Authored standards and RFC's

[1]

Jarkko Oikarinen and Darren Reed. Internet Relay Chat Protocol. Internet Network Working Group Request for Comments 1459, May 1993.

Published theses

[1]

Jarkko Oikarinen. Accelerating Direct Volume Rendering using Seed Filling in the View Lattice. PhD thesis, University of Oulu, Finland, September 1999.

[2]

Jarkko Oikarinen. Aivoleikkaustyöaseman visualisointijärjestelmä. M.Sc. thesis, University of Oulu, Finland, April 1992. English title: Visualization System for Neurosurgical Workstation.

List of international publications in refereed journals and books

[1]

Minna Mäkiranta, Jukka Jauhiainen, Jarkko Oikarinen, Juhani Pyhtinen and Osmo Tervonen. Functional Magnetic Resonance Imaging of Swine Brain During Change in Thiopental Anesthesia into EEG Burst-Suppression Level - A Preliminary Study. MAGMA, 2002, 15(1-3):27-35.

[2]

Liisa Kerttula, Mauno Kurunlahti, Jukka Jauhiainen, Antero Koivula, Jarkko Oikarinen, and Osmo Tervonen. Apparent diffusion coefficients and T2 relaxation time measurements to evaluate disc degeneration. Acta Radiologica, 2001, 42(6):585-91.

[3]

Liisa Kerttula, Jukka Jauhiainen, Osmo Tervonen, Ilkka Suramo, Antero Koivula, and Jarkko Oikarinen. Apparent diffusion coefficient in thoracolumbar intervertebral discs of healthy volunteers. Journal of Magnetic Resonance Imaging, 2000 12:255-260.

[4]

Vesa Kiviniemi, Jukka Jauhiainen, Osmo Tervonen, Eija Paakko, Jarkko Oikarinen, Vilho Vainionpaa, and Heikki Rantala. Slow vasomotor fluctuation in fmri of anesthetized child brain. Magnetic Resonance in Medicine, 2000 44(3):373-378.

[6]

Jarkko Oikarinen, Rami Hietala, and Lasse Jyrkinen. Volume Graphics, chapter High-Quality Volume Rendering using Seed Filling in View Lattice. Springer-Verlag, 2000. ISBN 1-85233-192-5.

[7]

Jarkko Oikarinen. Using 2- and 2.5-dimensional seed filling in view lattice to accelerate volumetric rendering. Computers and Graphics, 22(6):745-757, 1999.

[8]

Jarkko Oikarinen, Rami Hietala, and Lasse Jyrkinen. Volume rendering using seed filling acceleration: Supporting cut planes by fast reseeding. Computer-Aided Surgery, 4(4), 1999.

[9]

Jarkko Oikarinen and Lasse Jyrkinen. Maximum intensity projection by 3-dimensional seed filling in view lattice. Computer Networks and ISDN Systems, 30:2003-2014, 1998.

[10]

Heikki Lopponen, Tuomas Holma, Matti Sorri, Lasse Jyrkinen, Virpi Karhula, Antero Koivula, Eero Ilkko, Juhani Laitinen, John Koivukangas, Jarkko Oikarinen, and Osmo Alamaki. Computer tomography data based rapid prototyping model of the temporal bone before cochlear implant surgery. Acta Otolaryhgologica, Suppl. 529:47-49, 1997.

[11]

Esa Heikkinen, John Koivukangas, Jyrki Alakuijala, Yrjo Louhisalmi, Jarkko Oikarinen, and Paavo Eskelinen. Neuronavigation in brain and spinal surgery. Journal of Computer-Aided Surgery, 1(1):19-22, 1995.

[12]

John Koivukangas, Yrjo Louhisalmi, Jyrki Alakuijala, and Jarkko Oikarinen. Neuronavigator-guided cerebral biopsy. Acta Neurochirurgica, Suppl. 58:71-74, 1993.

[13]

John Koivukangas, Yrjo Louhisalmi, Jyrki Alakuijala, and Jarkko Oikarinen. Ultrasound controlled neuronavigator-guided brain surgery. J. Neurosurg, 79:36-42, 1993.

[14]

Jarkko Oikarinen, Jyrki Alakuijala, Yrjo Louhisalmi, Sami Sallinen, Hannu Helminen, and John Koivukangas. The Oulu Neuronavigator System: Intraoperative ultrasonography in the verification of neurosurgical localization and visualization, pages 233-246. American Association of Neurological Surgeons (AANS), 1993. ISBN 1-879284-15-4.

List of international publications in refereed conferences

[1]

Jarkko Oikarinen, Rami Hietala, and Lasse Jyrkinen. High-quality volume rendering using seed filling in view lattice. In Preprint of the International Workshop on Volume Graphics'99 Proceedings, April 1999.

[2]

Jarkko Oikarinen, Lasse Jyrkinen, and Rami Hietala. Volume rendering using seed filling acceleration: Supporting cut planes by fast re-seeding. In Proceedings of the First Israeli Symposium on Computer-Aided Surgery, Medical Robotics and Medical Imaging (ISRACAS'98), May 1998.

