Selected peer reviewed publications appearing in archived journals

  • AB Tosun, A Yergiev, S Kolouri, J Silverman, GK Rohde, Detection of malignant mesothelioma using nuclear structure of mesothelial cells in effusion cytology specimens, Cytometry A, in press, 2014.
  • S Basu, C Liu, GK Rohde, Localizing and Extracting Filament Distributions from Microscopy Images, Journal of Microscopy, in press 2014.
  • S Basu, C Liu, GK Rohde, Extraction of Individual Filaments from 2D Confocal Microscopy Images of Flat Cells, IEEE/ACM Transactions on Computational Biology and Bioinformatics, in press, 2014.
  • Y Li, H Chena, GK Rohde, C Yao, L Cheng, Texton analysis for mass classification in mammograms, Pattern Recognition Letters, In Press, 2014.
  • J.F. Eisses, A. Davis, A.B. Tosun, Z.R. Dionise, C. Cheng, J.A. Ozolek, G.K. Rohde and S.Z. Husain, A Computer-Based Automated Algorithm for Assessing Acinar Dropout after Experimental Pancreatitis, PLOS ONE, 9(10), e110220, 2014. html , software
  • GK Rohde, JA Ozolek, AV Parwani, L Pantanowitz, CMU Bioimaging Day 2014: Challenges and Opportunities in Digital Pathology. J. Pathol. Informatics. 2014; in press. html
  • JA Ozolek, AB Tosun, W Wang, C Chen, S Basu, H Huang, GK Rohde. Accurate diagnosis of thyroid follicular lesions from nuclear morphology using supervised learning. Medical Image Analysis. 18(5), 772-780, 2014. link
  • S. Xu, L Sun, GK Rohde, Robust efficient estimation of heart rate pulse from video. Biomedical Optics Express 5(4), 1124-1135, 2014. link
  • H Huang, AB Tosun, J Guo, C Chen, W Wang, JA Ozolek, GK Rohde, Cancer diagnosis by nuclear morphometry using spatial information. Pattern Recognition Letters. 42, 115-121, 2014. (pdf)
  • S. Basu, S. Kolouri, GK Rohde, Detecting and visualizing cell phenotype differences from microscopy images using transport-based morphometry. PNAS 111 (9), 3448-3453, 2014. pdf , publisher , software
  • GK Rohde, F Buchotz, JM Nichols, Maximum empiricalIET Signal Processing, 8, pp. 720-728, 2014.. (pdf)
  • J. Guo, H. Huang, C. Chen, G.K. Rohde, Optimized nonlinear discriminant analysis (ONDA) for supervised pixel classification, IEEE Sig. Proc. Letters, 30:1155-1158, 2013. (pdf) , supplement
  • C. Cheng, W. Wang, J. A. Ozolek, G. K. Rohde, A flexible and robust approach for segmenting cell nuclei from 2D microscopy images using supervised learning and template matching, Cytometry A, 83(5), pp. 495-507, 2013. Journal site , pdf , software .
  • W. Wang, D. Slepcev, J. A. Ozolek, S. Basu, G. K. Rohde, A linear optimal transportation framework for quantifying and visualizing variations in sets of images. International Journal of Computer Vision, vol. 101(2), pp. 254-269, 2013. Journal site , pdf .
  • J. Li, A. Shariff, G.K. Rohde, R. F. Murphy, Estimating and comparing microtubule distributions from fluorescence microscopy images of different human cell lines. PLoS ONE 7(11): e50292. doi:10.1371/journal.pone.0050292, 2012. (html)
  • S. Kustra, H. Wu, S. Basu, G.K. Rohde, C. J. Bettinger, High Throughput Arrays for Rapid Characterization of Solution Processable Transparent Conducting Electrodes, Small, Volume 8(24), pp. 3746€“3751, 2012.
