Scientific publications

Tuominen VJ. Virtual Microscopy: Design and Implementation of Novel Software Applications for Diagnostic Pathology. PhD Thesis. Acta Universitatis Tamperensis 1720; Acta Electronica Universitatis Tamperensis 1190. 2012. Available at:

Tuominen VJ, Tolonen TT, Isola J. ImmunoMembrane: a publicly available web application for digital image analysis of HER-2 immunohistochemistry. Histopathology. 2012 Apr;60(5):758-67.

Lehmusvaara S, Erkkilä T, Urbanucci A, Waltering K, Seppälä J, Larjo A, Tuominen VJ, Isola J, Kujala P, Lähdesmäki H, Kaipia A, Tammela TL, Visakorpi T. Chemical Castration and Antiandrogens Induce Differential Gene Expression in Prostate Cancer. J Pathol. 2012. In press.

Tolonen TT, Kujala PM, Tammela TLj, Tuominen VJ, Isola JJ, Visakorpi T. Overall and worst gleason scores are equally good predictors of prostate cancer progression. BMC Urol. 2011;6;11:21.

Kallio H, Tolvanen M, Jänis J, Pan P-w, Laurila E, Kallioniemi A, Kilpinen S, Tuominen VJ, Isola J, Valjakka J, Pastorekova S, Pastorek J, Parkkila S. Characterization of Non-Specific Cytotoxic Cell Receptor Protein 1: A New Member of the Lectin-Type Subfamily of F-Box Proteins. PLoS ONE 6(11): e27152.

Tolonen TT, Tammela TLJ, Kujala PM, Tuominen VJ, Isola J, Visakorpi T. Histopathological variables and biomarkers enhancer of zeste homologue 2, Ki-67 and minichromosome maintenance protein 7 as prognosticators in primarily endocrine-treated prostate cancer. BJU Int. 2011;108(9):1430-8.

Tolonen TT, Kujala PM, Laurila M, Tirkkonen M, Ilvesaro J, Tuominen VJ, Tammela TL, Isola J. Routine dual-color immunostaining with a 3-antibody cocktail improves the detection of small cancers in prostate needle biopsies. Hum Pathol. 2011;42(11):1635-42.

Tuominen VJ, Ruotoistenmäki S, Viitanen A, Jumppanen M, Isola J. ImmunoRatio: a publicly available web application for quantitative image analysis of estrogen receptor (ER), progesterone receptor (PR), and Ki-67. Breast Cancer Res. 2010;12(4):R56.

Ketolainen JM, Alarmo EL, Tuominen VJ, Kallioniemi A. Parallel inhibition of cell growth and induction of cell migration and invasion in breast cancer cells by bone morphogenetic protein 4. Breast Cancer Res Treat. 2010 Nov;124(2):377-86.

Tuominen VJ, Isola J. Linking whole-slide microscope images with DICOM by using JPEG2000 Interactive Protocol. J Digit Imaging. 2010 Aug;23(4):454-62.

Tuominen VJ, Isola J. The application of JPEG2000 in virtual microscopy. J Digit Imaging. 2009 Jun;22(3):250-8.