Transcript Introduction to Flow Cytometry

Introduction to Flow Cytometry
IGC Workshop
Fundamentals of Flow Cytometry (cont.)
IGC – April 02, 2013
The Instrument
2
Filters
Blocked
FilteredFilteredBlocked
BP
LP::Band
Long Pass
Pass Filter
Filter
530> /500
60
4
Filters
5
Optical Layout
6
Detection
PMT
Photo Multiplier Tube
PMT’s collect photons that are then converted into voltage signals
8
Pulse
Flowing Stream
Voltage pulse
Laser
9
Pulse Parameters
W
H
H:
A
A:
W:
10
Height vs Area
H
A
H
A
For non spherical cells, Height (FL-H) is not an adequate
parameter to analyze
Area (FL-A) is the most adequate. However, we still need to
remove doublets from the analysis...
11
Doublet Discrimination
W
2W
W
2H
H
2A
doublets
2A
FL-H
A
FL-W
H
Single cells
FL-A
FL-A
12
Threshold
Forward Scatter Threshold
H
W
Threshold
Time
Small Cells
and debris
Cells of Interest
13
Histograms
9574
Cell Count
Counts
7180
4787
2393
0
100
101
102
FL1 Log
Fluorescence
Fluorescence
in a cell
103
104
What are those dots?
Gating
Common Gate Shapes
Logical Gating
AND, OR, NOT
17
Gating
Positive or Negative?
A “positive” cell or event is that which falls outside the “negative” gate.
Neg
Pos
18
Back Gating
Back gating a positive population can enrich the population of interest and
help identify it correctly
CD4 FITC
Lymphocytes
CD4CD4+
19
Dot vs Countour Plots
Dot Plots
Contour and Density Plots
20
Logarithmic or Linear?
Anti-CD4-labeled antibody
Signals vary >100-fold
Use Log scale
Linear
Log
DNA-labeling dye
Signals vary 2- to 10-fold
Use Linear scale
Linear
Log
21
Acquisition
How many cells should I acquire?
Counting cells follows Poisson statistics:
cv % =
1
Precision
cv % =
sd
x 100
mean
x 100
N
N is the number of cells counted
Example:
Population of interest is 1% of total population and want 5% precision
1002
10,000
N=
=
= 400
(cv %)2
25
40,000
Number of cells to be counted
in the region of interest
Number of total cells
to be counted
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Analysis Software
FlowJo X
VenturiOne
CellQuest
Summit
FCSExpress
Kaluza
FACSDiva
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Analysis Software
Commercial Analysis Software:
Open Source or Free software:
FlowJo X (TreeStar) - Site License @ IGC
Summit (Beckman Coulter)
CellQuest/Pro (BD) - 3 Licenses @ IGC
FlowCore (R/Bioconductor)
FACSDiva (BD) - 2 Licenses @ IGC
Weasel
VenturiOne (Applied Cytometry)
Flowing Software
FCS Express (De Novo Software)
Attune Software (Life Technologies)
GemStone (Verity Software)
FCS Express (De Novo Software)
WinList (Verity Software)
Cyflogic
ModFit LT (Verity Software)
FlowLogic (Inivai)
Plate Analyzer Softwares
Kaluza (Beckman Coulter)
Plate Analyzer (Free – Purdue University)
Guava Software (Merck-Millipore)
Hyperview (Commercial – Intellicyt)
FACSDiva (Commercial – BD)
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Introduction to Flow Cytometry
IGC Workshop
Fundamentals of Flow Cytometry (end)
IGC – April 02, 2013