Graphical Display Methods for Exploiting the Dimensionality of Flow Cytometry Data Open Access

Scarberry, Meredith Nicole (2009)

Permanent URL: https://etd.library.emory.edu/concern/etds/vx021f570?locale=en
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Abstract

Flow cytometry is an emerging technology that measures characteristics of
particles, such as blood cells, as they flow in a stream through a beam of light. This
procedure is capable of producing data measurements on many variables simultaneously.
In the past, scientists have limited their focus to a small subset of the data recorded by the
flow cytometer to ease the tasks of understanding and analyzing the data. I propose the
use of radar charts, windrose charts, star charts, and pie charts for visualizing such data.
Flow cytometry data from the Protective Immunity Project (NIH NO1-AI-50025, PI: C.
Larsen) is presented to exemplify the graphical displays. I discuss the adherence of the
proposed graphics to principles of data visualization proposed by experts in the field and
assess the effectiveness of each plot for conveying the intended information.

Table of Contents

Table of Contents

Introduction..................................................................................1
Background...................................................................................1
Flow Cytometry..............................................................................1
Multidimensional Graphics.................................................................2
Principles of Data Visualization..........................................................4
The Protective Immunity Project.......................................................5
Blood Composition..........................................................................7
Compositional Data.........................................................................8
Application....................................................................................9
Methods.......................................................................................9
Results.......................................................................................12
Discussion...................................................................................30
References..................................................................................34


Tables and Figures

Tables
1. Compositional means for subset 1 data..........................................................19

Figures
1. Hierarchy of blood cell types in PIP dataset......................................................7
2. Tiled patient radar charts for baseline subset 1 data.........................................14
3. Radar chart for patient 13............................................................................16
4. Windrose chart for patient 13 at baseline........................................................17
5. Star chart for patient 13 at baseline..............................................................18
6. Radar chart of compositional means with each time point overlaid........................20
7. Windrose chart of component means at baseline...............................................21
8. Star chart of component means at baseline.....................................................22
9. Tiled patient radar charts for baseline data showing composition of T helper cells...24
10. Radar chart of T helper cell composition for patient 13 with plots for each time
point overlaid.................................................................................................25
11. Star chart for patient 13 at baseline showing composition of T helper cells...........26
12. Radar chart of mean T helper cell components with data from each time point
overlaid.........................................................................................................27
13. Star chart of mean T helper cell components at baseline...................................27
14. Pie chart of central memory T cells for patient 13 at baseline.............................29
15. Pie chart of mean central memory T cells at baseline........................................29

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