9-30-11_Vt_pCO2_VtpR_16S_expression.pcrd
9/30/2011 6:00 PM
Report Information
User: BioRad/Robyn
Data File Name: 9-30-11_Vt_pCO2_VtpR_16S_expression.pcrd
Data File Path: C:\Documents and Settings\mx3000 user\Desktop\Elene
Well Group Name: All Wells
Report Differs from Last Save: No
Run Setup
Run Information
Run User: Robyn
Run Date: 9/30/2011 3:47 PM
ID:
Notes:
Sample Volume: 25
Temperature Control Mode: Calculated
Lid Temperature: 105
Base Serial Number: CC009827
Optical Head Serial Number: 785BR3659
Protocol
1: 95.0°C for 7:00
2: 95.0°C for 0:10
3: 55.0°C for 0:20
Plate Read
4: GOTO 2, 39 more times
5: Melt Curve 75.0°C to 95.0°C : Increment 0.2°C 0:15
Plate Read
Plate Display
1
2
3
4
5
6
7
8
9
10
11
12
A
Unk
VtpR
amb124
Unk
VtpR
amb124
Unk
VtpR
amb1end
Unk
VtpR
amb1end
Unk
16S
amb124
Unk
16S
amb124
Unk
16S
amb1end
Unk
16S
amb1end
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
B
Unk
VtpR
amb224
Unk
VtpR
amb224
Unk
VtpR
amb2end
Unk
VtpR
amb2end
Unk
16S
amb224
Unk
16S
amb224
Unk
16S
amb2end
Unk
16S
amb2end
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
C
Unk
VtpR
amb324
Unk
VtpR
amb324
Unk
VtpR
amb3end
Unk
VtpR
amb3end
Unk
16S
amb324
Unk
16S
amb324
Unk
16S
amb3end
Unk
16S
amb3end
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
1
2
3
4
5
6
7
8
9
10
11
12
D
Unk
VtpR
2000124
Unk
VtpR
2000124
Unk
VtpR
20001end
Unk
VtpR
20001end
Unk
16S
2000124
Unk
16S
2000124
Unk
16S
20001end
Unk
16S
20001end
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
E
Unk
VtpR
2000224
Unk
VtpR
2000224
Unk
VtpR
20002end
Unk
VtpR
20002end
Unk
16S
2000224
Unk
16S
2000224
Unk
16S
20002end
Unk
16S
20002end
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
F
Unk
VtpR
2000324
Unk
VtpR
2000324
Unk
VtpR
20003end
Unk
VtpR
20003end
Unk
16S
2000324
Unk
16S
2000324
Unk
16S
20003end
Unk
16S
20003end
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
G
Unk
VtpR
Unk
VtpR
Unk
VtpR
Unk
VtpR
Unk
16S
Unk
16S
Unk
16S
Unk
16S
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
H
Pos
VtpR
Pos
VtpR
Neg
VtpR
Neg
VtpR
Pos
16S
Pos
16S
Neg
16S
Neg
16S
Unk
SYBR
Unk
SYBR
Unk
SYBR
Unk
SYBR
Quantification
Step #: 3
Analysis Mode: Fluorophore
Cq Determination: Single Threshold
Baseline Method:
SYBR: Auto Calculated
Threshold Setting:
SYBR: 771.08, Auto Calculated
Quantification Data
Well Fluor Target Content
Sample
Cq
A05 SYBR
amb1-24
N/A
16S
Unkn
Cq
Cq
Mean Std.
Dev
0.00
0.000
Well Fluor Target Content
Sample
Cq
Cq
Cq
Mean Std.
