Muyoung Heo

Muyoung Heo
Assistant Project Leader
Education
  • Ph.D in Physics, Department of Physics, Pusan National University, Aug 2004
  • M.S. in Physics, Department of Physics, Pusan National University, Feb 2000
  • B.S. in Physics, Department of Physics, Pusan National University, Feb 1998
Work Experience
  • Sep. 2011 ~ Aug. 2016: Research Professor (supported by Presidential Post-Doc fellowship), Institute of Extreme Physics, Department of Physics, Pusan National University
  • Feb. 2010 ~ Aug. 2011: Research associate, FAS Center for Systems Biology, Harvard University
  • May. 2006 ~ Jan. 2010: Postdoctoral fellow (working with Prof. Eugene Shakhnovich), Department of Chemistry and Chemical Biology, Harvard University
  • Mar. 2002 ~ Apr. 2006: Military service on a residence, Research Center for Dielectric and Advanced Matter Physics, Pusan National University
  • Jun. 2000 ~ Apr. 2006: System operator, High Performance Supercomputing Center, Central Laboratory, Pusan National University
  • Sep. 1999 ~ Feb. 2002: Research assistant, Basic Science Research Institute, Pusan National University
Fellowships, Awards, and Honors
  • Presidential Post-Doc. Fellowship, selected by National Research Foundation and designated by the President of Korea in Sep. 2011
Research Interests
  • Developing physical and quantitative models to analyze biological big data
  • Evolutionary dynamics of bacterial speciation
  • Revealing bacterial secreted proteins for quorum sensing and host-pathogen interaction
  • Eco-evolutionary modeling for an aquatic insect in a river system
  • Monitoring the behavioral dynamics of insects and fishes
  • Protein structure, function, interaction, mutagenesis, and folding/misfolding pathway
  • An ab initio multi-scale cell modeling with genotype-phenotype relationship
Publications
  1. Bin Li, Kozo Watanabe, Dong-Hwan Kim, Sang-Bin Lee, Muyoung Heo, Heui-Soo Kim, Tae-Soo, Chon, Identification of Outlier Loci Responding to Anthropogenic and Natural Selection Pressure in Stream Insects Based on Self-Organizing Map, Water, 8, 188, (2016) doi:10.3390/w8050188
  2. Dong-Hwan Kim, Tuyen Van Nguyen, Muyoung Heo and Tae-Soo Chon, Subsequent application of self-organizing map and hidden Markov models infer community states of stream benthic macroinvertebrates, Journal of Ecology and Environment, 38, 1, (2015) doi:10.5141/ecoenv.2015.010
  3. Hungsoo Kim, Tuyen Van Nguyen, Takashi Uehara, Muyoung Heo, Tae-Soo Chon, Zebrafish (Danio rerio) movement in addressing stress to conflicting stimuli, foods and predators, Ecological Modeling, 306, 257, (2015) doi:10.1016/j.ecolmodel.2014.10.009
  4. Sana Raoof, Muyoung Heo, and Eugene I. Shakhnovich, A One-Shot Germinal Center Model under Protein Structural Stability Constraints, Physical Biology, 10, 025001, (2013) doi:10.1088/1478-3975/10/2/025001
  5. Muyoung Heo, Konstantin Zeldovich, and Eugene I. Shakhnovich, Diversity Against Adversity: How Adaptive Immune System Evolves Potent Antibodies, Journal of Statistical Physics, 144, 241, (2011) doi:10.1007/s10955-011-0241-8
  6. Muyoung Heo, Sergei Maslov, and Eugene I. Shakhnovich, Topology of protein interaction network shapes protein abundances and strengths of their functional and nonspecific interactions, PNAS, 108, 4258 (2011) doi: 10.1073/pnas.1009392108
  7. Muyoung Heo and Eugene I. Shakhnovich, Interplay between Pleiotropy and Secondary Selection Determines Rise and Fall of Mutators in Stress Response, PLOS Computational Biology 6, e1000710 (2010) doi:10.1371/journal.pcbi.1000710
  8. Muyoung Heo, Louis Kang, and Eugene I. Shakhnovich, Emergence of species in evolutionary “simulated annealing”, PNAS, 106, 1869 (2009) doi: 10.1073/pnas.0809852106
