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).
  • 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).
  • Goutsias J, Kim S (2006).  Stochastic transcriptional regulatory systems with time delays: A mean-field approximation.  Journal of Computational Biology.  13(5).
  • Dougherty ER, Astola J, Goutsias J, Shmulevich I (2006).  Guest editorial genomic signal processing.  IEEE Transactions on Signal Processing.  54(6 II).
  • 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).
  • Goutsias J, Heijmans HJAM (2000).  Fundamenta Morphologicae Mathematicae.  Fundamenta Informaticae.  41(1-2).
  • 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 International Conference on Image Processing.  1.
  • 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 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).
  • Goutsias J, Heijmans HJAM (1998).  Axiomatic approach to multiresolution signal decomposition.  IEEE International Conference on Image Processing.  2.
  • 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.
  • 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.
  • Banerji A, Goutsias J (1998).  A morphological approach to automatic mine detection problems.  IEEE Transactions on Aerospace and Electronic Systems.  34(4).
  • 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).  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.
  • 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.
  • Sivakumar K, Goutsias J (1997).  Morphologically constrained Gibbs random fields.  IEEE International Conference on Image Processing.  2.
  • 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).  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 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.
  • Potamianos GG, Goutsias JK (1993).  Partition Function Estimation of Gibbs Random Field Images Using Monte Carlo Simulations.  IEEE Transactions on Information Theory.  39(4).
  • 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).
  • 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, Schonfeld D, Goutsias J (1991).  Optimal Morphological Pattern Restoration from Noisy Binary Images.  IEEE Transactions on Pattern Analysis and Machine Intelligence.  13(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 JK (1991).  A Theoretical Analysis of Monte Carlo Algorithms for the Simulation of Gibbs Random Field Images.  IEEE Transactions on Information Theory.  37(6).
  • Goutsias J (1991).  Unilateral approximation of Gibbs random field images.  CVGIP: Graphical Models and Image Processing.  53(3).
  • Goutsias J, Schonfeld D (1991).  Morphological Representation of Discrete and Binary Images.  IEEE Transactions on Signal Processing.  39(6).
  • 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 (1990).  Unilateral approximation of Gibbs random field 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 (1988).  MUTUALLY COMPATIBLE GIBBS IMAGES: PROPERTIES, SIMULATION AND IDENTIFICATION..  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.
  • 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, Mendel JM (1987).  SEMI-MARKOV RANDOM FIELD MODELS FOR TEXTURE SYNTHESIS..  Proceedings of SPIE - The International Society for Optical Engineering.  768.
  • Goutsias J, Mendel JM (1987).  SEMI-MARKOV RANDOM FIELD MODELS FOR IMAGE SEGMENTATION..  ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings.
  • 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 JI, Mendel JM (1986).  A 2-D imaging system for linearized inversion.  1986 SEG Annual Meeting, SEG 1986.
  • Goutsias J, Mendel JM (1986).  MAXIMUM-LIKELIHOOD DECONVOLUTION: AN OPTIMIZATION THEORY PERSPECTIVE..  Geophysics.  51(6).
  • 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).
  • 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.
  • Goutsias JI, Mendel JM (1985).  A 2-D stochastic earth model for seismic inversion.  1985 SEG Annual Meeting, SEG 1985.
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.
  • Braga-Neto UM, Goutsias J (2000).  Multiresolution connectivity: An axiomatic approach.  Mathematical Morphology and its Applications to Image and Signal Processing.  Springer.  159-168.
  • 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.
  • Goutsias J, Sivakumar K (1997).  On estimating granulometric discrete size distributions of random sets.  Random Sets.  Springer.  47-71.
  • Goutsias J (1997).  Morphological Analysis of Random Sets an Introduction.  Random Sets.  Springer.  3-26.
  • 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 (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, 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, 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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