Biyoistatistik Tezli Yüksek Lisans Dersleri



  • BIOINFORMATICS
  • DATA MANAGEMENTS
  • DATA ANALYSIS In MEDICAL RESEARCH I
  • DATA ANALYSIS In MEDICAL RESEARCH II
  • REGRESSION ANALYSIS I
  • REGRESSION ANALYSIS II
  • CLINICAL TRIALS
  • MATHEMATICAL STATISTICS
  • DESIGN AND ANALYSIS OF EXPERIMENT
  • NONPARAMETRIC STATISTICAL METHODS
  • SAMPLING METHODS
  • STATISTICAL METHODS IN HEALTH SCIENCES
  • GENETICS
  • QUANTITATIVE GENETICS
  • LINEAR ALGEBRA
  • MULTIVARIATE STATISTICAL METHODS
  • STOCHASTIC PROCESS
  • APPLIED CATAGORICAL DATA ANALYSIS




  • BIOINFORMATICS

     
    ECTS Credits
    1st year, 1st semester
    Graduate
    Elective
    2 hours/week
    Lectures : 2 hours/week;
    Turkish and English
    Lecturer: Assoc. Prof. Dr. Kemal Sami KORKMAZ (ks_korkmaz@.yahoo.com )

    Aims and Objectives


    Providing theoretical and practical information about the molecular biological aspects of informatics systems. This course aims to develop student’s skills for data mining in descriptive repositories.

    Course Contents


    • Basic components of informatics systems

    • Informatics databases, repositories (NCBI, EMBL, Refseq, GenBank, PDB, SwissProt)

    • Informatics datasets, and their utility by biologists

    • Molecular biological applications needed bioinformatics support

    • Clustering (hierarchical, K-means) and data mining, data processing

    • Structural Bioinformatics

    Assessment Methods

    One written midterm exam (40%) and one written final exam (60%) are scheduled at the end of the semester.

    Prerequisite/Recommended

    Fundamental biology, medical sciences or molecular biology is required. Basic knowledge about molecular biological applications, expression analysis, microarrays, tissue and cell culture preparation, cell culture technology, are recommended.

    Recommended sites

    NCBI database site http://www.ncbi.nlm.nih.gov/gquery/gquery.fcgi
    PDB database site http://www.rcsb.org/pdb/




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    DATA MANAGEMENTS

     
    ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 1 hour/week Tutorial: 2 hours/week
    In Turkish
    Contact: Assoc. Prof. Dr Mustafa INCEOGLU Lecturer A. Murat ERGIN


    Aims and Objectives of the Course


    The aim of the course is to make students have the ability of data management systems based on standards and technologies.

    Course Content


    Data Processing Systems

    Database Processing: File Processing Systems vs. Database Processing Systems

    Components of Database Applications.

    Query Languages: Structured Query Language (SQL)

    Data Base Management Systems (ACCESS, SQL SERVER, ORACLE)

    Extensible Markup Language (XML)

    Assessment Methods


    Five 15-minutes quizes, one 2-hours exam and 1 homework are scheduled during the semester. One 2-hours final exam is scheduled at the end of the semester.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    • Watson, Richard T., “Data Management: Databases & Organizations”, Wiley, 5th ed., (2005).

    • Viescas J., Conrad J., “Microsoft Office Access(TM) 2007 Inside Out (Microsoft Office Access Inside Out)”, Microsoft Press, (2007).




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    DATA ANALYSIS In MEDICAL RESEARCH I

     
    ……… ECTS Credits
    1st year-1st semester
    Graduate
    Required
    4 hours/week
    Lectures: 2 hour/week Tutorial: 2 hours/week
    In Turkish
    Contact: Prof. Dr. Fikret IKIZ Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE Lecturer A. Murat ERGIN

    Aims and Objectives of the Course


    This course has three aims;

    1- Collecting and analyzing data from different sources, such as Survey and simulation

    2- Evaluating data base and analyzing data In Studies with problem

    3- Practice on well-known statistical packet program.

    Course Content


    Basic statistical knowledge, type of data, table and graphics, frequency tables, descriptive statistics, sampling, probability, type of hypothesis, one and two sample test, confidence interval, regression, correlation.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40, and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Rostner, B. “Fundementals of Biostatistics” 5th Ed. Duxbury press, USA, 2000

    - Munro, BH. “Statistical Methods for Health Care Research” 4th Ed. Lippincott press, USA, 2001.

    - Ikiz, F., Püskülcü, H., Eren, S. “Istatistige Giris“ Fakülteler Kitapevi, 2006.




