LIST OF PUBLICATIONS

Jaakko Hollmén

26th September, 2016

NEWS!

What's new? Take a look at the most recent journal articles and conference articles.


My publications are available through Google Scholar, SpringerLink, PubMed and DBLP.

Edited books

  1. Jaakko Hollmén, Panagiotis Papapetrou, editors. Proceedings of the ECMLPKDD 2015 Doctoral Consortium, Aalto University publication series SCIENCE + TECHNOLOGY, 272 pages, December 2015.

  2. Jaakko Hollmén, Frank Klawonn, Allan Tucker, editors. Advances in Intelligent Data Analysis XI — Proceedings of the 11th International Symposium on Intelligent Data Analysis (IDA 2012 ), volume 7619 of Lecture Notes in Computer Science. Springer-Verlag, October 2012.

  3. João Gama, Elizabeth Bradley, Jaakko Hollmén, editors. Advances in Intelligent Data Analysis X — Proceedings of the 10th International Symposium on Intelligent Data Analysis (IDA 2011), volume 7014 of Lecture Notes in Computer Science. Springer-Verlag, October 2011.

  4. Tapio Elomaa, Jaakko Hollmén, and Heikki Mannila, editors. Discovery Science — Proceedings of the 14th International Conference ( DS 2011), volume 6926 of Lecture Notes in Computer Science. Springer-Verlag, October 2011.

  5. Catherine Bounsaythip, Jaakko Hollmén, Samuel Kaski, and Matej Orešič, editors. Proceedings of KRBIO'05, International Symposium of the Knowledge Representation in Bioinformatics. Helsinki University of Technology, 2005. Espoo, Finland.

Articles in international refereed journals

The most recent journal articles appear first in the list. See also conference articles or go to the top of the page.
  1. Kulmala L., Žliobaitė, I., Nikinmaa E., Nöjd P., Kolari P., Kabiri Koupaei K., Hollmén J., Mäkinen H. Environmental control of growth variation in a boreal Scots pine stand — a data-driven approach. Silva Fennica, In Press.

  2. Jesse Read, Luca Martino, and Jaakko Hollmén. Multi-label Methods for Prediction with Sequential Data, Pattern Recognition, 63:45—55, March 2017.

  3. Liisa Kulmala, Jesse Read, Pekka Nöjd, Cyrille B.K. Rathgeber, Henri E. Cuny, Jaakko Hollmén, and Harri Mäkinen. Identifying the main drivers for the production and maturation of Scots pine tracheids along a temperature gradient, Agricultural and Forest Meteorology, 232:210—224, January 2017.

  4. Prem Raj Adhikari, Anze Vavpetic, Jan Kralj, Nada Lavrač, Jaakko Hollmén. Explaining Mixture Models through Semantic Pattern Mining and Banded Matrix Visualization. Machine Learning, 105(1), 3—39, October 2016.

  5. Jesse Read, Indrė Žliobaitė, Jaakko Hollmén. Labeling sensing data for mobility modeling. Information Systems, 57, 207—222, April 2016.

  6. Indrė Žliobaitė, Jaakko Hollmén. Optimizing regression models for data streams with missing values. Machine Learning, 99(1), 47—73, April 2015.

  7. Prem Raj Adhikari, Jaakko Hollmén. Fast Progressive Training of Mixture Models for Model Selection. Journal of Intelligent Information Systems, 44(2):223—241, April 2015.

  8. Indrė Žliobaitė, Jaakko Hollmén, Heikki Junninen. Regression models tolerant to massively missing data: a case study in solar radiation nowcasting. Atmospheric Measurement Techniques Discussions, 7, 7137—7174, 2014

  9. Tarja Niini, Ilari Scheinin, Leo Lahti, Suvi Savola, Fredrik Mertens, Jaakko Hollmén, Tom Böhling, Aarne Kivioja, Karolin H. Nord, and Sakari Knuutila. Homozygous deletions of cadherin genes in chondrosarcoma — an array CGH study. Cancer Genetics, 205(11):588—593, November 2012.

  10. Alexios Kotsifakos, Panagiotis Papapetrou, Jaakko Hollmén, Dimitrios Gunopulos, Vassilis Athitsos, and George Kollios. Hum-a-song: A subsequence matching with gaps-range-tolerances query-by-humming system. Proceedings of the Very Large Databases Endowement (PVLDB), 4(12):1930—1933, 2012.

  11. Miguel A. Prada and Janne Toivola and Jyrki Kullaa and Jaakko Hollmén. Three-way analysis of structural health monitoring data, Neurocomputing, 80:119—128, March, 2012.

  12. Alexios Kotsifakos, Panagiotis Papapetrou, Jaakko Hollmén, and Dimitrios Gunopulos. A subsequence matching with gaps-range-tolerances framework: A query-by-humming application. In Proceedings of the Very Large Database Endowment (PVLDB), (4)11:761–771, August 2011.

  13. Mikko Korpela, Pekka Nöjd, Jaakko Hollmén, Harri Mäkinen, Mika Sulkava, Pertti Hari. Photosynthesis, temperature and radial growth of Scots Pine in northern Finland: identifying the influential time intervals, Trees — Structure and Function. 25(2):323–332, April, 2011. Supplement information

  14. Anu Usvasalo, Riikka Raty, Arja Harila-Saari, Pirjo Koistinen, Eeva-Riitta Savolainen, Sakari Knuutila, Erkki Elonen, Ulla M. Saarinen-Pihkala, Jaakko Hollmén. Prognostic classification of patients with acute lymphoblastic leukemia by using gene copy number profiles identified from array-based comparative genomic hybridization data. Leukemia Research, 34(11):1476–1482, November, 2010.

