Kirti M. Yenkie


Address:
1033 South Oakley Blvd, Apt-B
Chicago, IL 60612
Phone: (312) 823-0037
email: kyenki2@uic.edu, kirtiyenkie@gmail.com

Ph.D. Research Topic:

The PhD thesis, titled “Stochastic processes from batch crystallization to in-vitro fertilization” aims at developing a method for enhancing the success rate of in-vitro fertilization(IVF), by providing a treatment guideline to medical practitioners in terms of model predictive drug dosage. Costs of availing infertility services are very high since the process requires almost 1 to 1.5 months of daily injections of expensive fertility drugs and hormones. Along with these medicines, it also requires frequent monitoring and testing using sophisticated techniques. A single IVF cycle costs about 20% of the total annual income of a median family in developed nations like the US, whereas in developing countries like India and some African countries the cost is more than 50%. Thus, for the increased accessibility in developing nations it is important to come up with better treatment strategies for reducing the overall cycle cost as well as to improve the success rate.

We are using concepts derived from batch crystallization to model superovulation in a woman’s body. Variation in protocol depending upon patient’s condition, earlier medical history and responsiveness will make the method more effective and hence a higher success rate could be anticipated as against using the same protocol for every patient. The decrease in overall treatment cost can be expected since the dosage will be optimum and also the frequency of monitoring the patient can be reduced. Also, this work is a novel addition to multidisciplinary research in the field of bioengineering by involving principles from chemistry, chemical and biological engineering, mathematics, advanced calculus, operations research, medicine and gynecology.


Research Interests:
  • Mathematical modeling and simulations
  • Bioprocess operations and optimal control
  • Uncertainty characterization and stochastic simulation
  • Biomedicine and model predictive drug delivery

Academic History:
  • Ph.D., Department of Bioengineering, University of Illinois at Chicago, Chicago, IL (Jan 2011-Dec,2014(anticipated)).
  • M. Tech., Department of Chemical Engineering, IIT Bombay, India (2008-2010)
  • B. Tech., Chemical Engineering, Laxminarayan Institute of Technology, Nagpur, India (2004-2008)
  • Higher Diploma in German Language from Department of Foreign Languages, RTM Nagpur University (2005-2008).

Awards & Accomplishments:
  • Member of the ‘AEMB – the National Biomedical Engineering honor society’ at UIC (2012-till date). The membership is granted to top 5% students in the department with excellent academic record.
  • ‘Best Presentation’ award at ‘Chemference-Annual Research symposium’ at IIT Kanpur, July 2010.
  • Awarded ‘Passing out color’ by the CHEA (Chemical engineering association, IIT Bombay) for exceptional contribution in departmental activities, 2010
  • Qualified GATE 'Graduate Aptitude Test for Engineering'-2008 (All India Rank #109) and awarded 2 year scholarship (2008-2010) for pursuing M. Tech at IIT Bombay.
  • Secured 25th rank (merit holder) in Maharashtra state during class X (2002).
  • Qualified the 2nd National Science Olympiad during High School (2000).

Professional Societies:
  • American Institute of Chemical Engineers - AIChE[2011 – till date]
  • Institute for Operations Research and Management Sciences - INFORMS[2012 – till date]
  • Alpha Eta Mu Beta – AEMB, National Biomedical Engineering Honor Society[2012 – till date]

Peer-reviewed Publications:
  1. Yenkie, K. M.; Diwekar, U. 2013. Stochastic optimal control of seeded batch crystallizer applying Ito process. Industrial and Engineering Chemistry Research, 52: 108-122. invited paper
  2. Yenkie, K. M.; Diwekar, U.; Bhalerao, V. 2013. Modeling the superovulation stage in in-vitro fertilization. IEEE Transactions on Biomedical Engineering, 60(11): 3003-3008.
  3. Yenkie, K. M.; Diwekar, U. 2012. Modeling the superovulation stage in in-vitro fertilization. Proceedings of the 11th International symposium on Process Systems Engineering, Singapore.
  4. Yenkie, K. M.; Diwekar, U. 2013. Optimal control for predicting customized drug dosage for superovulation stage of in-vitro fertilization. Journal of Theoretical Biology. submitted
  5. Yenkie, K. M.; Diwekar, U.; Bhalerao, V. 2013. Modeling and prediction of outcome for the superovulation stage in in-vitro fertilization. Human Reproduction. to be submitted
  6. Yenkie, K. M.; Diwekar, U. 2013. Comparison of optimal control methods for customized drug dosage prediction in superovulation stage of in-vitro fertilization. Computers and Chemical Engineering. in preparation
  7. Yenkie, K. M.; Diwekar, U. 2013. A new method for parameter estimation in stochastic differential equations. Journal of Theoretical Biology. in preparation

