Tampere University of Technology

TUTCRIS Research Portal

Department of Signal Processing

Research unit: Department

  1. A1 Journal article-refereed
  2. Published

    MED29, a component of the mediator complex, possesses both oncogenic and tumor suppressive characteristics in pancreatic cancer

    Kuuselo, R., Savinainen, K., Sandström, S., Autio, R. & Kallioniemi, A., 2011, In : International Journal of Cancer. 129, 11, p. 2553-2565

    Research output: Contribution to journalArticleScientificpeer-review

  3. Published

    A Linear Model for Transcription Factor Binding Affinity Prediction in Protein Binding Microarrays

    Annala, M., Laurila, K., Lähdesmäki, H. & Nykter, M., 2011, In : PLoS ONE. 6, 5, p. 1-13 13 p., e20059.

    Research output: Contribution to journalArticleScientificpeer-review

  4. Published

    Stochastic approximation driven particle swarm optimization with simultaneous perturbation - Who will guide the guide?

    Kiranyaz, S., Ince, T. & Gabbouj, M., 2011, In : Applied Soft Computing. 11, 2, p. 2334-2347

    Research output: Contribution to journalArticleScientificpeer-review

  5. Published

    Personalized long-term ECG classification: A systematic approach

    Kiranyaz, S., Ince, T., Pulkkinen, J. & Gabbouj, M., 2011, In : Expert Systems with Applications. 38, 4, p. 3220-3226

    Research output: Contribution to journalArticleScientificpeer-review

  6. Published

    Musical Instrument Sound Multi-Excitation Model for Non-negative Spectrogram Factorization

    Carabias-Orti, J. J., Virtanen, T., Vera-Candeas, P., Ruiz-Reyes, N. & Canadas-Quesada, F. J., 2011, In : IEEE Journal of Selected Topics in Signal Processing. 5, 6, p. 1144-1158

    Research output: Contribution to journalArticleScientificpeer-review

  7. Published

    Wave Field Reconstruction From Multiple Plane Intensity-Only Data: Augmented Lagrangian Algorithm

    Migukin, A., Katkovnik, V. & Astola, J., 2011, In : Journal of the Optical Society of America A: Optics Image Science and Vision. 28, 6, p. 993-1001

    Research output: Contribution to journalArticleScientificpeer-review

  8. Published

    Point Pattern Matching for 2-D Point Sets with Regular Structure

    Manninen, T., Rönkkä, R. & Huttunen, H., 2011, In : Lecture Notes in Computer Science. 6688, p. 156-165

    Research output: Contribution to journalArticleScientificpeer-review

  9. Published

    Modeling Signal Transduction Leading to Synaptic Plasticity: Evaluation and Comparison of Five Models

    Manninen, T., Hituri, K., Toivari, E. & Linne, M-L., 2011, In : Eurasip Journal on Bioinformatics and Systems Biology. 2011, p. 1-11 11 p., 797250.

    Research output: Contribution to journalArticleScientificpeer-review

  10. Published

    CORDIC instructions for LDPC decoding on SDR platforms

    Senthilvelan, M., Yu, M., Iancu, D., Sima, M. & Schulte, M., 2011, In : Analog Integrated Circuits and Signal Processing. 69, 2-3, p. 191-206

    Research output: Contribution to journalArticleScientificpeer-review

  11. Published

    Effects of Transmitters and Amyloid-Beta Peptide on Calcium Signals in Rat Cortical Astrocytes: Fura-2AM Measurements and Stochastic Model Simulations

    Toivari, E., Manninen, T., Nahata, A. K., Jalonen, T. O. & Linne, M-L., 2011, In : PLoS ONE. 6, 3, p. 1-9 9 p., e17914.

    Research output: Contribution to journalArticleScientificpeer-review

  12. Published

    Complexity analysis of adaptive binary arithmetic coding software implementations

    Belyaev, E., Veselov, A., Turlikov, A. & Liu, K., 2011, In : Lecture Notes in Computer Science. 6869, p. 598-607

    Research output: Contribution to journalArticleScientificpeer-review

  13. Published

    Teleconsultation: Changes in technology and costs over a 12-year period

    Lamminen, J., Forsvik, H. J., Voipio, V. & Ruohonen, K., 2011, In : Journal of Telemedicine and Telecare. 17, 8, p. 412-416

    Research output: Contribution to journalArticleScientificpeer-review

  14. Published

    Multi-dimensional particle swarm optimization in dynamic environments

    Kiranyaz, S., Pulkkinen, J. & Gabbouj, M., 2011, In : Expert Systems with Applications. 38, 3, p. 2212-2223

    Research output: Contribution to journalArticleScientificpeer-review

  15. Published

    Integrative genomic characterization and a genomic staging system for gastrointestinal stromal tumors