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    DATA ANALYSIS In MEDICAL RESEARCH II

     
    ……… ECTS Credits
    1st year-2st semester
    Graduate
    Required
    4 hours/week
    Lectures: 2 hour/week Tutorial: 2 hours/week
    In Turkish
    Contact: Prof. Dr. Fikret IKIZ Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE Lecturer A. Murat ERGIN

    Aims and Objectives of the Course


    This course has three aims;

    1- Collecting and analyzing data from different sources, such as Survey and simulation

    2- Evaluating data base and analyzing data In Studies with problem

    3- Practice on well-known statistical packet program.

    Course Content


    Hypothesis testing, statistical test for more than 2 groups, 2 way ANOVA, chi square test, risk measurements, determination of sample size for clinical trials.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40, and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Rostner, B. “Fundementals of Biostatistics” 5th Ed. Duxbury press, USA, 2000

    - Munro, BH. “Statistical Methods for Health Care Research” 4th Ed. Lippincott press, USA, 2001.

    - Ikiz, F., Püskülcü, H., Eren, S. “Istatistige Giris“ Fakülteler Kitapevi, 2006.




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    REGRESSION ANALYSIS I

     
    ……… ECTS Credits
    1st year-1st semester
    Graduate
    Elective
    3 hours/week
    Lectures: 1 hour/week Tutorial: 2 hours/week
    In Turkish
    Contact: Asist. Prof. Dr. Timur KÖSE

    Aims and Objectives of the Course


    Providing theoretical and practical information about the basic and multiple linear regressions.

    Course Content


    Basic linear regression analysis, lack of fit, Matrix solution, analyzing residuals, multiple linear regression analysis and model selection methods.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40, and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Draper, NR, Smith, H. “Applied Regresyon Analysis” 2nd Ed. Wiley pres, USA, 1981.

    - Qiu, P. “Image Processing and Jump Regression Analysis” John Wiley & Sons, USA, 2005.

    - Rawlings, JO., Dickey, DA., Pantula, SG. “Applied Regression Analysis : A Research Tool” Springer-Verlag, NY, 1998.


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    REGRESSION ANALYSIS II

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 1 hour/week Tutorial: 2 hours/week
    In Turkish
    Contact: Assoc. Prof. Dr. Mehmet N. ORMAN

    Aims and Objectives of the Course


    Providing theoretical and practical information about the transformed linear regression models and nonlinear regression models.

    Course Content


    Transformation type, nonlinear regression models, types of parameter estimation methods.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40, and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Draper, NR, Smith, H. “Applied Regresyon Analysis” 2nd Ed. John Wiley, USA, 1981.

    - Gallant, AR., “Nonlinear Statistical Models”, John Willey, USA, 1987


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    CLINICAL TRIALS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Prof. Dr. Fikret IKIZ Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE

    Aims and Objectives of the Course


    Providing theoretical and practical information about the clinical trials from beginning of the planning stage to end of the report stage. .

    Course Content


    Basic knowledge, type of clinical trials and its analysis, stage of clinical trials, clinical trial protocols, blinding, bias, randomization.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40, and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Trials”, Revised Edition, Imperial College Press, USA 2004.

    - Flather, M, Aston, H. “Stables, Rod Handbook of Clinical Trials” Remedica, USA, 2001

    - Gastl, G., Berdel, W., Edler, L. “Standard Operating Procedures for Clinical Trials of the Central European Society for Anticancer Drug Research” Karger Publishers, USA, 2003.


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    MATHEMATICAL STATISTICS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Prof. Dr. Fikret IKIZ

    Aims and Objectives of the Course


    This course give the information about random variable, expected value, probability, pdf, etc. in mathematical statistics theories

    Course Content


    Probability, random variable, moment generating function, discrete and continuous distributions, relations between distributions, sufficient statistics, expected value.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40, and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Hogg, RV., Craif, AT. “Introduction to Mathematical Statistics” 4th Ed. Macmillan Publishind, USA, 1978.

    - Roussas, GG. “ A First Course in Mathematical Statistics”, Addison-Wesley Publishing, USA, 1973.

    - Aytaç, M. “Matematiksel Istatistik”, Ezgi yayinlari, Bursa, 1999.

    - Freund, JE. “ Mathematical Statistics” Prentice Hall, 2nd Ed. Uk, 1972.

    - Fienberg, S.. Casella, G.. Olkin, I. “Mathematical Statistics : A Unified Introduction” Springer-Verlag, NY, 1999.


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    DESIGN AND ANALYSIS OF EXPERIMENT

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Prof. Dr. Fikret IKIZ

    Aims and Objectives of the Course


    In this course, the scientific approaches and fundamental principles of statistical methodology are introduced. Also, modeling for research and development activities are studied.

    Course Content


    Basics of knowledge production and problem solving.

    Definition of scientific method and research.

    Research process and modeling.

    Fundamental statistical principals.