Conference Publications:
  1. Yenkie, K.M., Diwekar, U.M., Comparison of different methods for predicting customized drug dosage in superovulation stage of in-vitro fertilization. AIChE annual meeting, Conference Proceedings. 2013, 666d, San Francisco, CA.
  2. Yenkie, K.M., Diwekar, U.M., A new method for parameter estimation in stochastic differential equations. AIChE annual meeting, Conference Proceedings. 2013, 589e, San Francisco, CA.
  3. Yenkie, K.M., Diwekar, U.M., Comparison of different methods for predicting customized drug dosage in superovulation stage of in-vitro fertilization. INFORMS Healthcare 2013, Conference Proceedings. MC-06(2), Chicago, IL.
  4. Yenkie, K.M., Diwekar, U.M., and Bhalerao, V., Optimal Control for Predicting Drug Dosage in Superovulation Stage of in Vitro Fertilization. AIChE’s 5th Annual Midwest Regional Conference, Conference Proceedings. 2013, Fr2D(1), IIT, Chicago, IL.
  5. Yenkie, K.M., Diwekar, U.M., and Bhalerao, V., Modeling the Superovulation Stage in in-Vitro Fertilization (IVF). Poster presentation at Midwest Biomedical Engineering Career Conference (MBECC) 2013, UIC, Chicago, IL.
  6. Yenkie, K.M., Diwekar, U.M., and Bhalerao, V., Modeling the Superovulation Stage in in-Vitro Fertilization (IVF). Poster presentation at UIC College of Medicine 2012 Research Forum.
  7. Yenkie, K.M.; Diwekar, U.M., Uncertainties and Stochastic Optimal Control in Batch Crystallization for Different Types of Objective Functions. AIChE annual meeting, Conference Proceedings. 2012, 599f, Pittsburgh, PA.
  8. Yenkie, K.M., Diwekar, U.M., and Bhalerao, V., Modeling the Superovulation Stage in in-Vitro Fertilization (IVF). AIChE annual meeting, Conference Proceedings. 2012, 312b, Pittsburgh, PA.
  9. Yenkie, K.M., Diwekar, U.M., and Bhalerao, V., Optimal Control for Predicting Drug Dosage in Superovulation Stage of in Vitro Fertilization. AIChE annual meeting, Conference Proceedings. 2012, 744ev, Pittsburgh, PA.
  10. Yenkie, K.M., Diwekar, U.M., and Bhalerao, V., Optimal Control for Predicting Drug Dosage in Superovulation Stage of in Vitro Fertilization. INFORMS annual meeting, Conference Proceedings. 2012, TD-20(2), Phoenix, AZ.
  11. Yenkie, K.M.; Diwekar, U.M., Stochastic optimal control in batch crystallization applying Ito Processes. AIChE annual meeting, Conference Proceedings. 2011, 131c, Minneapolis, MN.
  12. Yenkie, K.M.; Singh, K.P.; Jadhav, S.; Wangikar, P.P., Morphological model to correlate morphology and metabolism in Actinomycetes, Chemference 2010, Session 5:Bioprocess Engineering, S-501, Kanpur, UP, India.

Professional Experience:
  • Graduate Research Assistant [Jan 2011 – till date]
    Department of Bioengineering, University of Illinois at Chicago, IL, USA
  • Graduate Teaching Assistant [Fall, 2012 and 2013]
    Department of Bioengineering, University of Illinois at Chicago, IL, USA
    Introduction to Applied Optimization (Aug-Dec 2012) and Senior Design (Aug-Dec 2013)
  • Summer Intern [May - Aug, 2012]
    Mallinckrodt, Covidien, St. Louis, MO
    Mentor: Dr. Keith Tomazi, Technical fellow, Covidien
    Project: Kinetic studies, mathematical modeling and optimal operating policy prediction for batch crystallization process of an active pharmaceutical ingredient.
    - Performed experiments for finding kinetic parameters of API crystallization and predicting the temperature policy for desired product quality.
    - Use of sophisticated experimental techniques like IR(infra-red) spectroscopy, FBRM(focused beam reflectance measurements), PVM(particle vision microscopy) imaging, Reaction Calorimeter, etc.
  • Senior Research Fellow [July–Nov, 2010]
    Department of Chemical Engineering, IIT Bombay, Mumbai, India
    Advisor: Prof. Pramod P. Wangikar, Chemical Engineering, IIT Bombay, India
    Project: Metabolic modeling of cyanobacteria for enhanced ethanol production
    - Study of metabolic flux distribution in cyanobacteria and the pathways responsible for ethanol production.
    - Use of 'Open Flux - a Matlab based package for metabolic distribution study and analysis', for modeling the flux distribution using 13-C labeled data.