    Ylipää, A., Hunt, K. K., Yang, J., Lazar, A. J. F., Torres, K. E., Lev, D. C., Nykter, M., Pollock, R. E., Trent, J. & Zhang, W., 2011, In : Cancer. 117, 2, p. 380-389

    Research output: Contribution to journalArticleScientificpeer-review

  16. Published

    Learning of paw preference in mice is strain dependent, gradual and based on short-term memory of previous reaches

    Ribeiro, A. S., Eales, B. A. & Biddle, F. G., 2011, In : ANIMAL BEHAVIOUR. 81, 1, p. 249-257

    Research output: Contribution to journalArticleScientificpeer-review

  17. Published

    Required levels of catalysis for emergence of autocatalytic sets in models of chemical reaction systems

    Hordijk, W., Kauffman, S. A. & Steel, M., 2011, In : International Journal of Molecular Sciences. 12, 5, p. 3085-3101

    Research output: Contribution to journalArticleScientificpeer-review

  18. Published

    Dynamic Queries with Relevance Feedback for Content Based Image Retrieval

    Birinci, M., Guldogan, E. & Gabbouj, M., 2011, In : Lecture Notes in Computer Science. 6761, p. 547-554

    Research output: Contribution to journalArticleScientificpeer-review

  19. Published

    Prediction and Transmission Optimization of Video Guaranteeing a Bounded Zapping-Delay in DVB-H

    Vadakital, V. K. M. & Gabbouj, M., 2011, In : IEEE Transactions on Broadcasting. 57, 2, p. 231-245

    Research output: Contribution to journalArticleScientificpeer-review

  20. Published

    Uniform Motion Blur in Poissonian Noise: Blur/Noise Tradeoff

    Boracchi, G. & Foi, A., 2011, In : IEEE Transactions on Image Processing. 20, 2, p. 592-598

    Research output: Contribution to journalArticleScientificpeer-review

  21. Published

    Cell-to-cell diversity in protein levels of a gene driven by a tetracycline inducible promoter

    Smolander, O-P., Kandhavelu, M., Mannerström, H., Lihavainen, E., Kalaichelvan, S., Healy, S., Yli-Harja, O., Karp, M. & Ribeiro, A. S., 2011, In : BMC Molecular Biology. 12, p. 1-27 27 p., 21.

    Research output: Contribution to journalArticleScientificpeer-review

  22. Published

    Stochastic sequence-level model of coupled transcription and translation in prokaryotes

    Mäkelä, J., Lloyd-Price, J., Yli-Harja, O. & Ribeiro, A. S., 2011, In : BMC Bioinformatics. 12, p. 1-33 33 p., 121.

    Research output: Contribution to journalArticleScientificpeer-review

  23. Published

    Circulating Plasma MiR-141 Is a Novel Biomarker for Metastatic Colon Cancer and Predicts Poor Prognosis

    Cheng, H., Zhang, L., Cogdell, D. E., Zheng, H., Schetter, A. J., Nykter, M., Harris, C. C., Chen, K., Hamilton, S. R. & Zhang, W., 2011, In : PLoS ONE. 6, 3, p. 1-8 8 p., e17745.

    Research output: Contribution to journalArticleScientificpeer-review

  24. Published

    Copy number variation and selection during reprogramming to pluripotency

    Hussein, S. M., Batada, N. N., Vuoristo, S., Ching, R. W., Autio, R., Narva, E., Ng, S., Sourour, M., Hämäläinen, R., Olsson, C., Lundin, K., Mikkola, M., Trokovic, R., Peitz, M., Bruestle, O., Bazett-Jones, D. P., Alitalo, K., Lahesmaa, R., Nagy, A. & Otonkoski, T., 2011, In : Nature. 471, 7336, p. 58-62

    Research output: Contribution to journalArticleScientificpeer-review

  25. Published

    A Beta-mixture model for dimensionality reduction, sample classification and analysis

    Laurila, K., Osre, B., Andersen, C. L., Lamy, P., Orntoft, T., Yli-Harja, O. & Wiuf, C., 2011, In : BMC Bioinformatics. 12, p. 1-6 6 p., 215.

    Research output: Contribution to journalArticleScientificpeer-review

  26. Published

    In Vivo Kinetics of Transcription initiation of the Lar Promoter in Escherichia coli. Evidence for a Sequential Mechanism with Two Rate-Limiting Steps

    Kandhavelu, M., Mannerström, H., Gupta, A., Häkkinen, A., Lloyd-Price, J., Yli-Harja, O. & Ribeiro, A. S., 2011, In : BMC Systems Biology. 5, p. 1-9 9 p., 149.

