BMED2400: ACTIVITIES This site is under constant update

BMED 2400: ACTIVITIES

Spring 2013

  • Activity 1 Desctiptive Statistics: Triazines. Data set in MATLAB's mat format: triazines.mat.

  • Activity 2 Probability. No data file for this activity. Paper to read: Inheritance of Handedness by McManus.

  • Activity 3 Sensitivity/Specificity. No data file for this activity. Paper to read: Research Paper by AlAjerami. Slides for SeSp: SeSp.pdf (...summarized Chapter 4).

  • Activity 4 Random Variables. No data file for this activity. Papers to read: Paper1 and Paper2.

  • Activity 5 Normal Distribution. No data file for this activity. Consult Text Chapter 6.

  • Activity 6 Confidence Intervals. Data set in MATLAB's mat format: hemodialysis.mat. Supporting paper: Bioimpedance-based volume at clinical target weight is contracted in hemodialysis patients with a high body mass index by Werner Ribitsch, Jakob Stockinger and Daniel Schneditz

  • Activity 7 Testing hypotheses. Data set: brainshift.dat, brainshift.mat, or brainshift.xlsx. Supporting paper: Perioperative Brain Shift and Deep Brain Stimulating Electrode Deformation Analysis: Implications for rigid and non-rigid devices KARL A. SILLAY, L. M. KUMBIER, C. ROSS, M. BRADY, A. ALEXANDER, A. GUPTA, N. ADLURU, G. S. MIRANPURI, and J. C. WILLIAM.

  • Activity 8 Two samples. Old Final in ISyE 2028 (from 2002), problem Reaction Times.

  • Activity 9 (3/7/2013) ANOVA: Exercise 11.1. Nematodes.

  • Activity 10 Multiple Regression (Thursday, 4/4/13) Data set: silverzinc.mat.

    Fall 2012

  • Activity 1 Desctiptive Statistics: Liver Disease Data. Data set in MATLAB's mat format: ilpd.mat, or as an Excel file ilpd.xlsx.

  • Activity 2 Probability. Simple networks of neurons. Due Sunday, September 2, midnight.

  • Activity 3. Bayes Formula. Continuation of Activity 2, no need to submit, just for practice.

    (a4) Neuron N fired. What is the probability that it received a stimulus?

    (a5) Neuron N fired. What is the probability that N1 fired?

    Here is the KEY

  • Activity 4 Sensitivity/Specificity. Due Sunday, September 9, midnight. See also slides SeSp.pdf

  • Activity 5 Random Variables. Due Monday, September 17, midnight.

  • Activity 6 Normal Random Variables. Due Monday, September 24, midnight.

  • Activity 7 Estimation: Confidence Intervals. You will need again data sets ilpd.mat, or ilpd.xlsx. Due Monday, October 1, midnight.

  • Activity 8 Testing Hypotheses: t-test. Due Monday, October 8, midnight.

  • Activity 9 Two Sample t-test. Due Friday, October 12, midnight. An optional activity from the same chapter is Activity 9 (Optional) It features testing Poisson rates (means).

  • samplesize.m Charles Kane's Sample Size MATLAB Suit. Needs samplesize.fig in the same directory.

  • ANOVA One and Two Way. Both Activities 10a and 10b are due Monday 11/5/2012, midnight.

    Activity 10a with data cryopreservation.xls or cryopreservation.mat .

    Activity 10b with data HL60xlsx or HL60.mat .

    HINT. If the interaction is present (p-value for the interaction < 0.05), do two one-way ANOVAs. Since cell type is of interest, fix the media and check for differences in distances for cells. For example:

    distance1 = distance(media == 1)

    cell1 = cell(media==1)

    anova1(distance1, cell1)

    and the same for media == 2.

  • Activity 11 with data hypertension.dat or hypertension.mat or hypertension.xlsx

  • Activity 12 with data pollution.dat or pollution.mat or pollution.xlsx. Start with script pollution.m.

  • Activity 13 Start with script MTT.m.

    Due before Final exam

  • Activity 14 Data set dmd.dat , dmd.mat , or dmd.xls.

    Due before Final exam

  • Activity 15 Start with script micronuclei.m.

    Due before Final exam

  • Activity 16

  • Activity 17

    Spring 2012

  • Activity 1 Desctiptive Statistics: Orientation of Stem Cells. Data set: gel.mat , or as Excel file gel.xlsx .

  • Activity 2 Multivariate Desctiptive Statistics: Multiconops. Data set: leptoconops.mat , or as Excel file leptoconops.xlsx .

  • Activity 3: Dose Finding Simulation

  • Activity 4: MATLAB and Distributions

  • Activity 5: Estimation

  • Activity 6: CI's on Se/Sp + Design a Sample Size

  • Activity 7: MCMC. Activity7Gibbs.m: Matlab implementation of MCMC. activity7.odc: WinBUGS code to be completed.

  • Activity 8: t-test. In class work on (a-b) only. The whole activity is also a part of your Quiz 5.

  • Activity 9: Midterm from Fall 2011. The activity is problem Cancer Therapy.

  • Activity 10: Midterm from Spring 2011. The activity is problem Count of Alpha Particles. Also, Midterm Fall 2010

  • Activity 11: ANOVA from BMED3610 project The data set for this activity is isoflavon.mat .

  • Activity 12: Drosophila: Multivariable Regression The data set for this activity is drosophila.mat .

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