    General Linear Model and its analysis.

    Experimental models and basic experimental designs.

    Factorial experimental models.

    Assessment Methods


    There is a midterm exam during the semester, and a final exam scheduled at the end of the semester. The % 40 of the mid-term grade and the %60 of the final exam grade form the term grade.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Mead, R., Curnow, R.N., and Hosted, A. "Statistical Methods in Agriculture and Experimental Biology", Chapman&Hall London, 1983.

    - Whitehead, J. The Design and Analysis of Sequential Trials. John Wiley. NY, 1997.

    - Mead,R. The Design of Experiments. Statistical principles for practical application. Cambridge Univ. Pres.Cambridge. 1990.


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    NONPARAMETRIC STATISTICAL METHODS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Assoc. Prof. Dr. Mehmet N. ORMAN

    Aims and Objectives of the Course


    To describe nonparametric statistical methods and applications.

    Course Content


    One sample test, repeated sample test, independent two groups test, repeated k groups test, independent k groups test methods and hypothesis testing.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40 and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Conover WJ. “Practical Nonparametric Statistics” 2 nd Ed. John Wiley and Sons, USA 1980.


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    SAMPLING METHODS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE

    Aims and Objectives of the Course


    Providing theoretical and practical information about sampling methods in health science.

    Course Content


    Probabilistic and non-probabilistic sampling, simple random, clustered, stratified, sequential, multistage, systematic sampling technique.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40 and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Kish, L. “Survey Sampling” John Wiley and Sons, USA, 1967.

    - Cochran WG. “Sampling Techniques” 3rd ed, John Wiley and Sons, USA, 1977.

    - Sümbüloglu, V., Sümbüloglu K. “Klinik ve Saha Arastirmalarinda Örnekleme ve Örneklem Büyüklügü” Alp Ofset Baski, Ankara, 2005.

    - Thompson, WL. “Sampling Rare or Elusive Species : Concepts, Designs, and Techniques for Estimating Population Parameters” Island Press, USA, 2004.


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    STATISTICAL METHODS IN HEALTH SCIENCES

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE

    Aims and Objectives of the Course


    Providing theoretical and practical knowledge about some statistical methods special for health sciences.

    Course Content


    Meta analysis, survival analysis, Cox regression, probit analysis, logistic regression, log linear models.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40 and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Fleiss, JL. “Statistical Methods for Rates and Proportions”, 2nd Ed. John Wiley and Sons Series, USA, 1981.

    - Everitt, BS. “The Analysis of Contingency Tables”, Chapman and Hall Ltd, UK, 1980.

    - Rothman, KJ., Greenlang, S. “Modern Epidemiology” 2nd Ed., Lippincott Williams and Wilkins, USA, 1998.

    - Everitt, BS., Pickles, A. “Statistical Aspects od the Design and Analysis of Clinical Trials” Imperial College Press, USA, 2004. (http://site.ebrary.com/lib/doc?id=10082180)

    - Christensen, R. “Log-Linear Models & Logistic Regression” Springer-Verlag NY, 1997.


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    GENETICS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Prof. Dr. Güldehen BILGEN

    Aims and Objectives of the Course


    The course includes basic and molecular knowledge on genetics.

    Course Content


    Features and structure of nucleic acids, organization of genetic material in prokaryotes and eukaryotes, gene expression, regulation of gene expression in prokaryotes and eukaryotes, Mendelian inheritance, factors deviated from Mendel rules, sex determination and sex-linked inheritance, mutations, gene manipulations and genomic analysis.

    Assessment Methods


    1 midterm examination %40 and 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Genetics, Peter J. Russell, 2002. Pearson Education, Inc.

    - Principles of Genetics, Eldon J. Gardner, Michael J. Simmons, D. Peter Snustad, 1991.John Wiley and Sons, Inc.


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    QUANTITATIVE GENETICS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Prof. Dr. Güldehen BILGEN

    Aims and Objectives of the Course


    The course includes principles of genetic events in population base

    Course Content


    • Genetic Structure of Population: Genetic variation, measures of genetic variation, frequencies of gene and genotype, Hardy-Weinberg equilibrium

    • Factors Altering Gene Frequency: Mutation, migration, selection, balance between mutation and selection, genetic drift

    • Variances: Phenotypic and genotypic variance

    • Heritability: Importance, characteristics, estimation

    • Selection: The basic selection model, selection against recessives and dominants

    • Population Genetics and Human: Genetic counseling, probability of single gene and polygenic diseases, incidence of genetic disease

    Assessment Methods


    1 midterm examination %40 and 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Genetics of Populations, P.H. Hedrick,1983,Jones and Bartlett Publishes, Inc.

