Goutsias, John

Professor
Electrical And Computer Engineering
http://www.cis.jhu.edu/~goutsias/

Clark Hall 308A
(410) 516-7871
goutsias@jhu.edu

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About

Education
  • Ph.D. 1986, UNIV SOUTHERN CALIFORNIA
Experience
  • 2010 - Present:  Director, Graduate Admissions
  • 2008 - Present:  Director, ECE Graduate Admissions
  • 2005 - 2005:  Chair, Ad Hoc committee
  • 2002 - Present:  Professor, WSE Biomedical Engineering
  • 2001 - Present:  Professor, WSE Applied Mathematics and Statistics
Research Areas
  • Bioinformatics
  • Computational Systems Biology
  • Computational functional genomics
  • Genomics Signal Processing and Analysis
  • IMAGE analysis
  • Modeling Biochemical Regulatory Systems
  • Shape analysis

Publications

Journal Articles
  • Jenkinson G, Abante J, Feinberg AP, Goutsias J (2018).  An information-theoretic approach to the modeling and analysis of whole-genome bisulfite sequencing data.  BMC Bioinformatics.  19(1).
  • Nakamura H, Lee AA, Afshar AS, Watanabe S, Rho E, Razavi S, Suarez A, Lin YC, Tanigawa M, Huang B, DeRose R, Bobb D, Hong W, Gabelli SB, Goutsias J, Inoue T (2018).  Intracellular production of hydrogels and synthetic RNA granules by multivalent molecular interactions.  Nature Materials.  17(1).
  • Jenkinson G, Pujadas E, Goutsias J, Feinberg AP (2017).  Potential energy landscapes identify the information-theoretic nature of the epigenome.  Nature Genetics.  49(5).
  • Afshar AS, Xu J, Goutsias J (2014).  Integrative identification of deregulated MiRNA/TF-mediated gene regulatory loops and networks in prostate cancer.  PLoS ONE.  9(6).
  • Jenkinson G, Goutsias J (2014).  Intrinsic Noise Induces Critical Behavior in Leaky Markovian Networks Leading to Avalanching.  PLoS Computational Biology.  10(1).
  • Afshar AS, Xu J, Goutsias J (2013).  Identifying deregulated TF/miRNA negative and double-negative feedback loops in prostate cancer.  2013 IEEE Global Conference on Signal and Information Processing, GlobalSIP 2013 - Proceedings.
  • Goutsias J, Jenkinson G (2013).  Markovian dynamics on complex reaction networks.  Physics Reports.  529(2).
  • Jenkinson G, Goutsias J (2013).  Statistically testing the validity of analytical and computational approximations to the chemical master equation.  Journal of Chemical Physics.  138(20).
  • Jenkinson G, Goutsias J (2013).  Statistical validation of parametric approximations to the master equation.  Conference Record - Asilomar Conference on Signals, Systems and Computers.
  • Jenkinson G, Goutsias J (2012).  Numerical integration of the master equation in some models of stochastic epidemiology.  PLoS ONE.  7(5).
  • Jenkinson G, Goutsias J (2011).  Dynamics on networks: Chemical reactions as a unifying framework.  Conference Record - Asilomar Conference on Signals, Systems and Computers.
  • Jenkinson G, Goutsias J (2011).  Thermodynamically consistent model calibration in chemical kinetics.  BMC Systems Biology.  5.
  • Zhang HX, Goutsias J (2011).  Reducing experimental variability in variance-based sensitivity analysis of biochemical reaction systems.  Journal of Chemical Physics.  134(11).
  • Jenkinson WG, Goutsias J (2010).  A screening method for dimensionality reduction in biochemical reaction system calibration.  2010 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS 2010.
  • Jenkinson G, Zhong X, Goutsias J (2010).  Thermodynamically consistent Bayesian analysis of closed biochemical reaction systems.  BMC Bioinformatics.  11.
  • Jenkinson WG, Goutsias J (2010).  On constructing thermodynamically consistent parametrizations of kinetic models.  10th IEEE International Conference on Bioinformatics and Bioengineering 2010, BIBE 2010.
  • Zhang HX, Goutsias J (2010).  A comparison of approximation techniques for variance-based sensitivity analysis of biochemical reaction systems.  BMC Bioinformatics.  11.
  • Andreou A, Goutsias J (2009).  Greetings.  Proceedings - 43rd Annual Conference on Information Sciences and Systems, CISS 2009.
