**Total Record Count**

**Bivariate Fit of RecordCount By Sample Index**

![](media/image1.pct){width="5.75in" height="3.957638888888889in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

**Fit Mean DzState==0 Fit Mean DzState==1**

  ----------------------------------------- -----------------------------
  Mean                                      359634.2

  Std Dev \[RMSE\]                          8223.46

  Std Error                                 843.7092

  SSE                                       6.3568e9
  ----------------------------------------- -----------------------------

**[Notes]{.underline}:**

Mean/standard deviation of diseased cohort was 341728.3/31612.18 in
previous study.

## [Analysis of Raw QSTAR Ovarian Data]{.underline}

**Average/Mean of Raw Data Amplitude Values by Sample**

**Bivariate Fit of AvgRawAmp By Sample Index**

![](media/image1.pct){width="6.506944444444445in"
height="4.480555555555555in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

**Fit Mean DzState==0 Fit Mean DzState==1**

  ----------------------------------------- -----------------------------
  Mean                                      6.018522

  Std Dev \[RMSE\]                          1.040222

  Std Error                                 0.106724

  SSE                                       101.7137
  ----------------------------------------- -----------------------------

**Standard Deviation of Raw Data Amplitude Values**

**Bivariate Fit of SdAmp By Sample Index**

![](media/image1.pct){width="6.5in" height="5.638888888888889in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

Fit Mean DzState==0 Fit Mean DzState==1

  ----------------------------------------- -----------------------------
  Mean                                      14.44126

  Std Dev \[RMSE\]                          5.064807

  Std Error                                 0.519638

  SSE                                       2411.313
  ----------------------------------------- -----------------------------

**Sum of Raw Data Amplitude Values**

**Bivariate Fit of SumAmp By Sample Index**

![](media/image1.pct){width="6.5in" height="5.680555555555555in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

**Fit Mean DzState==0 Fit Mean DzState==1**

  ----------------------------------------- -----------------------------
  Mean                                      2171246

  Std Dev \[RMSE\]                          413557.3

  Std Error                                 42430.08

  SSE                                       1.608e13
  ----------------------------------------- -----------------------------

**First Quartile (25%) Raw Data Amplitude Values**

**Bivariate Fit of Q1 Amp (25%) By Sample Index**

![](media/image1.pct){width="6.5in" height="5.638888888888889in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

Fit Mean DzState==0 Fit Mean DzState==1

  ----------------------------------------- -----------------------------
  Mean                                      2.578947

  Std Dev \[RMSE\]                          0.593922

  Std Error                                 0.060935

  SSE                                       33.15789
  ----------------------------------------- -----------------------------

**Second Quartile (Median) Raw Data Amplitude Values**

**Bivariate Fit of Q2 Amp (Median) By Sample Index**

![](media/image1.pct){width="6.527777777777778in"
height="5.694444444444445in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"} **Fit Mean DzState==1**

Fit Mean DzState==0

  ----------------------------------------- -----------------------------
  Mean                                      4.157895

  Std Dev \[RMSE\]                          0.789772

  Std Error                                 0.081029

  SSE                                       58.63158
  ----------------------------------------- -----------------------------

**Third Quartile (75%) Raw Data Amplitude Values**

**Bivariate Fit of Q3 Amp (75%) By Sample Index**

![](media/image1.pct){width="6.5in" height="5.694444444444445in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

**Fit Mean DzState==0 Fit Mean DzState==1**

  ----------------------------------------- -----------------------------
  Mean                                      6.336842

  Std Dev \[RMSE\]                          1.087751

  Std Error                                 0.111601

  SSE                                       111.2211
  ----------------------------------------- -----------------------------

**Average/mean of normalized amp (nlAmp) values per mass species,
generated by avg amp values**

**Bivariate Fit of nlAmpAvg By Sample Index**

![](media/image1.pct){width="6.174305555555556in" height="5.1375in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

Fit Mean DzState==0

  ----------------------------------------- -----------------------------
  Mean                                      0.466002

  Std Dev \[RMSE\]                          0.122341

  Std Error                                 0.012552

  SSE                                       1.406935
  ----------------------------------------- -----------------------------

Fit Mean DzState==1

  ----------------------------------------- -----------------------------
  Mean                                      0.377432

  Std Dev \[RMSE\]                          0.128193

  Std Error                                 0.011074

  SSE                                       2.185641
  ----------------------------------------- -----------------------------

**Average/mean of normalized amp (nlAmp) values per mass species,
generated by the sum amp values**

**Bivariate Fit of nlAmpSum By Sample Index**

![](media/image1.pct){width="6.166666666666667in"
height="5.319444444444445in"}

![](media/image2.pct){width="2.013888888888889in"
height="0.5694444444444444in"}

Fit Mean DzState==0

  ----------------------------------------- -----------------------------
  Mean                                      0.497967

  Std Dev \[RMSE\]                          0.118671

  Std Error                                 0.012175

  SSE                                       1.323786
  ----------------------------------------- -----------------------------

Fit Mean DzState==1

  ----------------------------------------- -----------------------------
  Mean                                      0.411424

  Std Dev \[RMSE\]                          0.12705

  Std Error                                 0.010975

  SSE                                       2.146855
  ----------------------------------------- -----------------------------

**[Notes:]{.underline}**

New plot (not prev seen).