  15. Mikko Korpela, Harri Mäkinen, Pekka Nöjd, Jaakko Hollmén, Mika Sulkava. Automatic detection of onset and cessation of tree stem radius increase using dendrometer data. Neurocomputing. 73(10–12):2039–2046, June, 2010.

  16. Anu Usvasalo, Shinsuke Ninomiya, Riikka Räty, Jaakko Hollmén, Ulla M. Saarinen-Pihkala, Erkki Elonen, and Sakari Knuutila. Focal 9p Instability in Hematologic Neoplasias Revealed by Comparative Genomic Hybridization and Single Nucleotide Polymorphism microarray analyses. Genes, Chromosomes, and Cancer. 49(4):309–318, April, 2010.

  17. Laxman Yetukuri, Jarkko Tikka, Jaakko Hollmén, and Matej Orešič. Functional prediction of unidentified lipids using supervised classifiers. Metabolomics. 6(1):18–26, March, 2010.

  18. Michaela Wrage, Salla Ruosaari, Paul P. Eijk, Jussuf T. Kaifi, Jaakko Hollmén, Emre F. Yekebas, Jacob R. Izbicki, Ruud H. Brakenhoff, Thomas Streichert, Sabine Riethdorf, Bauke Ylstra, Klaus Pantel, and Harriet Wikman. Genomic profiles associated with early micrometastatis in lung cancer: Relevance of 4q deletion. Clinical Cancer Research, 15(5):1566–1574, 2009. [abstract], [Supplementary data]

  19. Salla Ruosaari, Tuija Hienonen-Kempas, Anne Puustinen, Virinder K. Sarhadi, Jaakko Hollmén, Sakari Knuutila, Juha Saharinen, Harriet Wikman, and Sisko Anttila. Pathways affected by asbestos exposure in normal and tumour tissue of lung cancer patients. BMC Medical Genomics, 1:55, 2008. PDF.

  20. Samuel Myllykangas, Jarkko Tikka, Tom Böhling, Sakari Knuutila and Jaakko Hollmén. Classification of human cancers based on DNA copy number amplification modeling. BMC Medical Genomics,1:15, May 2008. DOI

  21. Salla Ruosaari, Penny Nymark, Mervi Aavikko, Eeva Kettunen, Sakari Knuutila, Jaakko Hollmén, Hannu Norppa, Sisko Anttila. Aberrations of chromosome 19 in asbestos-associated lung cancer and in asbestos-induced micronuclei of bronchial epithelial cells in vitro.Carcinogenesis, 29(5):913–917, May 2008.

  22. Jarkko Tikka, Jaakko Hollmén. Sequential Input Selection Algorithm for Long-term Prediction of Time Series. Neurocomputing, 71(13–15):2604–2615, August 2008.

  23. Samuel Myllykangas, Siina Junnila, Arto Kokkola, Reija Autio, Ilari Scheinin, Tuula Kiviluoto, Marja-Liisa Karjalainen-Lindsberg, Jaakko Hollmén, Sakari Knuutila, Pauli Puolakkainen, Outi Monni. Integrated Gene Copy Number and Expression Microarray Analysis of Gastric Cancer Highlights Potential Target Genes. International Journal of Cancer, 123(4):817–825, August 2008.

  24. Rashi Gupta, Salla Ruosaari, Sangita Kulathinal, Jaakko Hollmén and Petri Auvinen. Microarray image segmentation using additional dye — An experimental study. Molecular and Cellular Probes, 21(5–6):321–328, October–December 2007.

  25. Harri Keski-Säntti, Timo Atula, Jarkko Tikka, Jaakko Hollmén, Antti A. Mäkitie, Ilmo Leivo. Predictive value of histopathologic parameters in early squamous cell carcinoma of oral tongue. Oral Oncology. 43(10):1007–1013, November, 2007.

  26. S. Luyssaert, I.A. Janssens, M. Sulkava, D. Papale, A.J. Dolman, M. Reichstein, J. Hollmén, J.G. Martin, T. Suni, T. Vesala, D. Lousteau, B.E. Law, and E.J. Moors. Photosynthesis drives anomalies in net carbon-exchange of pine forests at different latitudes. Global Change Biology, 13(10):2110–2127, October 2007.

  27. H. Wikman, S.Ruosaari, P. Nymark, V.K. Sarhadi, J. Saharinen, E. Vanhala, A. Karjalainen, J. Hollmén, S. Knuutila, S. Anttila, S. Knuutila. Gene expression and copy number profiling suggests the importance of allelic imbalance in 19p in asbestos-associated lung cancer. Oncogene, 26(32):4730–4737, July 2007.

  28. Mika Sulkava, Sebastiaan Luyssaert, Pasi Rautio, Ivan A. Janssens, Jaakko Hollmén. Modeling the effects of varying data quality on trend detection in environmental monitoring. Ecological Informatics, 2(1):167–176, June 2007.

  29. Penny Nymark, Pamela M. Lindholm, Mikko V. Korpela, Leo Lahti, Salla Ruosaari, Samuel Kaski, Jaakko Hollmén, Sisko Anttila, Vuokko L. Kinnula and Sakari Knuutila. Gene Expression Profiles in Asbestos-exposed Epithelial and Mesothelial Lung Cell Lines. BMC Genomics, 8(62), March 2007.

  30. S. Myllykangas, J. Himberg, T. Böhling, B. Nagy, J. Hollmén, and S. Knuutila. DNA copy number amplification profiling of human neoplasms . Oncogene, 25(55):7324–7332, November 2006.