    Research output: Contribution to journalArticleScientificpeer-review

  27. Published

    Improved triacylglycerol production in Acinetobacter baylyi ADP1 by metabolic engineering

    Santala, S., Efimova, E., Kivinen, V., Larjo, A., Aho, T., Karp, M. & Santala, V., 2011, In : Microbial Cell Factories. 10, 36, p. 1-10 10 p.

    Research output: Contribution to journalArticleScientificpeer-review

  28. Published

    Probing Stochastic Phenotype Switching as a Survival Strategy in Fluctuating Environments

    Ribeiro, A. S. & Häkkinen, A., 2011, In : International Journal of Computational Intelligence in Control. 3, 1, p. 9-15

    Research output: Contribution to journalArticleScientificpeer-review

  29. Published

    Recursive FIR filter structures on FPGA

    Lehto, R., Tauren, T. & Vainio, O., 2011, In : Microprocessors and Microsystems. 35, 7, p. 595-602

    Research output: Contribution to journalArticleScientificpeer-review

  30. Published

    Three-Dimensional Media for Mobile Devices

    Gotchev, A., Akar, G. B., Capin, T., Strohmeier, D. & Boev, A., 2011, In : Proceedings of the IEEE. 99, 4, p. 708-741

    Research output: Contribution to journalArticleScientificpeer-review

  31. Published

    Cancer Systems Biology: Signal Processing for Cancer Research

    Yli-Harja, O., Ylipää, A., Nykter, M. & Zhang, W., 2011, In : Chinese Journal of Cancer. 30, 4, p. 221-225

    Research output: Contribution to journalArticleScientificpeer-review

  32. Published

    An Efficient Algorithm for the optimization of FIR Filters Synthesized Using the Multistage Frequency-Response Masking Approach

    Yli-Kaakinen, J. & Saramäki, T., 2011, In : Circuits, Systems and Signal Processing. 30, 1, p. 157-183

    Research output: Contribution to journalArticleScientificpeer-review

  33. Published

    Implementation of Linear-Phase FIR Filters for a Rational Sampling-Rate Conversion Utilizing the Coefficient Symmetry

    Bregovic, R., Yu, Y. J., Saramäki, T. & Lim, Y. C., 2011, In : IEEE Transactions on Circuits and Systems. Part 1: Regular Papers. 58, 3, p. 548-561

    Research output: Contribution to journalArticleScientificpeer-review

  34. Published

    A systems biological approach to identify key transcription factors and their genomic neighborhoods in human sarcomas

    Ylipää, A., Yli-Harja, O., Zhang, W. & Nykter, M., 2011, In : Chinese Journal of Cancer. 30, 1, p. 27-40

    Research output: Contribution to journalArticleScientificpeer-review

  35. Published

    Computational study of noise in a large signal transduction network

    Intosalmi, J., Manninen, T., Ruohonen, K. & Linne, M-L., 2011, In : BMC Bioinformatics. 12, p. 1-8 8 p., 252.

    Research output: Contribution to journalArticleScientificpeer-review

  36. Published

    Methodology for design of Antialiasing Filters for Autostereoscopic Displays

    Boev, A., Bregovic, R. & Gotchev, A., 2011, In : IET Signal Processing. 5, 3, p. 333-343

    Research output: Contribution to journalArticleScientificpeer-review

  37. Published

    Self-Similarity Measure for Assessment of Image Visual Quality

    Ponomarenko, N., Jin, L., Lukin, V. & Egiazarian, K., 2011, In : Lecture Notes in Computer Science. 6915, p. 459-470

    Research output: Contribution to journalArticleScientificpeer-review

  38. Published

    Lysophosphatidic acid and sphingosine-1-phosphate promote morphogenesis and block invasion of prostate cancer cells in three-dimensional organotypic models

    Härmä, V., Knuuttila, M., Virtanen, J., Mirtti, T., Kohonen, P., Kovanen, P., Happonen, A., Kaewphan, S., Ahonen, I., Kallioniemi, O., Grafström, R., Lötjönen, J. & Nees, M., 2011, In : Oncogene. 31, p. 2075-2089

    Research output: Contribution to journalArticleScientificpeer-review

  39. Published

    Dynamics of genetic toggle switch at the nucleotide and codon levels

    Potapov, I., Lloyd-Price, J., Yli-Harja, O. & Ribeiro, A. S., 2011, In : Physical Review E. 84, 3, p. 1-9 9 p., 031903.

    Research output: Contribution to journalArticleScientificpeer-review

  40. Published

    Modeling of Neuronal Growth In Vitro: Comparison of Simulation Tools NETMORPH and CX3D

    Acimovic, J., Mäki-Marttunen, T., Havela, R., Teppola, H. & Linne, M-L., 2011, In : Eurasip Journal on Bioinformatics and Systems Biology. 2011, p. 1-13 13 p., 616382.

