Publications - abria/TeraStitcher GitHub Wiki

  1. Conte F., Germani A., Iannello G., 'A New Approach for Deconvolution and Filtering of 3-D Microscopy Images', In: Proceedings of the 18th IFAC World Congress, 2011 World Congress, Volume# 18, Part# 1, Milano, Italia, 28 August - 2 Sept. 2011, vol. 1, p. 1180-1185

  2. Bria, A. and Silvestri, L. and Sacconi, L. and Pavone, F. and Iannello, G. Stitching Terabyte-sized 3D Images Acquired in Confocal Ultramicroscopy. Proceedings of the 9th IEEE International Symposium on Biomedical Imaging, 1659 - 1662, 2012

  3. Silvestri L., Bria A., Sacconi L., Iannello G., Pavone F.S., 'Confocal light sheet microscopy: micron-scale neuroanatomy of the entire mouse brain', Optics Express, vol. 20, no. 18, 2012, pp. 20582-20598

  4. Bria, A. and Iannello, G. TeraStitcher - A tool for fast automatic 3D-stitching of teravoxel-sized microscopy images. BMC Bioinformatics 13(1), 316, 2012

  5. Silvestri, L. and Bria, A. and Costantini, I. and Sacconi, L. and Peng, H. and Iannello, G. and Pavone, F.S. Micron-scale resolution optical tomography of entire mouse brains with confocal light sheet microscopy. Journal of Visualized Experiments (JoVE), Vol. 80, 2013

  6. Conte F., Germani A., Iannello G., 'A Kalman filter approach for denoising and deblurring 3-D images by multi-view data', 2013 IEEE 52nd Annual Conference on Decision and Control (CDC), pp.7672,7677, 10-13 Dec. 2013

  7. Conte, F.; Germani, A.; Iannello, G., 'A Kalman Filter Approach for Denoising and Deblurring 3-D Microscopy Images', IEEE Transactions on Image Processing, vol.22, no.12, pp. 5306-5321, Dec. 2013

  8. Peng H., Bria A., Zhou Z., Iannello G., Long F., 'Vaa3D - Extensible Visualization and Analysis for Multi-Dimensional Images', Nature Protocol, vol. 9, no. 1, 2014, pp. 193-208

  9. Peng, H., Tang, J., Xiao, H., Bria, A., Zhou, J., Butler, V., Zhou, Z., Gonzalez-Bellido, P.T., Oh, S.W., Chen, J., Mitra, A., Tsien, R.W., Zeng, H., Ascoli, G.A., Iannello, G., Hawrylycz, M., Myers, E., Long, F., “Virtual finger boosts three-dimensional imaging and microsurgery as well as terabyte volume image visualization and analysis”, 2014, Nature Communications, 5, 4342

  10. Frasconi, P., Silvestri, L., Soda, P., Cortini, R., Pavone, F.S., Iannello, G., “Large-scale automated identification of mouse brain cells in confocal light sheet microscopy images”, 2014, Bioinformatics, 30, 17, pp. i587-i593

  11. Bria A., Iannello G., Soda P., Peng H., Erbacci G., Fiameni G., Mariani G., Mucci R., Rorro M., Pavone F.S., Silvestri L., Frasconi P., Cortini R., 'A HPC infrastructure for processing and visualizing neuro-anatomical images obtained by Confocal Light Sheet Microscopy', Proceedings of the 2014 International Conference on High Performance Computing and Simulation, HPCS 2014, pp. 592-599, 2014

  12. Costantini, I., Ghobril, J.-P., Di Giovanna, A.P., Mascaro, A.L.A., Silvestri, L., Müllenbroich, M.C., Onofri, L., Conti, V., Vanzi, F., Sacconi, L., Guerrini, R., Markram, H., Iannello, G., Pavone, F.S., “A versatile clearing agent for multi-modal brain imaging”, Scientific Reports, 5, art. no. 9808, 2015

  13. Silvestri, L., Paciscopi, M., Soda, P., Biamonte, F., Iannello, G., Frasconi, P., Pavone, F.S., “Quantitative neuroanatomy of all Purkinje cells with light sheet microscopy and high-throughput image analysis”, Frontiers in Neuroanatomy, 9 (MAY), art. no. 68, 11, 2015

  14. Bria A, Iannello G, Peng H, "An open-source Vaa3D plugin for real-time 3D visualization of Terabyte-sized volumetric images", ISBI 2015, April 16, 2015

  15. Mascaro A.L.A., Costantini I., Margoni E., Iannello G., Bria A., Sacconi L., Pavone F.S., “Label-free near-infrared reflectance microscopy as a complimentary tool for two-photon fluorescence brain imaging”, Biomedical Optics Express, 6 (11), art. no. 244279, pp. 4483-4492, 2015

  16. Soda P., Acciai L., Cordelli E., Costantini I., Sacconi L., Pavone F.S., Conti V., Guerrini R., Frasconi P., Iannello G., “Computer-based automatic identification of neurons in gigavoxel-sized 3D human brain images”, Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, 2015-November, art. no. 7320182, pp. 7724-7727, 2015

  17. Bria A, Iannello G, Onofri L, Peng H , “TeraFly: real-time three-dimensional visualization and annotation of terabytes of multidimensional volumetric images”, Nature Methods, February 25, 2016

  18. Acciai L., Costantini I., Pavone F.S., Conti V., Guerrini R., Soda P., Iannello G., “Towards automated neuron tracing via global and local 3D image analysis”, Proceedings - International Symposium on Biomedical Imaging, 2016-June, art. no. 7493274, pp. 322-325, 2016

  19. Acciai L., Soda P., Iannello G., “Automatic neuron tracing using a locally tunable approach”, Proceedings - IEEE Symposium on Computer-Based Medical Systems, 2016-August, art. no. 7545970, pp. 130-135, 2016

Wiki maintained by Alessandro Bria and Giulio Iannello.

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