  • T. E. Buck, J. Li, G. K. Rohde, R. F. Murphy, Towards the virtual cell: automated approaches to building models of subcellular organization `learned' from microscopy images. BioEssays, 34(9):791-799, 2012.
  • B. Holt, H. Shams, T. Horst, S. Basu, A. Rape, Y.-L. Wang, G. K. Rohde, M. Mofrad, M. Islam, K. Dahl, Altered cell mechanics from the inside: dispersed single wall carbon nanotubes integrate with and restructure actin. J. of Functional Biomaterials, 3(2), pp. 398-417, 2012.
  • W. Wang, Y. Mo, J. A. Ozolek, G. K. Rohde, Penalized Fisher discriminant analysis and its application to image-based morphometry. Pattern Recognition Letters, 32(15): 2128-2135, 2011. (pdf)
  • S. Choi, W. Wang, A. J. S. Ribeiro, A. Kalinowski, S. Q. Gregg, P. L. Opreski, L. J. Niedemhofer, G. K. Rohde, K. N. Dahl, Computational image analysis of nuclear morphology associated with various nuclear specific aging disorders. Nucleus, 2011. (link)
  • C. Chen, J. A. Ozolek, W. Wang, G. K. Rohde, A general system for automatic biomedical image segmentation using intensity neighborhoods, International Journal of Biomedical Imaging, Volume 2011, Article ID 606857. (link)
  • W. Wang, J. A. Ozolek, D. Slepcev, A. B. Lee, C. Chen, G. K. Rohde, An optimal transportation approach for nuclear structure-based pathology, IEEE Transactions on Medical Imaging, 30, pp. 621-631, 2011. (pdf)
  • W. Wang, J. A. Ozolek, G.K. Rohde, Detection and classification of thyroid follicular lesions based on nuclear structure from histopathology images. Cytometry 77A, pp. 485-494, 2010. (reprint)
  • A. Shariff, R. F. Murphy, G. K. Rohde, A generative model of microtubule distributions, and indirect estimation of its parameters from fluorescence microscopy images. Cytometry 77A, pp. 457-466, 2010. (reprint)
  • G. K. Rohde, A. Aldroubi, D. M. Healy, Jr., Interpolation Artifacts in Sub-Pixel Image Registration. IEEE Transactions on Image Processing 18(2), pp. 333-345, 2009. (preprint)
  • G.K. Rohde, J.M. Nichols, B.M. Dissinger, F. Bucholtz, Stochasic analysis of recurrence plots with applications to the detection of deterministic signals. Physica D, vol 237, pp. 619-629, 2008. (preprint)
  • G.K. Rohde, A.J.S. Ribeiro, K.N. Dahl, R.F. Murphy, Deformation-based nuclear morphometry: Capturing nuclear shape variation in HeLa cells. Cytometry, vol 73A, pp. 341-350, 2008. (pdf)
  • G.K. Rohde, J.M. Nichols, F. Bucholtz, Chaotic signal detection and estimation based on attractor sets: Applications to secure communications. Chaos, vol 18, pp. 013114, 2008. (pdf)
  • G.K. Rohde, A.S. Barnett, P.J. Basser, C. Pierpaoli, Estimating intensity variance due to noise in registered images: applications to DT-MRI. Neuroimage, vol. 26, pp. 673-684, 2005. (pdf)
  • G.K. Rohde, B.M. Dawant, S.-F Lin, Correction of motion artifact in cardiac optical mapping using image registration. IEEE Transactions on Biomedical Engineering, vol. 52, pp. 338-341, 2005. (pdf)
  • G.K. Rohde, A.S. Barnet, P.J. Basser, S. Marenco, C. Pierpaoli, Comprehensive approach for motion and distortion correction in diffusion weighted MRI. Magnetic Resonance in Medicine, vol. 51, pp. 103-114, 2004. (pdf)
  • G.K. Rohde, A. Aldroubi, B.M. Dawant, The adaptive bases algorithm for intensity based nonrigid image registration. Special issue on image registration. IEEE Transactions on Medical Imaging, vol. 22, pp. 1470-1479, 2003. (pdf)

