Table I

List of 20 selected fractions and their reactivity against patient sera

Fifteen fractions were initially selected as highly reactive against the anti-PGP9.5 antibody; the selection was based in their greater reactivity against the antibody relative to sera (PGP9.5/normal ratio >100, second column). A focused analysis in that region that considered only a subset of fractions, added five more cases to the list of candidates; those fractions exhibited p values < 0.05 (third column) and fold changes >1.5 (fourth column). In addition, a subsequent MS/MS analysis (results summarized in the fifth column) probed that 4 of those 20 fractions did contain the PGP9.5 antigen as a constituent protein (UCH-L1). The next four columns depict the reactivity of the selected fractions when the microarray was incubated with 14 sera from lung cancer patients compared with 14 samples from colon cancer, and 14 normal sera.

Fraction namePGP/normal ratio (minimum 100)p (PGP vs normal) (p < 0.05)Fold change (PGP vs normal) (FC > 1.5)MS-MSp (lung vs. normal) (p < 0.05)No. positive lung sera patients (of 14 patients)No. positive colon sera patients (of 14 patients)No. positive normal sera (of 14 patients)One-dimensional fraction no.Two-dimensional fraction no.pH% acetonitrile
0139218.71NSNSNS0.03343101390.0–2.056.5–56.0
0637120.371.789E-031.8990.01544306374.6–5.057.5–57.0
0639399.808.663E-055.9430.01544406394.6–5.056.5–56.0
0640405.191.136E-0323.789P099360.00117506404.6–5.056.0–55.5
0641269.091.299E-049.4330.03343406414.6–5.055.5–55.0
0733NS1.376E-043.1730.01544507335.1–5.559.5–59.0
0734NS2.128E-032.5550.03343307345.1–5.559.0–58.5
0739NS3.853E-0534.922P099360.03343207395.1–5.556.5–56.0
0740NS5.441E-045.3900.01544107405.1–5.556.0–55.5
0741156.671.491E-031.6870.03343107415.1–5.555.5–55.0
0742340.13NSNS0.03343107425.1–5.555.0–54.5
0839102.00NSNS0.00685608395.6–6.056.5–56.0
0840214.245.868E-031.7190.00296608405.6–6.056.0–55.5
0841392.616.235E-054.586P099360.03343308415.6–6.055.5–55.0
0842301.684.643E-053.3330.01544208425.6–6.055.0–54.5
0843NS5.750E-031.5480.00685308435.6–6.054.5–54.0
0939214.504.802E-043.258P099360.01544209396.1–6.556.5–56.0
0940229.60NSNS0.03343109406.1–6.556.0–55.5
0941292.94NSNS0.03343109416.1–6.555.5–55.0
0942123.73NSNS0.15431109426.1–6.555.0–54.5
  • NS, nonsignificant fractions according to the criteria stipulated in the headings; P09936, UBL1 protein, ubiquitin carboxyl-terminal hydrolase isozyme L1 (UCH-L1); −, UBL1 not detected.