    - Populasyon ve Biyometrik Genetik, Y. Vanli, M. K. Özsoy, S. Bas,Yüzüncü Yil Üniv. Ziraat Fak. Yardimci Ders Kitaplari Yayin no . 4.


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    LINEAR ALGEBRA

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Assist. Prof. Dr. Vecdi AYTAÇ

    Aims and Objectives of the Course


    The aim of the course is to make students aware of systems of linear equations and their solutions.

    Course Content


    Linear Equations, Matrix Solutions of Linear Systems, Determinants, Additional Topics of Determinants And Matrices, Vectors, Solutions of Linear Equations and Rank of A Matrix, Eigenvalues And Eigenvectors.

    Assessment Methods


    One midterm is given during the semester and final exam is scheduled at the end of the semester.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Eren S, Razbonyali M, “Lineer Cebir”, Maltepe Üniversitesi, (2004)

    - Kolman, B., Hill, D. R., “Introductory Linear Algebra with Applications”, Printice Hall, 7 Edition, (2001)

    - Koç, C., “Basic Linear Algebra”, Matematik Vakfi, (1995)

    - Anton, H.. Elementary Linear Algebra. 6th edition. John Wiley & Sons, Inc., (1991)

    - Lang, S., “Linear Algebra”, Addison-Wesley Publishing Company, (1968)

    - Lipschutz, S.,”Linear Algebra, Schaum’s Outline Series”, McGraw-Hill, Inc., (1974)

    - Hoffman, K. M., Kunze R. A.,”Linear Algebra”, Printice Hall, 2 edition, (1971)


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    MULTIVARIATE STATISTICAL METHODS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE

    Aims and Objectives of the Course


    Providing theoretical and practical knowledge about multivariate statistical methods.

    Course Content


    Matrices algebra, multivatiate normal distribution, inferences in multivariate means and linear models. Principle components, factor analysis, discriminant analysis, culuster analysis.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40 and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Johnson, RA, Wichern, DW, “Applied Multivariate statistical Analysis” Prentice Hall press, USA, 1982.

    - Brenner, D., Fienberg, S., Casella, G. “Theory of Multivariate Statistics” Springer-Verlag, USA, 1999.

    - Timm, NH. “Applied Multivariate Analysis” Springer-Verlag, USA, 2002.


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    STOCHASTIC PROCESS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Prof. Dr. Fikret IKIZ

    Aims and Objectives of the Course


    The analysis of the random events occurring on the continuous or discrete time scale is the subject matter of this course. The theory and the application of the static and dynamic models are taught. At the end of the course it is expected that the students will be able to analyze and interpret the stochastic events.

    Course Content


    1. Introduction, general aspects and definition.
    2. Random walk
        a. Simple random walk
        b. Random walk between absorbing barriers
        c. Random walk between reflecting barriers
        d. Diffusion of simple random walk
    3. Branching process
        a. Examples
        b. Basic theory
    4. Markov chains
        a. Basic theory
        b. Algebraic solution of finite chains
        c. Classification of stage
    5. Continuous time process
        a. Poisson process
        b. Birth-death process
        c. Queuing theory

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40 and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Wolff, RW. “Stochastic Modeling and the Theory of Queues” Prentice Hall editions, USA, 1989.

    - Parzen, E. “Stochastic Processes”, Holden Day Inc., USA, 1964.

    - Cox, DR., Miller, HD. “The Theory of Stochastic Processes” Chapman and Hall, UK, 1972.

    - Chang, Fwu-R. “Stochastic Optimization in Continuous Time” Cambridge University Press, UK, 2004.

    - Lindsey, JK., Gill, R., Ripley, BD. “Statistical Analysis of Stochastic Processes in Time” Cambridge University Press, UK, 2004.


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    APPLIED CATAGORICAL DATA ANALYSIS

     
    ……… ECTS Credits
    Graduate
    Elective
    3 hours/week
    Lectures: 3 hour/week Tutorial: - hours/week
    In Turkish
    Contact: Assoc. Prof. Dr. Mehmet N. ORMAN Asist. Prof. Dr. Timur KÖSE

    Aims and Objectives of the Course


    Providing theoretical and practical knowledge about multidimensional tables

    Course Content


    Modeling, model selection, goodness of fit, parameter estimation, relation measure, significance levels, determination of significance sources.

    Assessment Methods


    Homework, presentation and 1 midterm examination total %40 and at the end of the semester 1 final examination %60.

    Prerequisite/ Recommended


    Textbook/Recommended Reading


    - Fleiss, JL. “Statistical Methods for Rates and Proportions”, 2nd Ed. John Wiley and Sons Series, USA, 1981.

    - Everitt, BS. “The Analysis of Contingency Tables”, Chapman and Hall Ltd, UK, 1980.




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