  31. Penny Nymark, Harriet Wikman, Salla Ruosaari, Jaakko Hollmén, Esa Vanhala, Antti Karjalainen, Sisko Anttila, and Sakari Knuutila. Identification of specific gene copy number changes in asbestos-related lung cancer.Cancer Research, 66(11):5737–5743, June 2006.

  32. Mika Sulkava, Jarkko Tikka, and Jaakko Hollmén. Sparse regression for analyzing the development of foliar nutrient concentrations in coniferous trees. Ecological Modeling, 191(1):118–130, January 2006.

  33. Sebastiaan Luyssaert, Mika Sulkava, Hannu Raitio, and Jaakko Hollmén. Are N and S deposition altering the chemical composition of Norway spruce and Scots pine needles in Finland? Environmental Pollution, 138(1):5–17, 2005.

  34. Peddinti V. Gopalacharyulu, Erno Lindfors, Catherine Bounsaythip, Teemu Kivioja, Laxman Yetukuri, Jaakko Hollmén, and Matej Orešič. Data integration and visualization system for enabling conceptual biology. Bioinformatics, 21(Suppl.1):i177–i185, 2005.

  35. E. Kettunen, A.G. Nicholson, B. Nagy, J.K. Seppänen, T. Ollikainen, G. Ladas, V. Kinnula, M. Dusmet, S. Nordling, J. Hollmén, D. Kamel, P. Goldstraw, and S. Knuutila. L1CAM, INP10, P-cadherin, tPA and ITGB4 over-expression in malignant pleural mesotheliomas revealed by combined use of cDNA and tissue microarray. Carcinogenesis, 26(1):17–25, 2005.

  36. Harriet Wikman, Jouni K. Seppänen, Virinder K. Sarhadi, Eeva Kettunen, Kaisa Salmenkivi, Eeva Kuosma, Katri Vainio-Siukola, Bálint Nagy, Antti Karjalainen, Thanos Sioris, Jarmo Salo, Jaakko Hollmén, Sakari Knuutila, and Sisko Anttila. Caveolins as tumor markers in lung cancer detected by combined use of cDNA and tissue microarrays. Journal of Pathology, 203:584–593, 2004.

  37. Sebastiaan Luyssaert, Mika Sulkava, Hannu Raitio, and Jaakko Hollmén. Evaluation of forest nutrition based on large-scale foliar surveys: are nutrition profiles the way of the future? Journal of Environmental Monitoring, 6(2):160–167, 2004.

  38. Eeva Kettunen, Sisko Anttila, Jouni K. Seppänen, Antti Karjalainen, Henrik Edgren, Irmeli Lindström, Reijo Salovaara, Anna-Maria Nissén, Jarmo Salo, Karin Mattson, Jaakko Hollmén, Sakari Knuutila, and Harriet Wikman. Differentially expressed genes in non-small cell lung cancer (NSCLC). expression profiling of cancer-related genes in squamous cell lung cancer. Cancer Genetics and Cytogenetics, 149(2):98–106, 2004.

  39. Ying Zhu, Jaakko Hollmén, Riikka Räty, Yan Aalto, Bálint Nagy, Erkki Elonen, Juha Kere, Heikki Mannila, Kaarle Franssila, and Sakari Knuutila. Investigatory and analytical approaches to differential gene expression profiling in mantle cell lymphoma. British Journal of Haematology, 119(4):905–915, 2002.

  40. Harriet Wikman, Eeva Kettunen, Jouni K. Seppänen, Antti Karjalainen, Jaakko Hollmén, Sisko Anttila, and Sakari Knuutila. Identification of differentially expressed genes in pulmonary adenocarcinoma by using a cDNA array. Oncogene, 21(37):5804–5813, 2002. Nature Publishing Group.

  41. Tarja Niini, Kim Vettenranta, Jaakko Hollmén, Marcelo L. Larramendy, Yan Aalto, Harriet Wikman, Bálint Nagy, Jouni K. Seppänen, Anna Ferrer Salvador, Heikki Mannila, Ulla M. Saarinen-Pihkala, and Sakari Knuutila. Expression of myeloid-specific genes in childhood acute lymphoblastic leukemia — a cDNA array study. Leukemia, 16(11):2213–2221, 2002. Nature Publishing Group.

  42. Esa Alhoniemi, Jaakko Hollmén, Olli Simula, and Juha Vesanto. Process monitoring and modeling using the self-organizing map. Integrated Computer Aided Engineering, 6(1):3–14, 1999.

Articles in refereed international conferences

The most recent conference articles appear first in the list. See also journal articles or go to the top of the page.
  1. Alexandr Maslov, Mykola Pechenizkiy, Yulong Pei, Indrė Žliobaitė, Alexander Shklyaev, Tommi Kärkkäinen, and Jaakko Hollmén. BLPA - Bayesian learn-predict-adjust method for online detection of recurrent changepoints. In Proceedings of the 2017 International Joint Conference on Neural Networks (IJCNN 2017), May 2017.

  2. Olli-Pekka Rinta-Koski, Simo Särkkä, Jaakko Hollmén, and Sture Andersson. Prediction of preterm infant mortality with gaussian process classication. In 25th European Symposium on Articial Neural Networks, Computational Intelligence and Machine Learning (ESANN 2017), April 2017.

  3. Teemu Lehto, Markku Hinkka and Jaakko Hollmén. Focusing business improvements using process mining based influence analysi. In Business Process Management Forum. Volume 260 in Lecture Notes in Business Information Processing. Springer-Verlag. Pages 1—16, September 2016.

