event-Based Data

    Hollmén, J. & Tresp, V., 2000, 10th European Signal Processing Conference, EUSIPCO 2000, Tampere, Finland, September 4-8, 2000. p. 737-740

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

  55. Published

    Input-Dependent Misclassification Costs for Cost-Sensitive Classification

    Hollmén, J., Skubacz, M. & Taniguchi, M., 2000, Second International Conference on Data Mining 2000, Cambridge, England, July 5-7, 2000. Ebecken, N. & Brebbia, C. (eds.). p. 495-503

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

  56. Published

    Learning Vector Quantization Algorithm for Probabilistic Models

    Hollmén, J., Tresp, V. & Simula, O., 2000, Tenth European Signal Processing Conference, EUSIPCO 2000, Tampere, Finland, September 4-8, 2000. p. 721-724

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

  57. Published

    Quantization of Continuous Input Variables for Binary Classification

    Skubacz, M. & Hollmén, J., 2000, Second International Conference on Intelligent Data Engineering and Automated Learning (IDEAL'2000), Hong Kong, December 13-15, 2000. Leung, K. S., Chan, L-W. & Meng, H. (eds.). Berlin, p. 42-47

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

  58. 1999
  59. Published

    Analysis and Modeling of Complex Systems Using the Self-Organizing Map

    Simula, O., Vesanto, J., Alhoniemi, E. & Hollmén, J., 1999, Neuro-Fuzzy Techniques for Intelligent Information Systems. Kasabov, N. & Kozma, R. (eds.). Physica-Verlag, p. 3-22

    Research output: Chapter in Book/Report/Conference proceedingChapterScientificpeer-review

ID: 57867