  • Graduate Teaching Assistant [Jan 2009 – July 2010]
    Department of Chemical Engineering, IIT Bombay, Mumbai, India.
    Chemical Engineering Thermodynamics (Jan – July 2010), Undergraduate Lab Experiments (July-Dec 2009) and Plant Utilities (Jan – May 2009)
  • Summer Intern [May –June, 2007]
    Indian Oil Corporation Limited, R&D, Faridabad, Haryana, India
    Supervisors: Dr. Madhusudan Sau and Mr. Ganesh Butley, R&D Hydroprocessing IOCL
    Project: Overview of ‘Petroleum Processes’ and study of ‘Diesel Hydrotreating’ unit.
    - Performed material balances, energy balances and kinetic studies on the hydrotreating unit.
    - Observed analytical techniques used for determination of physical properties like cold filter plugging point, viscosity, boiling point, etc of crude oil and petroleum products.

  • Software Skills:
    1. Programming Languages: C, Fortran 77
    2. Software and Packages: Matlab, GAMS, Visual Basic 6.0, Cytoscape, Open-Flux, Get Data, XL Miner
    3. Bioinformatics tools : Databases – KEGG, METACYC, miRBase, GenBank, EcoCyc, Swiss-Prot, etc. Sequence alignment tools – BLAST, FASTA, DIALIGN
    4. Heuristic optimization tools: Genetic algorithm and Simulated annealing
    5. Microsoft Office (2003, 2007, 2010), Microsoft Visual Studio

    Experimental Skills:
  • IR (Infrared) Spectroscopy
  • FBRM (Focused beam reflectance measurement)
  • PVM (particle vision microscopy) imaging
  • Reaction Calorimeter
  • HPLC (High performance liquid chromatography)
  • Vapor pressure osmometer
  • Rheometer

  • Major Academic Projects & Seminars:
  • M. Tech Research Project: Mathematical modeling to correlate morphology and metabolism in Actinomycetes – a group of filamentous microorganisms. [Jan 2009-June 2010]
    Academic Advisors: Prof. Pramod P. Wangikar and Prof. Sameer Jadhav, Dept. of Chemical Engg., IIT Bombay, India.
    - Developed methodology and a structured model to quantify the morphological changes with time
    - Use of Genetic Algorithm and other non-linear constrained optimization tools
    - Aimed at providing a model system for process optimization and monitoring batch to batch variability in commercially important antibiotic producing strains
  • B. Tech Degree Project: Design and performance evaluation of some industrial dryers. [August 2007 – April 2008]
    Academic Advisor: Prof. S. D. Dawande, Dept. of Chemical Engg., LIT Nagpur, India.
    - Provide general design strategy for various industrial dryers and compare drying process efficiency in rotary, pneumatic and belt conveyor dryers.
    - Programming for design and cost estimation for a given capacity and inlet feed conditions in Visual Basic 6.0.
  • M. Tech Seminar: Review of Non-ideal solution theories and the Debye-Hückel model for electrolytes. [Aug –Dec, 2008]
    Academic Advisor: Prof. H. S. Shankar, Dept. of Chemical Engineering., IIT Bombay, India.
    - Extensive literature survey on the existing solution theories to explain the behavior of non-ideal solutions like electrolytes and polymers.
    - The Debye-Hückel model, its corrected version and the Pitzer’s model for electrolytes reviewed in detail with their applications.
  • B. Tech Seminar: Reverse Osmosis and its applications to desalination of seawater. [July–Oct, 2007]
    Academic Advisor: Prof. S. D. Dawande, Dept. of Chemical Engg., LIT Nagpur, India.
    - Extensive literature survey on the reverse osmosis phenomena and its applications.
    - Seawater desalination using RO membranes, thermodynamic calculations and cost effectiveness.