  4. Daniel Vieira and Jaakko Hollmén. Resource Frequency Prediction in Healthcare: Machine Learning Approach. In Proceedings of the 2016 IEEE 29th International Symposium on Computer-Based Medical Systems (CBMS). IEEE Press. Pages 88—93, June 2016.

  5. Prem Raj Adhikari and Jaakko Hollmén. Resolution transfer in cancer classification based on amplification patterns. In Proceedings of The 18th International Conference on Discovery Science (DS 2015). Volume 9356 of Lecture Notes in Artificial Intelligence. Springer-Verlag. October, 2015. Banff, Canada.

  6. Olli-Pekka Rinta-Koski, Jaakko Hollmén, Markus Leskinen, and Sture Andersson. Variation in oxygen saturation measurements in very low birth weight infants. In Proceedings of the 8th International Conference on PErvasive Technologies Related to Assistive Environments (PETRA 2015). June, 2015.

  7. Jesse Read, Jaakko Hollmén. A Deep Interpretation of Classifier Chains. Proceedings of the Thirteenth International Symposium on Intelligent Data Analysis (IDA 2014). Volume 8819 of Lecture Notes in Computer Science. Springer-Verlag. Pages 251—262, October/November, 2014. Leuven, Belgium.

  8. Prem Raj Adhikari, Anze Vavpetic, Jan Kralj, Nada Lavrač, Jaakko Hollmén. Explaining Mixture Models through Semantic Pattern Mining and Banded Matrix Visualization. Proceedings of the Seventeenth International Conference on Discovery Science (DS 2014). Volume 8777 of Lecture Notes in Computer Science. Springer-Verlag. Pages 1—12, October, 2014. Bled, Slovenia.

  9. Panos Sakkos, Dimitrios Kotsakos, Vana Kalogeraki, Dimitrios Gunopulos, and Jaakko Hollmén. Defining a mobile architecture for structural health monitoring. In Proceedings of the 7th International Conference on PErvasive Technologies Related to Assistive Environments (PETRA 2014). pages 64:1—64:6. ACM. June, 2014.

  10. Konsta Sirvio, Jaakko Hollmén. Multi-Step Ahead Forecasting of Road Condition Using Least Squares Support Vector Regression. Proceedings of the European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning (ESANN 2014). Pages 661—666. April 2014. Bruges, Belgium.

  11. Indrė Žliobaitė, Jaakko Hollmén. Mobile Sensing Data for Urban Mobility Analysis: A Case Study in Preprocessing. Proceedings of the Mining Urban Data Workshop at EDBT/ICDT. Pages 309—314. April 2014. Athens, Greece.

  12. Prem Raj Adhikari, Jaakko Hollmén. Mixture Models from Multiresolution 0-1 Data. In Proceedings of Sixteenth International Conference on Discovery Science (DS 2013), Volume 8140 of Lecture Notes in Artificial Intelligence. Springer-Verlag, Pages 1—16, October, 2013. Singapore.

  13. Indrė Žliobaitė, Jaakko Hollmén. Fault tolerant regression for sensor data. In Proceedings of The European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECMLPKDD 2013), Volume 8188 of Lecture Notes in Computer Science, Springer-Verlag, pages 449—464, September, 2013, Prague, Czech Republic.

  14. Daniel Vieira, Jaakko Hollmén, Jari Linden and Jorma Suni. Challenges in Predicting Community Periodontal Index from Hospital Dental Care Records. In Proceedings of The 26th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2013), pages 107—112, June 20-22, 2013, Porto, Portugal.

  15. Prem Raj Adhikari, Jaakko Hollmén. Multiresolution Mixture Modeling using Merging of Mixture Components. In Proceedings of Fourth Asian Conference on Machine Learning (ACML 2012), Volume 25 of Journal of Machine Learning Research — Proceedings Track, pages 17—32, November 4-6, 2012, Singapore.

  16. Prem Raj Adhikari, Jaakko Hollmén. Fast Progressive Training of Mixture Models for Model Selection. In Proceedings of Fifteenth International Conference on Discovery Science (DS 2012), Volume 7569 of Lecture Notes in Artificial Intelligence, Springer-Verlag, Berlin Heidelberg, pages 194—208, October 29-31, 2012, Lyon, France.

  17. Jaakko Hollmén. Mixture modeling of gait patterns from sensor data. In Proceedings of the 5th International Conference on Pervasive Technologies and Relative to Assistive Environments (PETRA 2012). pages 48:1—48:4, ACM, June 2012.

  18. Panagiotis Papapetrou, Tatiana Chistiakova, Jaakko Hollmén, Vana Kalogeraki, Dimitrios Gunopulos. Finding representative objects using link analysis ranking. In Proceedings of the 5th International Conference on Pervasive Technologies and Relative to Assistive Environments (PETRA 2012). ACM, June 2012.

  19. Alexios Kotsifakos, Panagiotis Papapetrou, Jaakko Hollmén, Dimitrios Gunopulos, Vassilis Athitsos. A Survey of Query-By-Humming Similarity Methods. In Proceedings of The 5th ACM International Conference on PErvasive Technologies Related to Assistive Environments (PETRA 2012), ACM, June 2012.

  20. Janne Toivola and Jaakko Hollmén. Collaborative filtering for coordinated monitoring in sensor networks. In Proceedings of the 2011 11th IEEE International Conference on Data Mining Workshops, pages 987—994. IEEE Computer Society, December 2011.