Dev
A06 SYBR
16S
Unkn
amb1-24
N/A
0.00
0.000
A07 SYBR
16S
Unkn
amb1-end
N/A
0.00
0.000
A08 SYBR
16S
Unkn
amb1-end
N/A
0.00
0.000
B05 SYBR
16S
Unkn
amb2-24
39.88 39.88 0.000
B06 SYBR
16S
Unkn
amb2-24
N/A
0.00
0.000
B07 SYBR
16S
Unkn
amb2-end
N/A
0.00
0.000
B08 SYBR
16S
Unkn
amb2-end
N/A
0.00
0.000
C05 SYBR
16S
Unkn
amb3-24
N/A
0.00
0.000
C06 SYBR
16S
Unkn
amb3-24
N/A
0.00
0.000
C07 SYBR
16S
Unkn
amb3-end
N/A
0.00
0.000
C08 SYBR
16S
Unkn
amb3-end
N/A
0.00
0.000
D05 SYBR
16S
Unkn
20001-24
N/A
0.00
0.000
D06 SYBR
16S
Unkn
20001-24
N/A
0.00
0.000
D07 SYBR
16S
Unkn
20001-end N/A
0.00
0.000
D08 SYBR
16S
Unkn
20001-end N/A
0.00
0.000
E05 SYBR
16S
Unkn
20002-24
N/A
0.00
0.000
E06 SYBR
16S
Unkn
20002-24
N/A
0.00
0.000
E07 SYBR
16S
Unkn
20002-end N/A
0.00
0.000
E08 SYBR
16S
Unkn
20002-end N/A
0.00
0.000
F05 SYBR
16S
Unkn
20003-24
N/A
0.00
0.000
F06 SYBR
16S
Unkn
20003-24
N/A
0.00
0.000
F07 SYBR
16S
Unkn
20003-end N/A
0.00
0.000
F08 SYBR
16S
Unkn
20003-end N/A
0.00
0.000
G05 SYBR
16S
Unkn
N/A
0.00
0.000
G06 SYBR
16S
Unkn
N/A
0.00
0.000
G07 SYBR
16S
Unkn
N/A
0.00
0.000
G08 SYBR
16S
Unkn
N/A
0.00
0.000
H05 SYBR
16S
Pos Ctrl
N/A
0.00
0.000
H06 SYBR
16S
Pos Ctrl
N/A
0.00
0.000
H07 SYBR
16S
Neg Ctrl
N/A
0.00
0.000
H08 SYBR
16S
Neg Ctrl
N/A
0.00
0.000
A01 SYBR
VtpR
Unkn
A02 SYBR
VtpR
A03 SYBR
VtpR
A04 SYBR
amb1-24
35.79 35.79 0.000
Unkn
amb1-24
35.56 35.56 0.000
Unkn
amb1-end 39.08 39.08 0.000
VtpR
Unkn
amb1-end 39.64 39.64 0.000
B01 SYBR
VtpR
Unkn
amb2-24
39.01 39.01 0.000
B02 SYBR
VtpR
Unkn
amb2-24
38.44 38.44 0.000
B03 SYBR
VtpR
Unkn
amb2-end
N/A
0.00
0.000
B04 SYBR
VtpR
Unkn
amb2-end
N/A
0.00
0.000
C01 SYBR
VtpR
Unkn
amb3-24
38.68 38.68 0.000
C02 SYBR
VtpR
Unkn
amb3-24
39.20 39.20 0.000
C03 SYBR
VtpR
Unkn
amb3-end
N/A
0.00
0.000
C04 SYBR
VtpR
Unkn
amb3-end
N/A
0.00
0.000
D01 SYBR
VtpR
Unkn
20001-24 37.98 37.98 0.000
D02 SYBR
VtpR
Unkn
20001-24 37.53 37.53 0.000
D03 SYBR
VtpR
Unkn
20001-end 39.03 39.03 0.000
D04 SYBR
VtpR
Unkn
20001-end 38.36 38.36 0.000
E01 SYBR
VtpR
Unkn
20002-24 37.47 37.47 0.000
E02 SYBR
VtpR
Unkn
20002-24 37.13 37.13 0.000
Well Fluor Target Content
Sample
Cq
Cq
Cq
Mean Std.
Dev
E03 SYBR
VtpR
Unkn
20002-end 37.70 37.70 0.000
E04 SYBR
VtpR
Unkn
20002-end 37.22 37.22 0.000
F01 SYBR
VtpR
Unkn
20003-24 39.85 39.85 0.000
F02 SYBR
VtpR
Unkn
20003-24 38.04 38.04 0.000
F03 SYBR
VtpR
Unkn
20003-end 39.13 39.13 0.000
20003-end 38.46 38.46 0.000
F04 SYBR
VtpR
Unkn
G01 SYBR
VtpR
Unkn
N/A
0.00
0.000
G02 SYBR
VtpR
Unkn
N/A
0.00
0.000
G03 SYBR
VtpR
Unkn
N/A
0.00
0.000
G04 SYBR
VtpR
Unkn
N/A
0.00
0.000
H01 SYBR
VtpR
Pos Ctrl
29.86 29.86 0.000
H02 SYBR
VtpR
Pos Ctrl
31.17 31.17 0.000
H03 SYBR
VtpR
Neg Ctrl
N/A
0.00
0.000
H04 SYBR
VtpR
Neg Ctrl
N/A
0.00
0.000
A09 SYBR
Unkn
N/A
0.00
0.000
A10 SYBR
Unkn
N/A
0.00
0.000
A11 SYBR
Unkn
N/A
0.00
0.000
A12 SYBR
Unkn
N/A
0.00
0.000
B09 SYBR
Unkn
N/A
0.00
0.000
B10 SYBR
Unkn
N/A
0.00
0.000
B11 SYBR
Unkn
N/A
0.00
0.000
B12 SYBR
Unkn
N/A
0.00
0.000
C09 SYBR
Unkn
N/A
0.00
0.000
C10 SYBR
Unkn
N/A
0.00
0.000
C11 SYBR
Unkn