  • Zhang HX, Dempsey WP, Goutsias J (2009).  Probabilistic sensitivity analysis of biochemical reaction systems.  Journal of Chemical Physics.  131(9).
  • Schonfeld D, Goutsias J, Shmulevich I, Tabus I, Tewfik AH (2008).  Introduction to the issue on genomic and proteomic signal processing.  IEEE Journal on Selected Topics in Signal Processing.  2(3).
  • Goutsias J, Lee NH (2007).  Computational and experimental approaches for modeling gene regulatory networks.  Current Pharmaceutical Design.  13(14).
  • Goutsias J (2007).  Classical versus stochastic kinetics modeling of biochemical reaction systems.  Biophysical Journal.  92(7).
  • Dougherty ER, Astola J, Goutsias J, Shmulevich I (2006).  Guest editorial genomic signal processing.  IEEE Transactions on Signal Processing.  54(6 II).
  • Goutsias J, Kim S (2006).  Stochastic transcriptional regulatory systems with time delays: A mean-field approximation.  Journal of Computational Biology.  13(5).
  • Goutsias J (2006).  A hidden Markov model for transcriptional regulation in single cells.  IEEE/ACM Transactions on Computational Biology and Bioinformatics.  3(1).
  • Braga-Neto U, Goutsias J (2005).  Constructing multiscale connectivities.  Computer Vision and Image Understanding.  99(1).
  • Braga-Neto U, Goutsias J (2005).  Object-based image analysis using multiscale connectivity.  IEEE Transactions on Pattern Analysis and Machine Intelligence.  27(6).
  • Goutsias J (2005).  Quasiequilibrium approximation of fast reaction kinetics in stochastic biochemical systems.  Journal of Chemical Physics.  122(18).
  • Braga-Neto U, Goutsias J (2005).  Supremal multiscale signal analysis.  SIAM Journal on Mathematical Analysis.  36(1).
  • Braga-Neto U, Goutsias J (2004).  Grayscale level connectivity: Theory and applications.  IEEE Transactions on Image Processing.  13(12).
  • Braga-Neto U, Choudhary M, Goutsias J (2004).  Automatic target detection and tracking in forward-looking infrared image sequences using morphological connected operators.  Journal of Electronic Imaging.  13(4).
  • Goutsias J, Kim S (2004).  A Nonlinear Discrete Dynamical Model for Transcriptional Regulation: Construction and Properties.  Biophysical Journal.  86(4).
  • Braga-Neto U, Goutsias J (2003).  A theoretical tour of connectivity in image processing and analysis.  Journal of Mathematical Imaging and Vision.  19(1).
  • Batman S, Goutsias J (2003).  Unsupervised iterative detection of land mines in highly cluttered environments.  IEEE Transactions on Image Processing.  12(5).
  • Braga-Neto U, Goutsias J (2003).  A multiscale approach to connectivity.  Computer Vision and Image Understanding.  89(1).
  • Braga-Neto U, Goutsias J (2002).  Connectivity on complete lattices: New results.  Computer Vision and Image Understanding.  85(1).
  • Batman S, Goutsias J, Palki MB (2001).  A GUI for automated detection of surface mines using iterated hybrid morphological filters.  Proceedings of SPIE - The International Society for Optical Engineering.  4394(1).
  • Batman S, Goutsias J (2001).  Robust morphological detection of sea mines in side-scan sonar images.  Proceedings of SPIE - The International Society for Optical Engineering.  4394(2).
  • Goutsias J, Heijmans HJAM (2000).  Nonlinear multiresolution signal decomposition schemes - Part I: morphological pyramids.  IEEE Transactions on Image Processing.  9(11).
  • Heijmans HJAM, Goutsias J (2000).  Nonlinear multiresolution signal decomposition schemes - Part II: morphological wavelets.  IEEE Transactions on Image Processing.  9(11).
  • Batman S, Goutsias J (2000).  Iterative morphological algorithms for automated detection of landmines.  Proceedings of SPIE - The International Society for Optical Engineering.  4038.
  • Sivakumar K, Goutsias J (2000).  A Morphological Estimator for Clique Potentials of Binary Markov Random Fields.  IEEE Signal Processing Letters.  7(5).
  • Goutsias J, Heijmans HJAM (2000).  Fundamenta Morphologicae Mathematicae.  Fundamenta Informaticae.  41(1-2).