  21. Prem Raj Adhikari, Bimal Babu Upadhyaya, Chen Meng, and Jaakko Hollmén. Gene selection in time-series gene expression data. In Proceedings of the 6th IAPR Conference on Pattern Recognition in Bioinformatics (PRIB 2011), volume 7036 of Lecture Notes in Bioinformatics, pages 145—156, Springer-Verlag, November 2011.

  22. Serafin Alonso and Mika Sulkava and Miguel Angel Prada and Manuel Dominguez and Jaakko Hollmén. Comparative analysis of power consumption in university building using envSOM. In Advances in Intelligent Data Analysis X — Proceedings of the 10th International Symposium (IDA 2011), Volume 7014 of Lecture Notes in Computer Science. pages 10—21, Springer-Verlag, October 2011.

  23. Mark J. Brewer, Mika Sulkava, Harri Mäkinen, Mikko Korpela, Pekka Nöjd, and Jaakko Hollmén. Logistic fitting method for detecting onset and cessation of tree stem radius increase. In Proceedings of The 12th International Conference on Intelligent Data Engineering and Automated Learning (IDEAL 2011), Volume 6936 of Lecture Notes in Computer Science. pages 204—211, Springer-Verlag, September 2011.

  24. Orestis Kostakis, Panagiotis Papapetrou, and Jaakko Hollmén. ARTEMIS: Assessing the similarity of event-interval sequences. In Proceedings of The European Conference of Machine Learning and Principles and Practices of Knowledge Discovery in Databases (ECML/PKDD), Volume 6912 of Lecture Notes in Computer Science. pages 229—244, Springer-Verla,gind September 2011.

  25. Serafin Alonso, Mika Sulkava, Miguel Angel Prada, Manuel Dominguez, and Jaakko Hollmén. EnvSOM: a SOM algorithm conditioned on the environment for clustering and visualization. In Proceedings of the 8th Workshop on Self-Organizing Maps (WSOM 2011), Volume 6731 of Lecture Notes in Computer Science. pages 61—70, Springer-Verlag, June 2011.

  26. Konsta Sirvio and Jaakko Hollmén. Forecasting road condition after maintenance works with linear methods and radial basis function networks. In Proceedings of the 21th International Conference on Artificial Neural Networks (ICANN'11), Volume 6792 of Lecture Notes in Computer Science. pages 405—412, Springer-Verlag, June 2011.

  27. Orestis Kostakis, Panagiotis Papapetrou, and Jaakko Hollmén. Distance measure for querying sequences of temporal intervals. In Proceedings of the 4th International Conference on PErvasive Technologies Related to Assistive Environments (PETRA 2011), May 2011.

  28. Alexis Kotsifakos, Vassilis Athitsos, Panagiotis Papapetrou, Jaakko Hollmén, and Dimitrios Gunopulos. Model-based search in large time series databases. In Proceedings of The 4th International Conference on Pervasive Technologies Related to Assistive Environment (PETRA 2011). ACM, May 2011.

  29. Maurizio Bocca, Janne Toivola, Lasse Eriksson, Jaakko Hollmén, and Heikki Koivo. Structural health monitoring in wireless sensor networks by the embedded Goertzel algorithm. In Proceedings of the 2nd ACM/IEEE International Conference on Cyber-Physical Systems (ICCPS 2011). pages 206—214, IEEE, April 2011.

  30. Prem Raj Adhikari and Jaakko Hollmén. Preservation of Statistically Significant patterns in Multiresolution 0-1 Data. In Tjeerd Dijkstra, Evgeni Tsivtsivadze, Elena Marchiori, and Tom Heskes, editors, Proceedings of the 5th IAPR International Conference on Pattern Recgnition in Bioinformatics, Volume 6282 of Lecture Notes in Computer Science, pages 86—97, Springer-Verlag, September 2010, Nijmegen, The Netherlands.

  31. Konsta Sirvio and Jaakko Hollmén. Multi-Year Network Level Road Maintenance Programming by Genetic Algorithms and Variable Neighbourhood Search. In Proceedings of the 13th International IEEE Conference on Intelligent Transportation Systems, pages 581—586. 19-22 September 2010. Madeira Island, Portugal.

  32. Miguel Angel Prada, Jaakko Hollmén, Janne Toivola, and Jyrki Kullaa. Three-Way Analysis of Structural Health Monitoring Data. In Proceedings of 2010 IEEE International Workshop on Machine Learning for Signal Processing, pages 256—261. 29 August - 1 September, 2010. Kittilä, Finland.

  33. Prem Raj Adhikari and Jaakko Hollmén. Patterns from Multi-Resolution 0-1 Data. In Bart Goethals, Nikolaj Tatti, and Jilles Vreeken, editors, In Proceedings of the ACM SIGKDD Workshop on Useful Patterns (UP'10), pages 8—12. July 25, 2010. Washington, DC, USA.

  34. Jefrey Lijffijt, Panagiotis Papapetrou, and Jaakko Hollmén. Tracking your steps on the track: Body sensor recordings of a controlled walking experiment. In Proceedings of the 3rd International Conference on Pervasive Technologies Related to Assistive Environments (PETRA'2010), Article No 58, ACM International Conference Proceedings Series, June, 2010. Samos, Greece.

  35. Jefrey Lijffijt, Panagiotis Papapetrou, Jaakko Hollmén, and Vassilis Athitsos. Benchmarking dynamic time warping for music retrieval. In Proceedings of the 3rd International Conference on Pervasive Technologies Related to Assistive Environments (PETRA'2010), Article No 59, ACM International Conference Proceedings Series, June, 2010. Samos, Greece.