[3]

Jarkko Oikarinen. Using 3-dimensional seed filling in view space to accelerate volume rendering. In Amitabh Varshney and David S. Ebert, editors, IEEE Visualization'97 Late Breaking Hot Topics, pages 17-20. IEEE Computer Society and ACM/SIGGRAPH, October 1997.

[4]

Jarkko Oikarinen and Lasse Jyrkinen. Maximum intensity projection by 3-dimensional seed filling in view lattice. In Harold P. Santo, editor, EDU- and COMPUGRAPHICS'97 Proceedings, pages 173-183. GRASP, December 1997. ISBN 972-8342-02-0.

List of other papers and abstracts in international conference proceedings

[1]

Lauri Ahvenjärvi, Jukka Jauhiainen, Jarkko Oikarinen, and Osmo Tervonen. Exercise induced signal intensity and adc changes in skeletal muscle. In 8th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine, March 2000.

[2]

Lauri Ahvenjärvi, Jukka Jauhiainen, Osmo Tervonen, Roberto Blanco, and Jarkko Oikarinen. Dynamic in vivo measurement of diffusion and pseudodiffusion in skeletal muscle after exercise. In 7th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine, May 1999.

[3]

Roberto Blanco, Lauri Ahvenjarvi, Jukka Jauhiainen, Jarkko Oikarinen, Topi Siniluoto, and Osmo Tervonen. Diffusion imaging in vivo in skeletal muscle tissue and correlation to the arteriosclerosis of the lower extremeties. In 7th Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine, May 1999.

[4]

Minna Makiranta, Satu Lehtinen, Jukka Jauhiainen, Juhani Pyhtinen, Jarkko Oikarinen, and Osmo Tervonen. Mr perfusion imaging of methotrexate-treated swine brain. In ESMRMB '99, 16th Annual Meeting European Society of Magnetic Resonance in Medicine and Biology, September 1999.

[5]

Roberto Blanco, Jukka Jauhiainen, Lauri Ahvenjarvi, Jarkko Oikarinen, and Osmo Tervonen. Diffusion imaging in vivo assessing structure and post-exercise physiological changes in human skeletal muscle. In Proceedings of the 15th Annual Meeting of the European Society of Magnetic Resonance in Medicine and Biology, page 118, September 1998.

[6]

Lasse Jyrkinen, Jarkko Oikarinen, Risto Ojala, Osmo Tervonen, and Olli Silvén. Image-based registration for interventional mri. In Proceedings of the 15th Annual Meeting of the European Society of Magnetic Resonance in Medicine and Biology, page 54, September 1998.

[7]

Lasse Jyrkinen, Virpi Karhula, Jarkko Oikarinen, and Heikki Lopponen. Combining mri and ct data in the segmentation of the cochlea. In Proceedings of the 2nd International Academic Workshop for Young Researchers in Oto-rhino-laryngology, August 1997.

[8]

Lasse Jyrkinen, Virvi Karhula, Heikki Lopponen, Osmo Tervonen, and Jarkko Oikarinen. Using complementary information of the mri and the ct in the segmentation of the cochlea. In Proceedings of the Computer Assisted Radiology Conference, June 1997.

[9]

Lasse Jyrkinen, Koen van Leemput, Jarkko Oikarinen, Osmo Tervonen, and Olli Silven. A method for patient movement registration during mri intervention. In Proceedings of the Second Interventional MRI Symposium, October 1997.

[10]

Antero Koivula, Kalervo Suominen, Lasse Jyrkinen, and Jarkko Oikarinen. Using phase images to estimate the field distortion caused by metallic hip prosthesis. In Proceedings of the 14th Annual Meeting of the European Society for Magnetic Resonance in Medicine and Biology, September 1997.

[11]

Heikki Lopponen, Lasse Jyrkinen, Virpi Karhula, Tuomas Holma, Matti Sorri, Jarkko Oikarinen, and Osmo Alamaki. Ct data based rapid prototyping model of the temporal bone for cochlear implant surgery practise. In Proceedings of the 5th International Cochlear Implant Conference, May 1997.

[12]

Heikki Lopponen, Tuomas Holma, Matti Sorri, John Koivukangas, Virpi Karhula, Antero Koivula, Eero Ilkko, Juhani Laitinen, Lasse Jyrkinen, Jarkko Oikarinen, and Osmo Alamaki. Computer tomography data based rapid prototyping model of the cochlea before cochlear implant surgery. In Proceedings of the Nordisk Oto-laryngologisk Forening XXVI Kongress, page 1, August 1996.

[13]

Esa Heikkinen, John Koivukangas, Jyrki Alakuijala, Yrjo Louhisalmi, Jarkko Oikarinen, and Paavo Eskelinen. Neuronavigation in brain and spinal surgery. In Proceedings of the 3rd Annual Meeting of Computer Aided Surgery, pages 3-4, 1994.

[14]

Jyrki Alakuijala, Jarkko Oikarinen, Yrjo Louhisalmi, Sami Sallinen, Hannu Helminen, and John Koivukangas. Data driven mri inhomogeneity correction. In Proceedings of the 15th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 15, pages 172-173, 1993.