  • Sivakumar K, Goutsias J (2000).  A morphological estimator for clique potentials of binary Markov random fields.  IEEE International Conference on Image Processing.  1.
  • Goutsias J, Heijmans H (2000).  Preface.  Fundamenta Informaticae.  41(1-2).
  • Sivakumar K, Goutsias J (1999).  Morphologically Constrained GRFs: Applications to Texture Synthesis and Analysis.  IEEE Transactions on Pattern Analysis and Machine Intelligence.  21(2).
  • Batman S, Goutsias J (1999).  Iterative nonlinear technique for automatic detection of landmines in highly cluttered multispectral images.  Proceedings of SPIE - The International Society for Optical Engineering.  3710(II).
  • Sivakumar K, Goutsias J (1998).  MAP estimation of a class of morphologically constrained Gibbs random fields.  IEEE International Conference on Image Processing.  2.
  • Banerji A, Goutsias J (1998).  Statistical inference for a stochastic multiresolution image decomposition scheme.  IEEE International Conference on Image Processing.  1.
  • Banerji A, Goutsias J (1998).  A morphological approach to automatic mine detection problems.  IEEE Transactions on Aerospace and Electronic Systems.  34(4).
  • Goutsias J, Heijmans HJAM (1998).  Axiomatic approach to multiresolution signal decomposition.  IEEE International Conference on Image Processing.  2.
  • Braga-Neto UM, Goutsias JI (1998).  On detecting mines and minelike objects in highly cluttered multispectral aerial images by means of mathematical morphology.  Proceedings of SPIE - The International Society for Optical Engineering.  3392.
  • Sivakumar K, Goutsias JI (1998).  A multi-site updating Markov chain Monte Carlo algorithm for morphologically constrained Gibbs random fields.  Proceedings of SPIE - The International Society for Optical Engineering.  3459.
  • Heijmans HJAM, Goutsias J (1998).  Morphology-based perfect reconstruction filter banks.  Proceedings of the IEEE-SP International Symposium on Time-Frequency and Time-Scale Analysis.
  • Heijmans HJAM, Goutsias J (1998).  Some thoughts on morphological pyramids and wavelets.  European Signal Processing Conference.  1998-January.
  • Goutsias J, Sivakumar K (1998).  A Multiresolution Morphological Approach to Stochastic Image Modeling.  CWI Quarterly.  11.  347-69.
  • Potamianos G, Goutsias J (1997).  Stochastic approximation algorithms for partition function estimation of Gibbs random fields.  IEEE Transactions on Information Theory.  43(6).
  • Sivakumar K, Goutsias J (1997).  Morphologically constrained Gibbs random fields.  IEEE International Conference on Image Processing.  2.
  • Sivakumar K, Goutsias J (1997).  On the Discretization of Morphological Operators.  Journal of Visual Communication and Image Representation.  8(1).
  • Sivakumar K, Goutsias J (1997).  Discrete morphological size distributions and densities: Estimation techniques and applications.  Journal of Electronic Imaging.  6(1).
  • Sivakumar K, Goutsias J (1996).  Binary random fields, random closed sets, and morphological sampling.  IEEE Transactions on Image Processing.  5(6).
  • Goutsias JI (1996).  Toward a unifying optimal approach to mine detection problems.  Proceedings of SPIE - The International Society for Optical Engineering.  2765.
  • Banerji A, Goutsias JI (1996).  Detection of minelike targets in heavily cluttered environments using the MNF transform and grayscale morphological image reconstruction.  Proceedings of SPIE - The International Society for Optical Engineering.  2765.
  • Sivakumar K, Goutsias J (1996).  On the morphological analysis of binary random fields.  IEEE International Conference on Image Processing.  1.
  • Goutsias J, Heijmans HJAM, Sivakumar K (1995).  Morphological operators for image sequences.  Computer Vision and Image Understanding.  62(3).
  • Goutsias J (1994).  Stochastic pyramids for multiscale signal synthesis and analysis.  Proceedings - International Conference on Image Processing, ICIP.  1.
  • Kong X, Goutsias J (1994).  A study of pyramidal techniques for image representation and compression.  Journal of Visual Communication and Image Representation.  5(2).
  • Potamianos GG, Goutsias JK (1993).  Partition Function Estimation of Gibbs Random Field Images Using Monte Carlo Simulations.  IEEE Transactions on Information Theory.  39(4).