  9. Wookyung Yu, Kwanghoon Chung, Mookyung Cheon, Muyoung Heo, Kyou-Hoon Han, Sihyun Ham, and Iksoo Chang, Cooperative folding kinetics of BBL protein and peripheral subunit-binding domain homologues, PNAS,  105, 2397 (2008) doi: 10.1073/pnas.0708480105
  10. Mookyung Cheon, Kwanghoon Chung, Muyoung Heo, and Iksoo Chang, Double Transitions and Temperature-Independent Coarsening Dynamics of the Coupled XY-Ising Model, Journal of the Korean Physical Society, 53, 527-532 (2008)
  11. Haejin Kim, Eun-Joung Moon, Sungchul Moon, Ho-Jin Jung, Young-Lyeol Yang, Young-Hoon Park, Muyoung Heo, Mookyung Cheon, Iksoo Chang, and Dong-Soo Han, New method of evaluating relative thermal stabilities of proteins based on their amino acid sequences; targetstar, International Journal of Modern Physics C, 18, 1513 (2007) doi:10.1142/S0129183107011534
  12. Mookyung Cheon, Muyoung Heo, Iksoo Chang, and Choongrak Kim, A self-organizing map of amino acids with their local environments in proteins by using pairwise-contact energy parameters, Journal of the Korean Physical Society, 47, 895-899 (2005)
  13. Mookyung Cheon, Muyoung Heo, Iksoo Chang, and Choongrak Kim, Classifications of amino acids in proteins by the self-organizing map, International Journal of Modern Physics C, 16, 1609 (2005) doi:10.1142/S0129183105008175
  14. Muyoung Heo, Suhkmann Kim, Eun-Joung Moon, Mookyung Cheon, Kwanghoon Chung, and Iksoo Chang, Perceptron learning of the pairwise contact energies of proteins incorporating amino acids' environment, Physical Review E 75, 011906 (2005) doi:10.1103/PhysRevE.72.011906
  15. Muyoung Heo, Mookyung Cheon, Eun-Joung Moon, Suhkmann Kim, Kwanghoon Chung, Haejin Kim, and Iksoo Chang, Extension of the pairwise-contact energy parameters for proteins with the local environments of amino acids, Physica A 351, 439 (2005) doi:10.1016/j.physa.2004.12.044
  16. Muyoung Heo, Mookyung Cheon, and Iksoo Chang, Nonsymmetric two-body score function for protein fold recognition; next nearest neighbor-adjacency of two amino acids, International Journal of Modern Physics C 15, 1087 (2004) doi:10.1142/S0129183104006546
  17. Mookyung Cheon, Muyoung Heo, Eun-Joung Moon, Suhkmann Kim, Kwanghoon Chung, Iksoo Chang, and Haejin Kim, Environment-Dependent One-Body Score Function for Proteins by the Perceptron Learning and the Protein Threading, Journal of the Korean Physical Society 45, 550 (2004)
  18. Suhkmann Kim, Kwanghoon Chung, Muyoung Heo, Eun-Joung Moon, Mookyung Cheon, Iksoo Chang, Haejin Kim, and Weontae Lee, A Development of Thermodynamic Approach on Clustering Ensemble Structures for a Native State of a Protein from NMR Experiment, Journal of the Korean Physical Society 45, 295 (2004)
  19. Muyoung Heo, Suhkmann Kim, Eun-Joung Moon, Mookyung Cheon, Kwanghoon Chung, and Iksoo Chang, Significant Improvement of the Pairwise Contact Energies for Proteins, Journal of the Korean Physical Society 44, 1571 (2004)
  20. Muyoung Heo and Iksoo Chang, Design and Extraction of Protein Energy Functions for Protein Fold Recognition, Sae Mulli (New Physics) 49, 105 (2004)
  21. Muyoung Heo and Iksoo Chang, The Importance and The Role of Directional Local Interactions in Protein Fold Recognition, Sae Mulli (New Physics) 48, 381 (2004)
  22. Muyoung Heo, Suhkmann Kim, Eun-Joung Moon, Mookyung Cheon, Kwanghoon Chung, and Iksoo Chang, The Role and Contribution of Ramachandran Angles in Protein Fold Recognition, Sae Mulli (New Physics) 48, 283 (2004)
  23. Muyoung Heo, Mookyung Cheon, Iksoo Chang, and Dietrich Stauffer, Ising Cluster Fragmentation at the Critical Point, International Journal of Modern Physics C 10, 1059 (1999) doi:10.1142/S0129183199000851
  24. Mookyung Cheon, Muyoung Heo, Iksoo Chang, and Dietrich Stauffer, Fragmentation of Percolation Clusters in General Dimensions, Physical Review E 59, 4733 (1999)  doi:10.1103/PhysRevE.59.R4733