Courses
BMSE 590
CHBI 503
Classical thermodynamics: enthalpy, entropy, free energies, equilibria; introduction to statistical thermodynamics to describe the properties of materials; kinetic processes; diffusion of mass, heat, energy; fundamentals of rate processes in materials, kinetics of transformations.
CHBI 516
Recombinant DNA, enzymes and other biomolecules. Molecular genetics. Commercial use of microorganisms. Cellular reactors; bioseparation techniques. Transgenic systems. Gene therapy. Biotechnology applications in environmental, agricultural and pharmaceutical problems.
CHBI 584
The fundamentals of tissue engineering at the molecular and cellular level; techniques in tissue engineering; problems and solution in tissue engineering; transplantation of tissues in biomedicine using sophisticated equipments and materials; investigation of methods for the preparation of component of cell, effect of growth factors on tissues.
CMSE 520
Relationship between structure, function and dynamics in biomolecules. Overview of the biomolecular databases and application of computational methods to understand molecular interactions; networks. Principles of computational modeling and molecular dynamics of biological systems.
BMSE 695
CHBI 510
Key aspects of microbial physiology; exploring the versatility of microorganisms and their diverse metabolic activities and products; industrial microorganisms and the technology required for large-scale cultivation.
CHBI 550
Topics will be announced when offered.
CMSE 501
An introduction to interactive Python and Jupyter Notebooks, Python built-in data structures, conditional statements, loops, functions, strings and basic input/output, basics of data manipulation and visualization with relevant Python libraries, different types of plots, vector/matrix representations, linear algebra operations, probability/statistics operations, data analysis applications
COMP 529
Fundamental concepts of concurrency, non-determinism, atomicity, race-conditions, synchronization, mutual exclusion. Overview of parallel architectures, multicores, distributed memory. Parallel programming models and languages, multithreaded, message passing, data driven, and data parallel programming. Design of parallel programs, decomposition, granularity, locality, communication, load balancing. Patterns for parallel programming, structural, computational, algorithm strategy, concurrent execution patterns. Performance modeling of parallel programs, sources of parallel overheads.
BMSE 595
CHBI 506
The principles and computational methods to study the biological data generated by genome sequencing, gene expressions, protein profiles, and metabolic fluxes. Application of arithmetic, algebraic, graph, pattern matching, sorting and searching algorithms and statistical tools to genome analysis. Applications of Bioinformatics to metabolic engineering, drug design, and biotechnology.
CHBI 530
Reconstruction of metabolic network from genome information and its structural and functional analysis, computational models of biochemical reaction networks; system biology in drug discovery and proteomics, flux balance analysis; modeling of gene expression; system biology in artificial intelligence. These concepts will be supported with statistic, thermodynamic, structural biology and learning machine
CHBI 585
Principles of molecular modeling in chemical engineering applications; fundamentals for molecular simulation of adsorption and diffusion processes in nanoporous materials; molecular dynamics methods for gas transport in nanopores; Monte Carlo methods for equilibrium based gas separations; molecular modeling of zeolites and metal organic frameworks for gas storage.
COMP 513
Entropy, Relative Entropy and Mutual Information; Asymptotic Equipartition Theory; Entropy Rates of a Stochastic Process; Data Compression; Kolmogorov Complexity; Channel Capacity; Differential Entropy; The Gaussian Channel; Maximum Entropy and Spectral Estimation; Rate Distortion Theory, Network Information Theory.
