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Serum sample handling

Serum sample handling. Stanford Group A Samples. Immediately freeze. Stanford Blood. Stanford Serum Samples. freeze. Stanford Group B Samples. Blood samples were allowed to clot at R.T for 1 hour, and centrifuged to get sera. Kept @ R.T for 7 days. CA State Blood. CA State Serum

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Serum sample handling

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  1. Serum sample handling Stanford Group A Samples Immediately freeze Stanford Blood Stanford Serum Samples freeze Stanford Group B Samples Blood samples were allowed to clot at R.T for 1 hour, and centrifuged to get sera Kept @ R.T for 7 days CA State Blood CA State Serum Samples CA State Samples Kept @ R.T for variable length of time up to 7 days freeze

  2. 30 Total # of feature: 562 20 Density 10 0.0 0.0 0.2 0.4 0.6 0.8 1.0 ANOVA P value

  3. 10 Stanford Group B vs. A Stanford Group A vs. CA State Stanford Group B vs. CA State 8 6 Density 4 2 0 0.0 0.2 0.4 0.6 0.8 1.0 0.0 0.2 0.4 0.6 0.8 1.0 0.0 0.2 0.4 0.6 0.8 1.0 Tukey HSD P value between sub groups

  4. Distribution of DCV of each feature Distribution of CV of each feature 4.0 2.0 3.0 1.0 2.0 0.0 1.0 -1.0 0.0 -2.0 Stanford B – CA State Stanford Group B – A Stanford Group A – CA State Stanford Group A Stanford Group B CA State

  5. CA State Stanford Group A Stanford Group B

  6. Stanford Group A Stanford Group B Stanford Group A Stanford Group B CA State CA State 600 500 400 300 200 100 ALB – MW 66224 APOC1 – MW 6629 000 600 CO3 – MW 8125 TF – MW 78284 500 400 300 200 100 000

  7. Urine sample handling 5 X Day 1 Day 2 Day 3 Day 4 Day 5 1 Process 2 R.T. Process Pool 5 individual urine samples Split into 6 identical samples 3 R.T. Process 4 R.T. Process 5 R.T. Process 6 Receive FEDEX Transit Process

  8. Total # of feature: 100737 1.5 1.0 Density 0.5 0.0 0.0 0.2 0.4 0.6 0.8 1.0 ANOVA P value

  9. 12 10 8 6 4 2 0 0.0 0.0 0.0 0.0 0.2 0.2 0.2 0.2 0.4 0.4 0.4 0.4 0.6 0.6 0.6 0.6 0.8 0.8 0.8 0.8 1.0 1.0 1.0 1.0 Day 2 vs. Day 1 Day 3 vs. Day 1 Day 4 vs. Day 1 Day 5 vs. Day 1 FEDEX vs. Day 1 Density 0.0 0.2 0.4 0.6 0.8 1.0 Tukey HSD P value between sub groups

  10. Distribution of DCV of each feature Distribution of CV of each feature 2.0 2.0 1.5 1.0 1.0 0.0 0.5 -1.0 0.0 -2.0 Day 1 Day 2 Day 3 Day 4 Day 5 FEDEX Day 2 - Day 1 Day 3 - Day 1 Day 4 - Day 1 Day 5 - Day 1 FEDEX - Day 1

  11. Day 1 Day 2 Day 3 Day 4 Day 5 FEDEX

  12. Case study of THP peptides • THP 982.59 VLNLGPITR • THP 1047.48 SGSVIDQSRV • THP 1211.66 DQSRVLNLGPI • THP 1225.69 SRVLNLGPITR • THP 1324.76 IDQSRVLNLGPI • THP 1423.83 VIDQSRVLNLGPI • THP 1468.82 DQSRVLNLGPITR • THP 1510.87 SVIDQSRVLNLGPI • THP 1567.91 GSVIDQSRVLNLGPI • THP 1581.91 IDQSRVLNLGPITR • THP 1654.91 SGSVIDQSRVLNLGPI • THP 1680.98 VIDQSRVLNLGPITR • THP 1755.96 SGSVIDQSRVLNLGPIT • THP 1768.01 SVIDQSRVLNLGPITR • THP 1912.07 SGSVIDQSRVLNLGPITR • THP 2040.16 SGSVIDQSRVLNLGPITRK

  13. 5. 9. 13. 1. 6. 10. 14. 2. 7. 11. 15. 3. 8. 12. 16. 4.

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