N/A
0.00
0.000
C12 SYBR
Unkn
N/A
0.00
0.000
D09 SYBR
Unkn
N/A
0.00
0.000
D10 SYBR
Unkn
N/A
0.00
0.000
D11 SYBR
Unkn
N/A
0.00
0.000
D12 SYBR
Unkn
N/A
0.00
0.000
E09 SYBR
Unkn
N/A
0.00
0.000
E10 SYBR
Unkn
N/A
0.00
0.000
E11 SYBR
Unkn
N/A
0.00
0.000
E12 SYBR
Unkn
N/A
0.00
0.000
F09 SYBR
Unkn
N/A
0.00
0.000
F10 SYBR
Unkn
N/A
0.00
0.000
F11 SYBR
Unkn
N/A
0.00
0.000
F12 SYBR
Unkn
N/A
0.00
0.000
G09 SYBR
Unkn
N/A
0.00
0.000
G10 SYBR
Unkn
N/A
0.00
0.000
G11 SYBR
Unkn
N/A
0.00
0.000
G12 SYBR
Unkn
N/A
0.00
0.000
H09 SYBR
Unkn
N/A
0.00
0.000
H10 SYBR
Unkn
N/A
0.00
0.000
H11 SYBR
Unkn
N/A
0.00
0.000
H12 SYBR
Unkn
N/A
0.00
0.000
Gene Expression
Normalized expression analysis is not possible, the following reference targets contain samples with no Cq values:
16S.
Target Names
Name
Full Reference
Auto
Efficiency
Name
Efficiency
16S
16S
VtpR VtpR
True
Yes
100.0%
False
Yes
100.0%
Sample Names
Name
20001-24
Full Name Control
20001-24
No
20001-end 20001-end
No
20002-24
20002-24
No
20002-end 20002-end
No
20003-24
20003-24
No
20003-end 20003-end
No
amb1-24
amb1-24
No
amb1-end amb1-end
No
amb2-24
amb2-24
No
amb3-24
amb3-24
No
Gene Expression Data
Da T Sam C Rel
ta a ple t ativ
Set r
r e
g
l Qu
et
anti
ty
Rel
ativ
e
Qu
anti
ty
SD
Corr
ected
Relat
ive
Qua
ntity
SD
Rel
ativ
e
Qu
anti
ty
SE
M
Corr Unsca Unsca Corre
ected led
led
cted
Relat Expre Expre Unsca
ive ssion ssion led
Qua
SD Expre
ntity
ssion
SEM
SD
Unsca
led
Expre
ssion
SEM
Corre Expre Expre Corre Expre Corre WM
cted ssion ssion cted ssion cted e e
Unsca
SD Expre SEM Expre l a
led
ssion
ssion l n
Expre
SD
SEM s C
ssion
q
SEM
C C
q q
S SE
D M
1- 1 2000 0.00 0.00 0.000 N/A N/A
SY 6 1-24 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 2000 0.00 0.00 0.000 N/A N/A
SY 6 1000 000 00
BR S end
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 2000 0.00 0.00 0.000 N/A N/A
SY 6 2-24 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 2000 0.00 0.00 0.000 N/A N/A
SY 6 2000 000 00
BR S end
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 2000 0.00 0.00 0.000 N/A N/A
SY 6 3-24 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 2000 0.00 0.00 0.000 N/A N/A
SY 6 3000 000 00
BR S end
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 amb1 0.00 0.00 0.000 N/A N/A
SY 6 -24 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
Da T Sam C Rel
ta a ple t ativ
Set r
r e
g
l Qu
et
anti
ty
Rel
ativ
e
Qu
anti
ty
SD
Corr
ected
Relat
ive
Qua
ntity
SD
Rel
ativ
e
Qu
anti
ty
SE
M
Corr Unsca Unsca Corre
ected led
led
cted
Relat Expre Expre Unsca
ive ssion ssion led
Qua
SD Expre
ntity
ssion
SEM
SD
1- 1 amb1 0.00 0.00 0.000 N/A N/A
SY 6 -end 000 000 00
BR S
Unsca
led
Expre
ssion
SEM
Corre Expre Expre Corre Expre Corre WM
cted ssion ssion cted ssion cted e e
Unsca
SD Expre SEM Expre l a
led
ssion
ssion l n
Expre
SD
SEM s C
ssion
q
SEM
C C
q q
S SE
D M
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 amb2 1.00 0.00 0.000 0.00 0.000 N/A
SY 6 -24 000 000 00 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 1 3
9
.