**QStar Ovarian**

**Total number of records per sample**

**Colored by run date (green=day1, red=day2, blue=day3)**

**Bivariate Fit of recordct By index**

![](media/image1.pct){width="6.34375in" height="3.9479166666666665in"}

![](media/image3.pct){width="1.4895833333333333in"
height="0.4270833333333333in"}

Fit Mean dzstate==0

  ----------------------------------------- -----------------------------
  Mean                                      359634.2

  Std Dev \[RMSE\]                          8223.46

  Std Error                                 843.7092

  SSE                                       6.3568e9
  ----------------------------------------- -----------------------------

Fit Mean dzstate==1

  ----------------------------------------- -----------------------------
  Mean                                      341728.3

  Std Dev \[RMSE\]                          31612.18

  Std Error                                 2564.087

  SSE                                       1.509e11
  ----------------------------------------- -----------------------------

####### NIST SRM Standard

**Control charting**

**Processed on QSTAR:**

##### Note: Mean = Red line; Best Fit = Green Line; Dot colors per Spot Number

**Bivariate Fit of MeanAmp By Index**

![](media/image1.pct){width="6.96875in" height="5.270833333333333in"}

![](media/image4.pct){width="0.875in" height="0.4270833333333333in"}

Fit Mean

  ----------------------------------------- -----------------------------
  Mean                                      4.918102

  Std Dev \[RMSE\]                          1.040538

  Std Error                                 0.173423

  SSE                                       37.8952
  ----------------------------------------- -----------------------------

**NIST, QSTAR, Stdev**

**Color scheme same as above**

**Bivariate Fit of StdevAmp By Index**

![](media/image1.pct){width="5.458333333333333in"
height="4.354166666666667in"}

![](media/image4.pct){width="0.875in" height="0.4270833333333333in"}

Fit Mean

  ----------------------------------------- -----------------------------
  Mean                                      4.934483

  Std Dev \[RMSE\]                          1.354156

  Std Error                                 0.225693

  SSE                                       64.18089
  ----------------------------------------- -----------------------------

**NIST, QSTAR, SumAmp**

**Same color scheme**

**Bivariate Fit of SumAmp By Index**

![](media/image1.pct){width="6.302083333333333in" height="5.03125in"}

![](media/image4.pct){width="0.875in" height="0.4270833333333333in"}

Fit Mean

  ----------------------------------------- -----------------------------
  Mean                                      1771965

  Std Dev \[RMSE\]                          416985.3

  Std Error                                 69497.55

  SSE                                       6.086e12
  ----------------------------------------- -----------------------------

**NIST, QSTAR**

#### *Colors by Lot Number*

**Bivariate Fit of SumAmp By Index**

![](media/image1.pct){width="6.302083333333333in" height="5.03125in"}

![](media/image4.pct){width="0.875in" height="0.4270833333333333in"}

Fit Mean

  ----------------------------------------- -----------------------------
  Mean                                      1771965

  Std Dev \[RMSE\]                          416985.3

  Std Error                                 69497.55

  SSE                                       6.086e12
  ----------------------------------------- -----------------------------

**NIST, QSTAR**

##### Colors by Run Date

###### Bivariate Fit of SumAmp By Index

![](media/image1.pct){width="6.302083333333333in" height="5.03125in"}

![](media/image4.pct){width="0.875in" height="0.4270833333333333in"}

Fit Mean

  ----------------------------------------- -----------------------------
  Mean                                      1771965

  Std Dev \[RMSE\]                          416985.3

  Std Error                                 69497.55

  SSE                                       6.086e12
  ----------------------------------------- -----------------------------

**QStar NIST**

**Total number of records per sample**

**Colored by run date (green=day1, red=day2, blue=day3)**

**Bivariate Fit of recordct By sampleid**

![](media/image1.pct){width="6.552083333333333in"
height="4.229166666666667in"}

![](media/image5.pct){width="0.8645833333333334in"
height="0.2604166666666667in"}

Fit Mean

  ----------------------------------------- -----------------------------
  Mean                                      358034.1

  Std Dev \[RMSE\]                          12257.47

  Std Error                                 2042.911

  SSE                                       5.2586e9
  ----------------------------------------- -----------------------------