  36. Janne Toivola, Miguel A. Prada and Jaakko Hollmén. Novelty detection in projected spaces for structural health monitoring. In Paul R. Cohen, Niall M. Adams, and Michael R. Berthold, editors, Advances in Intelligent Data Analysis IX, volume 6065 of LNCS, pages 208–219. Springer-Verlag. May 2010. Tucson, Arizona, USA.

  37. Janne Toivola and Jaakko Hollmén. Feature extraction and selection from vibration measurements for structural health monitoring. In Niall M. Adams, Céline Robardet, Arno Siebes, Jean-François Boulicaut, editors, In Proceedings of the 8th International Symposium on Intelligent Data Analysis, volume 5772 of Lecture Notes in Computer Science, pages 213–224. Springer-Verlag, August/September 2009. Lyon, France.

  38. Mikko Korpela, Harri Mäkinen, Mika Sulkava, Pekka Nöjd and Jaakko Hollmén. Smoothed Prediction of the Onset of Tree Stem Radius Increase Based on Temperature Patterns. In Jean-François Boulicaut, Michael Berthold and Tamás Horváth, editors, In Proceedings of The Eleventh International Conference on Discovery Science (DS-2008), volume 5255 of Lecture Notes in Artificial Intelligence, pages 100–110. Springer-Verlag, October 2008. Budapest, Hungary.

  39. Konsta Sirvio and Jaakko Hollmén. Spatio-temporal road condition forecasting with Markov chains and artificial neural networks. In Emilio Corchado, Ajith Abraham, and Witold Pedrycz, editors, Third International Workshop in Hybrid Artificial Intelligent Systems (HAIS'08), volume 5271 of Lecture Notes in Artificial Intelligence, pages 204–211. Springer-Verlag, September 2008. Burgos,Spain.

  40. Mika Sulkava, Harri Mäkinen, Pekka Nöjd and Jaakko Hollmén. Automatic detection of onset and cessation of tree stem radius increase using dendrometer data and CUSUM charts. In Amaury Lendasse, editor, In Proceedings of the Second European Symposium on Time Series Prediction (ESTSP'08), pages 77–86, September 2008. Porvoo, Finland.

  41. Tapani Raiko, Kai Puolamäki, Juha Karhunen, Jaakko Hollmén, Antti Honkela, Samuel Kaski, Heikki Mannila, Erkki Oja and Olli Simula. Macadamia: Master's Programme in Machine Learning and Data Mining In Proceedings of Teaching Machine Learning — workshop on open problems and new directions. May 2008. St. Etienne, France.

  42. Jaakko Hollmén and Tapani Raiko. Learning mixture models — courseware for finite mixture distributions of multivariate Bernoulli distributions. In Proceedings of Teaching Machine Learning — workshop on open problems and new directions. May 2008. St. Etienne, France. The BernoulliMix software package is described on BernoulliMix home page

  43. Jarkko Tikka and Jaakko Hollmén. Selection of important input variables for RBF network using partial derivatives. In Michel Verleysen, editor, In Proceedings of the 16th European Symposium on Artificial Neural Networks (ESANN 2008), pages 167–172, April 2008. Bruges, Belgium.

  44. Päivi Merilä, John Derome, Sebastiaan Luyssaert, Mika Sulkava, Jaakko Hollmén, Kaisa Mustajärvi, and Pekka Nöjd. How are N and S in deposition, in percolation water and in the upper soil layers reflected in the chemical composition of needles in Finland? In John Derome, Antti-Jussi Lindroos, and Tuire Kilponen, editors, In Proceedings of the Scientific Seminar on Forest Condition Monitoring and Ecosystem Functioning in Northern Europe under the Forest Focus and ICP Forests programmes, volume 74 of Working papers of the Finnish Forest Research Institute, pages 39–42, 2008.

  45. Robert Gwadera, Janne Toivola and Jaakko Hollmén. Segmenting multi-attribute sequences using dynamic Bayesian networks. In Proceedings of The 1st Workshop on Data Mining of Uncertain Data (DUNE 2007), in conjunction with the 7th IEEE International Conference on Data Mining (ICDM 2007). IEEE Computer Society Press. October 2007. Omaha, Nebraska.

  46. Jaakko Hollmén. Model selection and estimation via subjective user preferences. In V. Corruble, M. Takeda, and E. Suzuki, editors, In Proceedings of The Tenth International Conference on Discovery Science (DS 2007), volume 4755 of Lecture Notes in Artificial Intelligence, pages 259–263. Springer-Verlag, October 2007. Sendai, Japan.

  47. Jaakko Hollmén and Jarkko Tikka. Compact and understandable descriptions of mixtures of bernoulli distributions. In M.R. Berthold, J. Shawe-Taylor, and N. Lavrač, editors, In Proceedings of the 7th International Symposium on Intelligent Data Analysis (IDA 2007), volume 4723 of Lecture Notes in Computer Science, pages 1–12. Springer-Verlag, September 2007. Ljubljana, Slovenia. See the live lecture at videolectures.net

  48. Mika Sulkava, Harri Mäkinen, Pekka Nöjd, and Jaakko Hollmén. CUSUM charts for detecting onset and cessation of xylem formation based on automated dendrometer data. In Ivana Horová and Jiří Hřebíček, editors, In TIES 2007 – 18th annual meeting of the International Environmetrics Society, Book of Abstracts, page 111, Mikulov, Czech Republic, August 2007. The International Environmetrics Society, Masaryk University.