Book chapter

  • J. Kovacevic, G.K Rohde, Overview of Image Analysis Tools and Tasks for Microscopy, in Microscopic Image Analysis for Life Science Applications, J. Rittscher, R. Machiraju and S.T.C. Wong, Eds., Artech House, 2008.

Selected conference publications

  • S Kolouri, S Basu, GK Rohde, Learning and visualizing statistical relationships betwen protein distributions from microscopy images. Accepted, IEEE ISBI 2014.
  • C. Chen, W. Wang, J.A. Ozolek, N. Lages, S.J. Altschuler, L.F. Wu, G.K. Rohde, A template matching approach for segmenting microscopy images, Proceedings of the IEEE International Symposium on Biomedical Imaging (ISBI 2012), pp. 768-771
  • A. Shariff, R. F. Murphy, G. K. Rohde, Automated estimation of microtubule model parameters from 3-D live cell microscopy images, Proceedings of the IEEE International Symposium on Biomedical Imaging (ISBI), 2011, p. 1330-1333. (pdf)
  • W. Wang, Y. Mo, J. A. Ozolek, G. K. Rohde, Characterizing morphology differences from image data using a modified fisher criterion, Proceedings of the IEEE International Symposium on Biomedical Imaging (ISBI), 2011, p. 129-132. (pdf)
  • C. Chen, J. A. Ozolek, W. Wang, G.K. Rohde, A pixel classification system for segmenting biomedical images intensity neighborhoods and dimension reduction, Proceedings of the IEEE International Symposium on Biomedical Imaging (ISBI), 2011, p. 1649-1652. (pdf)
  • G. K. Rohde, W. Wang, D. Slepcev, A. B. Lee, C. Chen, J. A. Ozolek, Detecting and classifying cancers from image data using optimal transportation, 26th Southern Biomedical Engineering Conference, University of Maryland, IFMBE PRoceedings 32, pp. 353-356, 2010.
  • W. Wang, C. Chen, T. Peng, D. Slepcev, J. A. Ozolek, G. K. Rohde, A graph-based method for detecting characteristic phenotypes from biomedical images. Proceedings of the IEEE International Symposium on Biomedical Imaging (ISBI 2010), pp. 129-132, 2010 (pdf) .
  • T. Peng, W. Wang, G.K. Rohde, R. F. Murphy, Instance-based generative biological shape modeling. Proceedings of the IEEE International Symposium on Biomedical Imaging (ISBI 2009), pp. 690-693, 2009 (pdf) .
  • G.K. Rohde, W. Wang, T. Peng, R.F. Murphy, Deformation-based nonlinear dimension reduction: applications to nuclear morphometry. Proceedings of the IEEE Int. Simp. on Biomedical Imaging, pp. 500-503, 2008. (pdf)
  • C.A. Hallock, I. Ozgunes, R. Bhagavatula, G.K. Rohde, J.C. Crowley, C.E. Onorato, A. Mavalankar, A. Chebira, Chuen Hwa Tan, M. Puschel, J. Kovacevic, Axonal bouton modeling, detection and distribution analysis for the study of neural circuit organization and plasticity. Proceedings of the IEEE Int. Simp. on Biomedical Imaging, pp. 165-168, 2008. (pdf)
  • A. Chebira, J.A. Ozolek , C. A. Castro, W.G. Jenkinson, M. Gore, R. Bhagavatula, I. Khaimovich, S.E. Ormon, C.S. Navara, M. Sukhwani, K.E. Orwig, A. Ben-Yehudah, G. Schatten, G.K. Rohde, J. Kovacevic, Multiresolution identification of germ layer components in teratomas derived from human, nonhuman primate, and murine embryonic stem cells. Proceedings of the IEEE Int. Simp. on Biomedical Imaging, pp. 979-982, 2008. (pdf)
  • G.K. Rohde, D.M. Healy, Jr., A. Aldroubi, Sampling and reconstruction for biomedical image registration. Proceedings of the Forty-First IEEE Asilomar Conference on Signals, Systems & Computers, pp. 220-223, 2007. (pdf)
  • G.K. Rohde, D.M. Healy, Jr., C.A. Berenstein, A. Aldroubi, Interpolation artifacts in biomedical image registration, Proceedings of the IEEE Int. Simp. on Biomedical Imaging, pp. 648-651, 2007. (pdf)
  • D.M. Healy, Jr., G.K. Rohde, Fast global image registration using random projections, Proceedings of the IEEE Int. Simp. on Biomedical Imaging, pp. 476-479, 2007. (pdf)
  • G.K. Rohde, D.M. Healy, Jr., C.A. Berenstein, A. Aldroubi, Measuring image similarity to sub-pixel accuracy, Proceedings of the IEEE Int. Simp. on Biomedical Imaging, pp. 638-641, 2006. (pdf)
  • G.K. Rohde, D.M. Healy, Jr., C.A. Berenstein, A. Aldroubi, D. Rockmore, Stochastic analysis of geometric image processing using B-splines, Proceedings of IEEE ICASSP, pp. 1017-1020, 2006. (pdf)
  • G.K. Rohde, C.A. Berenstein, D.M. Healy, Jr., Measuring image similarity in the presence of noise. Proceedings of the SPIE, vol. 5747, Medical Imaging 2005: Image Processing; pp. 132-143, 2005. (pdf)
  • G.K. Rohde, S. Pajevic, C. Pierpaoli, P.J. Basser. A comprehensive approach for multi-channel image registration. Second International Workshop on Biomedical Image registration (WBIR03), Philadelphia, Pennsylvania. June 2003. Pp. 214-223. (pdf)



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