    Research output: Contribution to journalArticleScientificpeer-review

  41. Published

    Systems analysis identifies an essential role for SHANK-associated RH domain-interacting protein (SHARPIN) in macrophage Toll-like receptor 2 (TLR2) responses

    Zak, D. E., Schmitz, F., Gold, E. S., Diercks, A. H., Peschon, J. J., Valvo, J. S., Niemistö, A., Podolsky, I., Fallen, S. G., Suen, R., Stolyar, T., Johnson, C. D., Kennedy, K. A., Hamilton, M. K., Siggs, O. M., Beutler, B. & Aderem, A., 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 28, p. 11536-11541

    Research output: Contribution to journalArticleScientificpeer-review

  42. Published

    Automatic detection of changes in the dynamics of delayed stochastic gene networks and in vivo production of RNA molecules in Escherichia coli

    Mäkelä, J., Huttunen, H., Kandhavelu, M., Yli-Harja, O. & Ribeiro, A. S., 2011, In : Bioinformatics. 27, 19, p. 2714-2720

    Research output: Contribution to journalArticleScientificpeer-review

  43. Published

    Genomic and molecular characterization of malignant peripheral nerve sheath tumor identifies the IGF1R pathway as a primary target for treatment

    Yang, J., Ylipää, A., Sun, Y., Zheng, H., Chen, K., Nykter, M., Trent, J., Ratner, N., Lev, D. C. & Zhang, W., 2011, In : Clinical Cancer Research. 17, 24, p. 7563-7573

    Research output: Contribution to journalArticleScientificpeer-review

  44. Published

    Diversity of temporal correlations between genes in models of noisy and noiseless gene networks

    Ribeiro, A. S., Lloyd-Price, J., Chowdhury, S. & Yli-Harja, O., 2011, In : Biosystems. 104, 2-3, p. 136-144

    Research output: Contribution to journalArticleScientificpeer-review

  45. Published

    Analysis of a multi-wavelength multi-camera phase-shifting profilometric system for real-time operation

    Stoykova, E., Gotchev, A. & Sainov, V., 2011, In : Optics Communications. 284, 1, p. 88-97

    Research output: Contribution to journalArticleScientificpeer-review

  46. Published

    An Algorithm for the Stochastic Simulation of Gene Expression and Heterogeneous Population Dynamics

    Charlebois, D. A., Intosalmi, J., Fraser, D. & Kaern, M., 2011, In : Communications in Computational Physics. 9, 1, p. 89-112 24 p.

    Research output: Contribution to journalArticleScientificpeer-review

  47. Published

    The miR-15a-miR-16-1 locus is homozygously deleted in a subset of prostate cancers

    Porkka, K. P., Oggm, E-L., Saramäki, O. R., Vessella, R. L., Pukkila, H., Lähdesmäki, H., van Weerden, W. M., Wolf, M., Kallioniemi, O. P., Jenster, G. & Visakorpi, T., 2011, In : Genes Chromosomes and Cancer. 50, 7, p. 499-509

    Research output: Contribution to journalArticleScientificpeer-review

  48. Published

    Optimal Inversion of the Anscombe Transformation in Low-Count Poisson Image Denoising

    Mäkitalo, M. & Foi, A., 2011, In : IEEE Transactions on Image Processing. 20, 1, p. 99-109 11 p.

    Research output: Contribution to journalArticleScientificpeer-review

  49. Published

    3DTV Broadcasting and Distribution Systems

    Hur, N., Lee, H., Lee, G. S., Lee, S. J., Gotchev, A. & Park, S-I., 2011, In : IEEE Transactions on Broadcasting. 57, 2, p. 395-407

    Research output: Contribution to journalArticleScientificpeer-review

  50. Published

    Optimal estimation

    Rissanen, J., 2011, In : Lecture Notes in Computer Science. 6925, p. 37-37

    Research output: Contribution to journalArticleScientificpeer-review

  51. Published

    Performance on the AX-PET Demonstrator

    Beltrame, P., Bolle, E., Braem, A., Casella, C., Chesi, E., Clinthorne, N., De Leo, R., Dissetori, G., Djambazov, L., Fanti, V., Joram, C., Kagan, H., Lustermann, W., Meddi, F., Nappi, E., Nessi-Tedaldi, F., Oliver, J. F., Pauss, T., Rafecas, M., Renker, D., Rudge, A., Ruotsalainen, U., Schinzel, D., Schneider, T., Seguinot, J., Solevi, P., Stapnes, S., Tuna, U. & Weilhammer, P., 2011, In : Nuclear Physics B. 215, 1, p. 34-36

    Research output: Contribution to journalArticleScientificpeer-review

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