Article

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2019) Focus prediction in digital holographic microscopy using deep convolutional neural networks. Applied Optics, 58 (5). A202-A208. ISSN 0003-6935

Pitkäaho, Tomi, Pitkäkangas, Ville, Niemelä, Mikko, Rajput, Sudheesh K., Nishchal, Naveen K. and Naughton, Thomas J. (2018) Space-variant video compression and processing in digital holographic microscopy sensor networks with application to potable water monitoring. Applied Optics, 57 (22). E190-E198. ISSN 1559-128X

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2018) Detecting the presence of a transparent object in off-axis digital holograms. Digital Holography and Three- Dimensional Imaging 2018 (part of Imaging and Applied Optics 2018).

Qaiser, Talha, Mukherjee, Abhik, Reddy P.B., Chaitanya, Munugoti, Sai D., Tallam, Vamsi, Pitkäaho, Tomi, Lehtimäki, Taina M., Naughton, Thomas J., Berseth, Matt, Pedraza, Aníbal, Mukundan, Ramakrishnan, Smith, Matthew, Bhalerao, Abhir, Rodner, Erik, Simon, Marcel, Denzler, Joachim, Huang, Chao-Hui, Bueno, Gloria, Snead, David, Ellis, Ian O., Ilyas, Mohammad and Rajpoot, Nasir (2017) HER2 challenge contest: a detailed assessment of automated HER2 scoring algorithms in whole slide images of breast cancer tissues. Histopathology, 72 (2). pp. 227-238. ISSN 1365-2559

Pitkäaho, Tomi and Naughton, Thomas J. (2011) Calculating depth maps from digital holograms using stereo disparity. Optics Letters, 36 (11). pp. 2035-2037. ISSN 0146-9592

Pitkäaho, Tomi and Naughton, Thomas J. (2010) Numerical reconstruction of digital holograms for conventional 3D display. Information Optics (WIO) 2010 9th Euro-American Workshop.

Lehtimäki, Taina M., Sääskilahti, Kirsti, Pitkäaho, Tomi and Naughton, Thomas J. (2010) Comparing numerical error and visual quality in reconstructions from compressed digital holograms. SPIE Proceedings, 7690 (769012).

Pitkäaho, Tomi and Naughton, Thomas J. (2010) Using disparity in digital holograms for three-dimensional object segmentation. SPIE Proceedings, 7690. 769004-1-769004-8.

Book Section

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2017) Focus classification in digital holographic microscopy using deep convolutional neural networks. In: Advances in Microscopic Imaging. Proceedings of SPIE-OSA (10414). SPIE, Bellingham, WA, 104140K. ISBN 9781510612860

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2017) Deep convolutional neural networks and digital holographic microscopy for in-focus depth estimation of microscopic objects. In: Irish Machine Vision and Image Processing Conference Proceedings 2017. Irish Pattern Recognition & Classification Society, pp. 52-59. ISBN 978-0-9934207-2-6

Pitkäaho, Tomi, Pitkäkangas, Ville, Niemelä, Mikko, Rajput, Sudheesh, Nishchal, Naveen K. and Naughton, Thomas J. (2017) Digital holographic sensor network and image analyses for distributed potable water monitoring. In: Irish Machine Vision and Image Processing Conference Proceedings 2017. Irish Pattern Recognition & Classification Society, pp. 221-224. ISBN 978-0-9934207-2-6

Pitkäaho, Tomi and Naughton, Thomas J. (2014) Speckle Noise Reduction in Michelson Digital Holography Using Known or Unknown Reference Linear Phases and Image Processing. In: Fringe 2013. Springer, pp. 649-652. ISBN 9783642363580

Nishchal, Naveen K., Pitkäaho, Tomi and Naughton, Thomas J. (2010) Digital Fresnel Hologram Watermarking. In: 2010 9th Euro-American Workshop on Information Optics (WIO). IEEE, pp. 1-3. ISBN 9781424482269

Pitkäaho, Tomi and Naughton, Thomas J. (2009) Stereo vision based approach for extracting features from digital holograms. In: Fringe 2009 6th International Workshop on Advanced Optical Metrology. Springer, Berlin, pp. 562-567. ISBN 978-3-642-03050-5

Conference or Workshop Item

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2018) Classification of Digital Holograms with Deep Learning and Hand-Crafted Features. In: Digital Holography and Three- Dimensional Imaging 2018 (part of Imaging and Applied Optics 2018), 2018.

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2018) Principal component analysis on time-lapse captured digital holograms of cell clusters. In: Biophotonics Congress: Biomedical Optics Congress 2018, 2018.

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2018) Temporal Deep Learning Classification of Digital Hologram Reconstructions of Multicellular Samples. In: Biophotonics Congress: Biomedical Optics Congress 2018, 2018.

Pitkäaho, Tomi, Pitkäkangas, Ville, Niemelä, Mikko, Rajput, Sudheesh K., Nishchal, Naveen K. and Naughton, Thomas J. (2017) Digital holographic microscopy in remote potable water monitoring. In: Digital Holography and Three-Dimensional Imaging, 29 May – 1 Jun 2017, JeJu Island, South Korea.

Pitkäaho, Tomi, Manninen, Aki and Naughton, Thomas J. (2017) Performance of autofocus capability of deep convolutional neural networks in digital holographic microscopy. In: Digital Holography and Three-Dimensional Imaging, 29 May – 1 Jun 2017, JeJu Island, South Korea.

Pitkäaho, Tomi, Naughton, Thomas J. and Manninen, Aki (2016) Monitoring MDCK cell vesicles by digital holographic microscopy and image processing. In: 2016 Imaging and Applied Optics Congress, 2016.

Thesis

Pitkäaho, Tomi (2019) Digital Holographic Microscopy for High-throughput Analysis of Tumour Cells. PhD thesis, National University of Ireland Maynooth.