[15]

Hannu Helminen, Jyrki Alakuijala, Jarkko Oikarinen, Yrjo Louhisalmi, Sami Sallinen, and John Koivukangas. Modeling neuronavigator kinematics. In Proceedings of the 15th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 15, pages 952-953, 1993.

[16]

Jarkko Oikarinen, Jyrki Alakuijala, Yrjo Louhisalmi, Sami Sallinen, Hannu Helminen, and John Koivukangas. Rendering system for tomographic images. In Proceedings of the 15th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 15, pages 144-145, 1993.

[17]

Xiaoyou Ying, Jyrki Alakuijala, Yrjo Louhisalmi, Jarkko Oikarinen, and John Koivukangas. Design of high robust voice interface for speech activated neurosurgical workstation. In Proceedings of the Computer Assisted Radiology Symposium, pages 429-434, 1993.

[18]

Jyrki Alakuijala, Jarkko Oikarinen, Yrjo Louhisalmi, Xiaoyou Ying, and John Koivukangas. Image transformations from polar to cartesian coordinates simplifies the segmentation of brain images. In Proceedings of the 14th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 14, pages 1918-1919, November 1992.

[19]

John Koivukangas, Yrjo Louhisalmi, Jyrki Alakuijala, and Jarkko Oikarinen. Neuronavigation: Feasibility study in neurosurgery. In Acta Neurochirurgica, 10th Congress of European Society for Stereotactic and Functional Neurosurgery, page 102, 1992. abstract.

[20]

Yrjo Louhisalmi, Jyrki Alakuijala, Jarkko Oikarinen, Xiaoyou Ying, and John Koivukangas. Development of a localization arm for neurosurgery. In Proceedings of the 14th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 14, pages 1085-1086, November 1992.

[21]

Jarkko Oikarinen, Jyrki Alakuijala, Yrjo Louhisalmi, Xiaoyou Ying, and John Koivukangas. Design of a visualization system for neurosurgical workstation. In Proceedings of the 14th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 14, pages 936-937, November 1992.

[22]

Xiaoyou Ying, John Koivukangas, Jarkko Oikarinen, Jyrki Alakuijala, and Yrjo Louhisalmi. Strategy for removal of surrounding noise in 3d head tomographic images without changing brain image data. In Proceedings of the 14th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 14, pages 1874-1876, November 1992.

[23]

Yrjo Louhisalmi, John Koivukangas, Jyrki Alakuijala, Jarkko Oikarinen, and Teppo Keranen. Neurosurgical navigation system. In Proceedings of the 13th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, volume 13, pages 1175-1176, November 1991.

Other publications

[1]

Liisa Kerttula, Mauno Kurunlahti, Jukka Jauhiainen, Jarkko Oikarinen, Antero Koivula, and Osmo Tervonen. Diskusdegeneraation magneettikuvaus. In Selkätutkimusseuran kilpailu, 2000. reference incomplete.

[2]

Jarkko Oikarinen. Potilaan kuvaus ja pikamallin tuottaminen. In Pohjolan Laakaripaivat, February 2000.

[3]

Jarkko Oikarinen. Rapid prototyping in medicine. In Workshop - Demonstration and Lecture, May 2000.

[4]

Rami Hietala and Jarkko Oikarinen. Closest vessel projection by seed filling to accelerate volume rendering. In Proceedings of the First Finnish Anti-Aliasing Symposium, volume 1, pages 19-27, September 1998. ISBN 951-97916-0-4.

[5]

Jukka Jauhiainen, Vesa Kiviniemi, and Jarkko Oikarinen. Applications of 3d-visualization methods in functional magnetic resonance imaging. In Proceedings of the First Finnish Anti-Aliasing Symposium, volume 1, pages 33-37, September 1998. ISBN 951-97916-0-4.

[6]

Jarkko Oikarinen. A review of volume rendering rechniques. In Proceedings of the First Finnish Anti-Aliasing Symposium, volume 1, pages 2-8, September 1998. ISBN 951-97916-0-4.

[7]

Jarkko Oikarinen, Lasse Jyrkinen, and Jukka Jauhiainen. Kuvia ihmisesta - Oulussa kuvankasittely palvelee laaketiedetta. Tietoyhteys, 2(4):8-11, November 1998. ISSN 1239-9248.

[8]

Kari Suomi, Jarkko Oikarinen, Jukka Jauhiainen, and Lasse Jyrkinen. Medical image fusion. In Proceedings of the First Finnish Anti-Aliasing Symposium, volume 1, pages 44-51, September 1998. ISBN 951-97916-0-4.

[9]

Ilkka Suramo, Tomi Talala, Virpi Karhula, Seppo Lahde, and Jarkko Oikarinen. Tekotodellisuus radiologiassa. Duodecim, 113:2151-2156, 1997.

[10]

Jarkko Oikarinen and Jyrki Alakuijala. Magneettikuvien kolmiulotteinen renderointi. In Suomen radiologiyhdistyksen julkaisusarja 93: Digitaalisen kuvankasittelyn kurssi, February 1993.