  49. Jarkko Tikka, Jaakko Hollmén, and Samuel Myllykangas. Mixture modeling of DNA copy number amplification patterns in cancer. In Francisco Sandoval, Alberto Prieto, Joan Cabestany, and Manuel Graña, editors, Proceedings of the 9th International Work-Conference on Artificial Neural Networks (IWANN 2007), volume 4507 of Lecture Notes in Computer Science, pages 972–979. Springer-Verlag, June 2007. San Sebastián, Spain.

  50. Jarkko Tikka and Jaakko Hollmén. Long-term prediction of time series using a parsimonious set of inputs and LS-SVM. In A. Lendasse, editors, In Proceedings of the First European Symposium of Time Series Prediction (ESTSP'07), pages 87–96, February 2007.

  51. Antti Rasinen, Jaakko Hollmén, and Heikki Mannila. Analysis of Linux evolution using aligned source code segments. In N. Lavrač, L. Todorovski, and K.P. Jantke, editors, In Proceedings of the Ninth International Conference on Discovery Science, volume 4265 of Lecture Notes in Artificial Intelligence, pages 209–218. Springer-Verlag, 2006. Barcelona, Spain.

  52. Jarkko Tikka, Amaury Lendasse, and Jaakko Hollmén. Analysis of fast input selection: Application in time series prediction. In Stefanos Kollias, Andreas Stafylopatis, Wlodzislaw Duch, and Erkki Oja, editors, Proceedings of the 16th International Conference on Artificial Neural Networks (ICANN'06), volume 4132 of Lecture Notes in Computer Science, pages 161–170. Springer-Verlag, 2006.

  53. Mikko Korpela and Jaakko Hollmén. Extending an algorithm for clustering gene expression time series. In J. Rousu, S. Kaski, and E. Ukkonen, editors, Proceedings of the Workshop on Probabilistic Modeling and Machine Learning in Structural and Systems Biology, University of Helsinki, Department of Computer Science, Series of Publications B, Report B-2006-4, pages 120–124, June 2006.

  54. Mika Sulkava, Pasi Rautio, and Jaakko Hollmén. Combining measurement quality into monitoring trends in foliar nutrient concentrations. In Proceedings of the International Conference on Artificial Neural Networks (ICANN'05), volume 3697 of Lecture Notes in Computer Science, pages 761–767. Springer-Verlag, 2005.

  55. Catherine Bounsaythip, Erno Lindfors, Peddinti V. Gopalacharyulu, Jaakko Hollmén, and Matej Orešič. Network-based representation of biological data for enabling context-based mining. In Proceedings of KRBIO'05, International Symposium of the Knowledge Representation in Bioinformatics, pages 1–6, June 2005. Espoo, Finland

  56. Jarkko Tikka, Jaakko Hollmén and Amary Lendasse. Input Selection for Long-Term Prediction of Time Series In Proceedings of the 8th International Work Conference of Artificial Neural Networks (IWANN'2005), volume 3512 of Lecture Notes in Computer Science, pages 1002–1009. Springer-Verlag, June 2005. Barcelona, Spain.

  57. Jarkko Tikka and Jaakko Hollmén. Learning linear dependency trees from multivariate time-series data In Proceedings of the Workshop on Temporal Data Mining: Algorithms, Theory and Applications (in conjunction with The Fourth IEEE International Conference on Data Mining), Brighton, UK, November 2004.

  58. Mika Sulkava, Jarkko Tikka, and Jaakko Hollmén. Sparse regression for analyzing the development of foliar nutrient concentrations in coniferous trees. In Sašo Džeroski, Bernard ženko, and Marko Debeljak, editors, Proceedings of the Fourth International Workshop on Environmental Applications of Machine Learning (EAML 2004), pages 57–58, Bled, Slovenia, 2004.

  59. Juha Vesanto, Mika Sulkava, and Jaakko Hollmén. On the decomposition of the self-organizing map distortion measure. In Proceedings of the Workshop on Self-Organizing Maps (WSOM'03), pages 11–16, Hibikino, Kitakyushu, Japan, September 2003.

  60. Mika Sulkava and Jaakko Hollmén. Finding profiles of forest nutrition by clustering of the self-organizing map. In Proceedings of the Workshop on Self-Organizing Maps (WSOM'03), pages 243–248, Hibikino, Kitakyushu, Japan, September 2003.

  61. Jaakko Hollmén, Jouni K. Seppänen, and Heikki Mannila. Mixture models and frequent sets: combining global and local methods for 0-1 data. In Daniel Barbará and Chandrika Kamath, editors, Proceedings of the Third SIAM International Conference on Data Mining, pages 289–293. Society of Industrial and Applied Mathematics, 2003. [Link to pdf]

  62. Artur Bykowski, Jouni K. Seppänen, and Jaakko Hollmén. Model-independent bounding of the supports of Boolean formulae in binary data. In Rosa Meo, Pier Luca Lanzi, and Mika Klemettinen, editors, Database Support for Data Mining Applications: Discovering Knowledge with Inductive Queries, volume 2682 of Lecture Notes in Computer Science, pages 234–249. Springer-Verlag, 2004. as PDF

  63. Salla Ruosaari and Jaakko Hollmén. Image analysis for detecting faulty spots from microarray images. In Steffen Lange, Ken Satoh, and Carl H. Smith, editors, Proceedings of the 5th International Conference on Discovery Science (DS 2002), volume 2534 of Lecture Notes in Computer Science, pages 259–266. Springer-Verlag, 2002.

