Pekka Ruusuvuori

Research positions (current/recent)

Research interests

The research topics and interests include:

Doctoral thesis "Methods for Image Analysis, Object Classification and Validation in Biomedical Microscopy Applications" was examined 05.01.2010. Masters thesis "Tumor Classification using Support Vector Machines", was accepted 06.04.2005.


Recent publications:
  1. M. Valkonen*, P. Ruusuvuori*, K. Kartasalo, M. Nykter, T. Visakorpi, L. Latonen.

    Analysis of spatial heterogeneity in normal epithelium and preneoplastic alterations in mouse prostate tumor models

    Scientific Reports, 7, 44831; doi: 10.1038/srep44831 (2017).

  2. V. Ulman, D. Svoboda, M. Nykter, M. Kozubek & P. Ruusuvuori.

    Virtual cell imaging: A review on simulation methods employed in image cytometry.

    Cytometry Part A, 2016.

  3. M. Huttunen, P. Turkki, A. Maki, L. Paavolainen, P. Ruusuvuori, & V. Marjomaki

    Echovirus 1 internalization negatively regulates epidermal growth factor receptor downregulation

    Cellular Microbiology, 2016.

  4. K. Kartasalo, L. Latonen, T. Visakorpi, M. Nykter, P. Ruusuvuori.

    Benchmarking of algorithms for 3D tissue reconstruction.

    In Proc. of the IEEE International Conference on Image Processing (ICIP), 2016.

  5. K. Liimatainen, P. Ruusuvuori, L. Latonen, H. Huttunen.

    Supervised method for cell counting from bright field focus stacks.

    In Proc. of the IEEE International Symposium of Biomedical Imaging (ISBI), 2016.

  6. S. Sakira Hassan, P. Ruusuvuori, L. Latonen, H. Huttunen.

    Flow cytometry-based classification in cancer research: A view on feature selection.

    Cancer Inform. Suppl. 5 75-85, 2016.

  7. P. Ruusuvuori, M. Valkonen, M. Nykter, T. Visakorpi, L. Latonen.

    Feature-based analysis of mouse prostatic intraepithelial neoplasia in histological tissue sections.

    J Pathol Inform. 2016; 7: 5.

  8. T. Kumpum?i, P. Ruusuvuori, V. Kangasniemi, T. Lipping.

    Data driven approach to benthic cover type mapping using Bathymetric LiDAR waveform analysis.

    Remote Sensing, 7 (10), 13390-13409, 2015.

  9. T. Tikkanen, P. Ruusuvuori, L. Latonen, H. Huttunen.

    Training based cell detection from bright-field microscope images.

    9th International Symposium on Image and Signal Processing and Analysis (ISPA 2015), Zagreb, Croatia, Sept. 2015.

  10. K. Liimatainen, R. Heikkil? O. Yli-Harja, H. Huttunen, P. Ruusuvuori.

    Sparse logistic regression and polynomial modeling for detection of artificial drainage networks

    Remote Sensing Letters, 6(4), 2015.

  11. M. Annala, K. Kivinummi, J. Tuominen, S. Karakurt, K. Granberg, L. Latonen, A. Ylip?, L. Sj?lom, P. Ruusuvuori, O. Saram?i, KM. Kaukoniemi, O. Yli-Harja, RL. Vessella, TLJ. Tammela, W. Zhang, T. Visakorpi and M. Nykter

    Recurrent SKIL-activating rearrangements in ETS-negative prostate cancer

    Oncotarget, 5, 2015.

  12. C. Garmendia-Torres, A. Skupin, SA. Michael, P. Ruusuvuori, NJ. Kuwada, D. Falconnet, GA. Cary, C. Hansen, PA. Wiggins, AM. Dudley

    Unidirectional P-body transport during the yeast cell cycle.

    PLoS ONE 9(6): e99428. doi:10.1371/journal.pone.0099428, 2014.

  13. P. Ruusuvuori, L. Paavolainen, K. Rutanen, A. M?i, H. Huttunen, V. Marjom?i.

    Quantitative analysis of dynamic association in live biological fluorescent samples.