8
8
1- 1 amb2 0.00 0.00 0.000 N/A N/A
SY 6 -end 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 amb3 0.00 0.00 0.000 N/A N/A
SY 6 -24 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- 1 amb3 0.00 0.00 0.000 N/A N/A
SY 6 -end 000 000 00
BR S
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- V 2000 0.23 0.05 0.051 0.03 0.036 N/A
SY tp 1-24 642 123 23 622 22
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
7
.
7
6
0.
31
25
9
0.
22
10
4
1- V 2000 0.12 0.04 0.040 0.02 0.028 N/A
SY tp 1305 050 50 864 64
BR R end
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
8
.
7
0
0.
47
48
7
0.
33
57
8
1- V 2000 0.32 0.05 0.054 0.03 0.038 N/A
SY tp 2-24 477 437 37 844 44
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
7
.
3
0
0.
24
15
2
0.
17
07
8
1- V 2000 0.29 0.06 0.069 0.04 0.048 N/A
SY tp 2011 923 23 895 95
BR R end
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
7
.
4
6
0.
34
42
5
0.
24
34
2
1- V 2000 0.10 0.09 0.092 0.06 0.065 N/A
SY tp 3-24 375 220 20 520 20
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
8
.
9
4
1.
28
21
2
0.
90
65
9
1- V 2000 0.11 0.03 0.037 0.02 0.026 N/A
SY tp 3531 778 78 672 72
BR R end
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
8
.
7
9
0.
47
27
1
0.
33
42
6
1- V amb1 1.00 0.11 0.115 0.08 0.081 N/A
SY tp -24 000 563 63 176 76
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
5
.
6
8
0.
16
68
1
0.
11
79
5
0.
00
00
0
0.
00
00
0
Da T Sam C Rel
ta a ple t ativ
Set r
r e
g
l Qu
et
anti
ty
Rel
ativ
e
Qu
anti
ty
SD
Corr
ected
Relat
ive
Qua
ntity
SD
Rel
ativ
e
Qu
anti
ty
SE
M
Corr Unsca Unsca Corre
ected led
led
cted
Relat Expre Expre Unsca
ive ssion ssion led
Qua
SD Expre
ntity
ssion
SEM
SD
Unsca
led
Expre
ssion
SEM
Corre Expre Expre Corre Expre Corre WM
cted ssion ssion cted ssion cted e e
Unsca
SD Expre SEM Expre l a
led
ssion
ssion l n
Expre
SD
SEM s C
ssion
q
SEM
C C
q q
S SE
D M
1- V amb1 0.07 0.02 0.021 0.01 0.015 N/A
SY tp -end 792 147 47 518 18
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
9
.
3
6
0.
39
74
5
0.
28
10
4
1- V amb2 0.12 0.03 0.033 0.02 0.023 N/A
SY tp -24 085 361 61 376 76
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
8
.
7
2
0.
40
12
1
0.
28
36
9
1- V amb2 0.00 0.00 0.000 N/A N/A
SY tp -end 000 000 00
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
1- V amb3 0.10 0.02 0.026 0.01 0.018 N/A
SY tp -24 419 669 69 887 87
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 2 3
8
.
9
4
1- V amb3 0.00 0.00 0.000 N/A N/A
SY tp -end 000 000 00
BR R
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A
N/A 0 N 0. N/
/ 00 A
A 00
0
N/A
0.
36
95
4
0.
26
13
1
QC Parameters
Description
Value Use
Results
Exclude
All
Wells excluded
wells
Negative control with a Cq less than
38
True
False
NTC with a Cq less than
38
True
False
NRT with a Cq less than
38
True
False
Positive control with a Cq greater than
30
True
Unknown without a Cq
N/A
True SYBR:A5, A6, A7, A8, A9, A10, A11, A12, B3, B4, B6, B7,
B8, B9, B10, B11, B12, C3, C4, C5, C6, C7, C8, C9, C10,
C11, C12, D5, D6, D7, D8, D9, D10, D11, D12, E5, E6, E7,
E8, E9, E10, E11, E12, F5, F6, F7, F8, F9, F10, F11, F12,
G1, G2, G3, G4, G5, G6, G7,
False
Standard without a Cq
N/A
True
False
Efficiency greater than
110.0 True
Efficiency less than
Std Curve R^2 less than
Replicate group Cq Std Dev greater than
90.0
SYBR:H2.
False
True
0.980 True
0.20
True
False