  • Course Projects:
  • Anomalous Diffusion (BIOE 594) at UIC, Chicago, IL. [Aug– Nov, 2012]
    Course Instructor: Prof. Richard Magin
    Project: Fractional Brownian Motion: applications using stochastic calculus
    - Studied properties of fractional Brownian motion (fBM)
    - Applications in turbulent flow modeling and finance using stochastic equations
  • Supply Chain Management (IDS 552) at UIC, Chicago, IL. [Aug– Nov, 2012]
    Course Instructor: Prof. James Ho
    Project: Competitive force profiles for links in complex supply chain. Case study: Wal-Mart
    - Studied the suppliers and their products to Wal-Mart by using the Porter's five force analysis
    - Analyzed nine suppliers with details of their complex supply chain
  • Data Mining (IE 567) at UIC, Chicago, IL. [Jan – Apr, 2012]
    Course Instructor: Prof. David He
    Projects: i. Data Mining Applications for Letter recognition
    ii. Data Mining for identifying faults in bearings
    iii. Data Mining for cancer survivability predictions
    - Used XL miner techniques for data analysis, missing data handling, classification and for building data driven models
    - Use of Naive-Bayes, Artificial Neural Network, k-Nearest Neighbor and Discriminant Analysis methods for finding the best model that can be used for classification of new data based on historical observations
  • Metabolic Engineering (BIOE 465) at UIC, Chicago, IL. [Aug – Dec, 2011]
    Course Instructor: Prof. Andreas Linninger
    Project: Study of Kinetic inversion problem, sensitivity analysis and confidence regions for a metabolic model for S. coelicolor.
    - Used non-linear optimization methods to evaluate kinetic parameters for the metabolic model
    - Performed sensitivity analysis and predicted uncertainty in parameter values using confidence intervals
  • Atomic and Molecular Nanobiotechnology (BIOE 405) at UIC, Chicago, IL. [Aug – Nov, 2011]
    Course Instructor: Prof. G. A. Mansoori
    Term Paper: Magnetic nanoparticles for drug delivery – the heating phenomena.
    - Extensive literature survey on existing magnetic nanoparticles and their properties
    - Study of the heating effect due to magnetic fields and it's benefits in treating specific medical conditions
  • Introduction to Applied Optimization (BIOE 594) at UIC, Chicago, IL. [Jan – Apr, 2011]
    Course Instructor: Prof. Urmila Diwekar
    Project: Optimization methods in Cancer Chemotherapy.
    - Studied the different models for tumor degradation using chemotherapy
    - Applied optimal control methods to minimize the toxicity levels of the leftover drug in the body after action on the cancerous cells
  • Modeling and Analysis of Bioprocesses (CL 644) at IIT Bombay. [Aug – Nov, 2009]
    Course Instructor: Prof. Sarika Mehra
    Project: Comparison of Fatty acid biosynthesis pathway in E.coli, M. tuberculosis and C. glutamicum using elementary modes.
    - Extensive literature survey on the fatty acid synthesis pathways in several micro-organisms
    - Information on external metabolites, their selective production rates and the futile cycles present in the system obtained from databases like Kegg, Biocyc & Ecocyc and ScrumPy software.
  • Computational Biology (CL 662) at IIT Bombay. [Jan – May, 2009]
    Course Instructor: Prof. Pramod P. Wangikar
    Project: Prediction of Human miRNA’s and their targets in HIV genome for therapeutic use.
    - miRNAs present in human beings found from literature and the mouse orthologs of these miRNA sequences downloaded from ‘miRBASE’.
    - miRNA sequences reverse transcribed and then similarity search done using BLAST against the HIV sequences to find the targets

  • Languages:
  • English, Hindi, German and Marathi

  • Distinguished achievements and responsibilities:
  • Postgraduate departmental student mentor – guiding 15 students among a batch of 45 students in M. Tech 2009 to provide sound and timely advice regarding academic issues, general queries and extracurricular activities.
  • Competitions Manager ‘Azeotropy-2K9 & 2K10’ – Designed quizzes, equipment design problems, conducted paper and poster presentation in the Annual Chemical Engineering event at IIT Bombay.
  • First prize in ‘Prodigy’ - Chemical Engineering quiz competition 2008, at University Institute of Chemical Technology (UICT), Mumbai.
  • Represented LIT, Nagpur in the Young Innovators choice competition-2008, organized by UICT, Mumbai.

  • Extra-curricular activities and interests:
  • Member of the Bioengineering Organizational Alliance (BOA) at UIC.
  • Won the inter-hostel carom general championship in 2008 at IIT Bombay.
  • Member of the souvenir committee in L.I.T., Nagpur (2007 & 2008).
  • Joint secretary in ‘Umang’ the Annual Social Gathering of L.I.T., Nagpur.
  • Participated in events like fine arts, painting, singing and quizzes at IIT Bombay and L.I.T., Nagpur.