    PLoS One, 9(4): e94245. doi:10.1371/journal.pone.0094245, 2014.

  14. P. Ruusuvuori, J. Lin, A.C. Scott, Z. Tan, S. Sorsa, A. Kallio, M. Nykter, O. Yli-Harja, I. Shmulevich, A.M. Dudley.

    Quantitative analysis of colony morphology in yeast.

    BioTechniques, Vol. 56, No. 1, January 2014, pp. 18-27.

  15. F. Briggs et al.

    The 9th annual MLSP competition: New methods for acoustic classification of multiple simultaneous bird species in a noisy environment.

    IEEE MLSP, Southampton, UK, Sept. 2013.

  16. T. Manninen, H. Huttunen, P. Ruusuvuori, M. Nykter,

    Leukemia Prediction Using Sparse Logistic Regression.

    PLoS One. 2013; 8(8): e72932.

  17. M. Farhan, P. Ruusuvuori. M. Emmenlauer, P. R?? C. Dehio, O. Yli-Harja,

    Multi-scale Gaussian representation and outline-learning based cell image segmentation.

    BMC Bioinformatics, 14:S6, 2013.

  18. N. Aghaeepour, G. Finak, The FlowCAP Consortium, The DREAM Consortium*, H. Hoos, T. Mosmann, R. Brinkman, R. Gottardo and R. Scheuermann,

    Critical assessment of automated flow cytometry data analysis techniques,

    Nature Methods 10, 228-238 (2013).

  19. M. Farhan, P. Ruusuvuori, M. Emmenlauer, P. R?? O. Yli-Harja, C. Dehio,

    Graph-cut and image intensity-based splitting improves nuclei segmentation in high-content screening.

    Proc. SPIE 8655, February 2013.

  20. H. Huttunen, T. Erkkil? P. Ruusuvuori, T. Manninen,

    The Eight Annual MLSP Competition: Second Place Team,

    2012 IEEE International Workshop on Machine Learning for Signal Processing (MLSP), Santander, Spain, 23-26 Sept. 2012.

  21. J-R. Sarkanen, P. Ruusuvuori, H. Kuokkanen, T. Paavonen and T. Ylikomi,

    Bioactive acellular implant induces angiogenesis and adipogenesis and permanent soft tissue restoration in vivo,

    Tissue Engineering Part A, December 2012, 18(23-24): 2568-2580.

  22. P. Ruusuvuori, T. Manninen, and H. Huttunen,

    Image Segmentation Using Sparse Logistic Regression with Spatial Prior,

    in Proceedings of the 20th European Signal Processing Conference EUSIPCO 2012, Bucharest, Romania, 27-31 Aug. 2012, pp. 2253 - 2257.

  23. H. Huttunen, H. Oinonen, J. Selinummi, P. Ruusuvuori, V. Voipio,

    Polynomial Pulp Fiber Modeling,

    in Proceedings of the 20th European Signal Processing Conference EUSIPCO 2012, Bucharest, Romania, 27-31 Aug. 2012, pp. 2099 - 2103.

  24. L. Paavolainen, P. Kankaanp?, P. Ruusuvuori, G. McNerney, M. Karjalainen, V. Marjom?i,

    Application Independent Greedy Particle Tracking Method for 3D Fluorencence Microscopy Image Series,

    2012 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Barcelona, Spain, 2-5 May 2012, pp. 672 - 675.

  25. N. Hayrapetyan, P. Ruusuvuori, I. Shmulevich, N. Blake, A. Ozinsky, N. Flann,

    Correcting Cell Tracking Errors Using Adaptive Re-segmentation and Coupled Flow,

    2011 8th International Workshop on Computational Systems Biology, Z?ich, Switzerland

  26. A. Ozinsky, J. Selinummi, I Shmulevich, P. Ruusuvuori,

    Automated Analysis of Images Using Bright Field Microscopy,

    US Pat. App 13079776 - Filed 4 Apr 2011

An incomplete publication list can be found by searching from the university library database.


Courses in 2014-2015:

Contact information
Tampere University of Technology
P.O. Box 300
28101, Pori FINLAND