  64. Artur Bykowski, Jouni K. Seppänen, and Jaakko Hollmén. Model-independent bounding of the supports of Boolean formulae in binary data. In Mika Klemettinen, Rosa Meo, Fosca Giannotti, and Luc De Raedt, editors, Knowledge Discovery in Inductive Databases (KDID'02), First International Workshop, University of Helsinki Department of Computer Science Series of Publications B, Report B-2002-7, pages 20–31, 2002.

  65. Juha Vesanto and Jaakko Hollmén. An automated report generation tool for the data understanding phase. In Ajith Abraham, Lakhmi Jain, and Berend J. van der Zwaag, editors, Innovations in Intelligent Systems: Design, Management and Applications, volume 140 of Studies in Fuzziness and Soft Computing, chapter 5. pp. 203–219, 2010. Springer. Springer (Physica) Verlag, 2004.

  66. Ignacio Díaz and Jaakko Hollmén. Residuals generation and visualization for understanding novel process conditions. In Proceedings of the IEEE 2002 International Joint Conference on Neural Networks (IJCNN'02), volume 3, pages 2070–2075. IEEE Press, May 2002.

  67. Juha Vesanto and Jaakko Hollmén. An automated report generation tool for the data understanding phase. In Ajith Abraham and Mario Koeppen, editors, Hybrid Information Systems, pages 611–625. Physica-Verlag (Springer), Heidelberg, 2002. Proceedings of the First International Workshop on Hybrid Intelligent Systems (HIS'01).

  68. Olli Simula, Jaakko Hollmén, and Esa Alhoniemi. Models from data: analysis of industrial processes and telecommunication systems. In Proceedings of the National Conference on Industrial Automation, Ancona, Italy, pages 13–19, November 2001.

  69. Michał Skubacz and Jaakko Hollmén. Quantization of continuous input variables for binary classification. In Kwong Sak Leung, Lai-Wan Chan, and Helen Meng, editors, Proceedings of the Second International Conference on Intelligent Data Engineering and Automated Learning (IDEAL'2000), Lecture Notes in Computer Science, No. 1983, pages 42–47. Springer-Verlag, December 2000.

  70. Jaakko Hollmén and Volker Tresp. Hidden Markov model for metric and event-based data. In Proceedings of EUSIPCO 2000 — X European Signal Processing Conference, volume II, pages 737–740, 2000.

  71. Jaakko Hollmén, Volker Tresp, and Olli Simula. Learning vector quantization algorithm for probabilistic models. In Proceedings of EUSIPCO 2000 — X European Signal Processing Conference, volume II, pages 721–724, 2000.

  72. Jaakko Hollmén, Michał Skubacz, and Michiaki Taniguchi. Input-dependent misclassification costs for cost-sensitive classification. In N. Ebecken and C.A. Brebbia, editors, DATA MINING II — Proceedings of the Second International Conference on Data Mining 2000, pages 495–503. WIT Press, 2000.

  73. Jaakko Hollmén, Volker Tresp, and Olli Simula. A self-organizing map algorithm for clustering probabilistic models. In Proceedings of the Ninth International Conference on Artificial Neural Networks (ICANN'99), volume 2, pages 946–951. IEE, 1999.

  74. Jaakko Hollmén and Volker Tresp. Call-based fraud detection in mobile communications networks using a hierarchical regime-switching model. In M. Kearns, S. Solla, and D.A. Cohn, editors, Advances in Neural Information Processing Systems 11: Proceedings of the 1998 Conference (NIPS'11), pages 889–895. MIT Press, 1999.

  75. Olli Simula, Juha Vesanto, Esa Alhoniemi, and Jaakko Hollmén. Neuro-Fuzzy Techniques for Intelligent Information Systems, chapter Analysis and Modeling of Complex Systems Using the Self-Organizing Map , pages 3–22. Physica Verlag (Springer-Verlag), 1999. [Also as Postscript document]

  76. Michiaki Taniguchi, Michael Haft, Jaakko Hollmén, and Volker Tresp. Fraud detection in communications networks using neural and probabilistic methods. In Proceedings of the 1998 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP'98), volume II, pages 1241–1244, 1998.

  77. Olli Simula, Esa Alhoniemi, Jaakko Hollmén, and Juha Vesanto. Analysis of complex systems using the self-organizing map. In Proceedings of the 1997 International Conference on Neural Information Processing and Intelligent Information Systems (ICONIP'97), volume 2, pages 1313–1317. Springer, 1997. [Also as Postscript document]

  78. O. Simula, E. Alhoniemi, J. Hollmén, and J. Vesanto. Monitoring and modeling of complex processes using hierarchical self-organizing maps. In Proceedings of the 1996 IEEE International Symposium on Circuits and Systems (ISCAS-96), volume Supplement to vol. 4, pages 73–76, 1996. As Postscript document

  79. Jaakko Hollmén and Olli Simula. Prediction models and sensitivity analysis of industrial process parameters by using the self-organizing map. In 1996 IEEE Nordic Signal Processing Symposium Proceedings (NORSIG'96), Espoo, Finland, pages 79–82, 1996.

Theses

  1. Jaakko Hollmén. Process Modeling Using the Self-Organizing Map. Master's thesis, Helsinki University of Technology, 1996.

  2. Jaakko Hollmén. Probabilistic Approaches to Fraud Detection. Licentiate's Thesis, Helsinki University of Technology, 1999.

  3. Jaakko Hollmén. User Profiling and Classification for Fraud Detection in Mobile Communications Networks. Doctoral thesis, Helsinki University of Technology, 2000. The thesis was awarded by the Research Foundation of Information Processing.

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