  • Potamianos G, Goutsias J (1993).  Analysis of Monte Carlo methods for likelihood estimation of Gibbsian images.  Proceedings - ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing.  5.
  • Goutsias JI (1992).  Morphological transformations of image sequences: a lattice theory approach.  Proceedings of SPIE - The International Society for Optical Engineering.  1769.
  • Goutsias J (1992).  Morphological analysis of discrete random shapes.  Journal of Mathematical Imaging and Vision.  2(2-3).
  • Potamianos G, Goutsias J (1991).  A novel method for computing the partition function of Markov random field images using Monte Carlo simulations.  Proceedings - ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing.  4.
  • Goutsias JI, Wen C (1991).  Discrete random set models for shape synthesis and analysis.  Proceedings of SPIE - The International Society for Optical Engineering.  1606(pt 1).
  • Goutsias JK (1991).  A Theoretical Analysis of Monte Carlo Algorithms for the Simulation of Gibbs Random Field Images.  IEEE Transactions on Information Theory.  37(6).
  • Schonfeld D, Schonfeld D, Goutsias J (1991).  Optimal Morphological Pattern Restoration from Noisy Binary Images.  IEEE Transactions on Pattern Analysis and Machine Intelligence.  13(1).
  • Goutsias J, Schonfeld D (1991).  Morphological Representation of Discrete and Binary Images.  IEEE Transactions on Signal Processing.  39(6).
  • Goutsias J (1991).  Unilateral approximation of Gibbs random field images.  CVGIP: Graphical Models and Image Processing.  53(3).
  • Berry JR, Goutsias J (1991).  A Comparative Study of Matrix Measures for Maximum Likelihood Texture Classification.  IEEE Transactions on Systems, Man and Cybernetics.  21(1).
  • Schonfeld D, Goutsias J (1991).  On the morphological representation of binary images in a noisy environment.  Journal of Visual Communication and Image Representation.  2(1).
  • Goutsias J (1990).  Unilateral approximation of Gibbs random field images.  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.  4.
  • Schonfeld D, Goutsias J (1990).  Robust morphological representation of binary images.  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.  4.
  • Goutsias J, Schonfeld D (1989).  Image coding via morphological transformations: a general theory.
  • Schonfeld D, Goutsias J (1989).  Parametric morphological filters for pattern restoration.
  • Scjionfeld D, Goutsias J (1989).  Optimal morphological filters for pattern restoration.  Proceedings of SPIE - The International Society for Optical Engineering.  1199.
  • Berry JR, Goutsias J (1989).  A comparison of matrix texture features using a maximum likelihood texture classifier.  Proceedings of SPIE - The International Society for Optical Engineering.  1199.
  • Goutsias JK (1989).  Mutually Compatible Gibbs Random Fields.  IEEE Transactions on Information Theory.  35(6).
  • Goutsias J, Mendel JM (1989).  Simultaneous Optimal Segmentation and Model Estimation of Nonstationary Noisy Images.  IEEE Transactions on Pattern Analysis and Machine Intelligence.  11(9).
  • Goutsias J (1988).  Comparative study of two useful discrete-valued random fields for the statistical modeling of images..
  • Schonfeld D, Goutsias J (1988).  A fast algorithm for the morphological coding of binary images.  Proceedings of SPIE - The International Society for Optical Engineering.  1001.
  • Goutsias J, Mendel JM (1988).  Optimal Simultaneous Detection and Estimation of Filtered Discrete Semi-Markov Chains.  IEEE Transactions on Information Theory.  34(3).
  • Goutsias J (1988).  MUTUALLY COMPATIBLE GIBBS IMAGES: PROPERTIES, SIMULATION AND IDENTIFICATION..  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.
  • Goutsias J, Mendel JM (1987).  SEMI-MARKOV RANDOM FIELD MODELS FOR TEXTURE SYNTHESIS..  Proceedings of SPIE - The International Society for Optical Engineering.  768.
  • Goutsias JI, Mendel JM (1987).  Inverse problems in two–dimensional acoustic media: A linear imaging model.  Journal of the Acoustical Society of America.  81(5).
  • Goutsias J, Mendel JM (1987).  SEMI-MARKOV RANDOM FIELD MODELS FOR IMAGE SEGMENTATION..  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.
  • Mendel JM, Goutsias J (1986).  One-Dimensional Normal-Incidence Inversion: A Solution Procedure for Band-Limited and Noisy Data.  Proceedings of the IEEE.  74(3).
  • Goutsias J, Mendel JM (1986).  MAXIMUM-LIKELIHOOD DECONVOLUTION: AN OPTIMIZATION THEORY PERSPECTIVE..  Geophysics.  51(6).
  • Chi CY, Goutsias J, Mendel JM (1985).  FAST MAXIMUM-LIKELIHOOD ESTIMATION AND DETECTION ALGORITHM FOR BERNOULLI-GAUSSIAN PROCESSES..  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.
Books
  • Goutsias J, Vincent L, Bloomberg DS (2000).  Mathematical morphology and its applications to image and signal processing.  Springer.  18.
  • Goutsias J, Heijmans HJ (2000).  Mathematical morphology.  IOS Press.
  • Goutsias J, Mahler RP, Nguyen HT (1997).  Random Sets: Theory and Applications.  Springer.
Book Chapters
  • Heijmans HJ, Goutsias J (2005).  Morphological Decomposition Systems with Perfect Reconstruction: From Pyramids to Wavelets.  Space, Structure and Randomness.  Springer.  279-314.
  • Heijmans HJ, Goutsias J (2000).  Morphological Pyramids and Wavelets Based on the Quincunx Lattice.  Mathematical Morphology and Its Applications to Image and Signal Processing.  Springer US.  273-281.
  • Goutsias JI, Batman S (2000).  Morphological Methods for Biomedical Image Analysis.  Handbook of Medical Imaging. Volume 2, Medical Image Processing and Analysis.  SPIE Optical Engineering Press.  175-272.
  • Braga-Neto UM, Goutsias J (2000).  Multiresolution connectivity: An axiomatic approach.  Mathematical Morphology and its Applications to Image and Signal Processing.  Springer.  159-168.
  • Goutsias J (1997).  Morphological Analysis of Random Sets an Introduction.  Random Sets.  Springer.  3-26.
  • Goutsias J, Sivakumar K (1997).  On estimating granulometric discrete size distributions of random sets.  Random Sets.  Springer.  47-71.
  • Goutsias J, Sivakumar K (1996).  Morphological sampling of random closed sets.  Mathematical Morphology and its Applications to Image and Signal Processing.  Springer.  73-80.
  • Goutsias J, Sivakumar K (1994).  Monte Carlo estimation of morphological granulometric discrete size distributions.  Mathematical Morphology and Its Applications to Image Processing.  Springer.  233-240.
  • Goutsias J (1993).  Morphological analysis of discrete random shapes.  Mathematical Nonlinear Image Processing.  Springer.  97-119.
Conference Proceedings
  • Sivakumar K, Goutsias J (2000).  A morphological estimator for clique potentials of binary Markov random fields.  Image Processing, 2000. Proceedings. 2000 International Conference on.  1.  264-267.
  • Banerji A, Goutsias J (1995).  Detection of minelike targets using grayscale morphological image reconstruction.  SPIE's 1995 Symposium on OE/Aerospace Sensing and Dual Use Photonics.  836-849.
  • Goutsias J (1994).  Stochastic pyramids for multiscale signal synthesis and analysis.  Image Processing, 1994. Proceedings. ICIP-94., IEEE International Conference.  1.  850-854.
  • Goutsias J, Kong X (1993).  Comparison of pyramidal image decomposition techniques for image representation and compression.  SPIE's 1993 International Symposium on Optics, Imaging, and Instrumentation.  252-265.
  • Goutsias J (1993).  Binary random fields, random set theory, and the morphological analysis of shape.  SPIE's 1993 International Symposium on Optics, Imaging, and Instrumentation.  54-64.
  • Goutsias J, Schonfeld D (1989).  Optimal morphological filters for pattern restoration.  1989 Advances in Intelligent Robotics Systems Conference.  158-169.
  • Berry, Jr JR, Goutsias J (1989).  A comparison of matrix texture features using a maximum likelihood texture classifier.  1989 Advances in Intelligent Robotics Systems Conference.  305-316.
  • Goutsias J, Schonfeld D (1988).  A fast algorithm for the morphological coding of binary images.  Visual Communications and Image Processing'88: Third in a Series.  138-145.
  • Goutsias J, MENDEL J (1985).  MAXIMUM-LIKELIHOOD DECONVOLUTION-AN INTERACTIVE SOFTWARE PACKAGE.  GEOPHYSICS.  50(4).  719-719.
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