Table 2.

COL3A1 peptides mapping to image data used for comparison between tumor and non-tumor (where non-tumor is prostatic intraepithelial neoplasia, PIN). Peptide peak intensities were extracted from area of pathology annotation (tumor n=11; inflammation n= 4; PIN =5). Precursor mass error under 3 parts per million (PPM) was used to match between high mass accuracy chromatography sequences and the high mass accuracy image data.

Collagen α−1(III) chain (COL3A1)
Sequencea	Modifiedb	AA position	Peptide Scorec	Theoretical M+H	Observed m/z	Mass Error (PPM)	PIN/Tumor Ratio	p-valued
GPRGERGEA	None	444–452	121.6	928.4595	928.4620	−2.7	2.98 ± 0.13	0.054
GKSGDRGESGPA	None	1059–1070	168.6	1117.5232	1117.5246	−1.3	1.96 ± 0.09	0.280
GGPGADGVPGKDGPR	None	747–761	237.5	1336.6604	1336.6574	2.2	3.25 ± 0.10	0.002
GRP(1)GERGLP(1)	239;245	237–245	170.1	970.5056	970.5037	2.0	4.38 ± 0.18	0.022
GRDGNPGSDGLP(1)	1022	1011–1022	130.1	1157.5182	1157.5145	2.8	2.85 ± 0.14	0.145
GSP(1)GERGETGP(1)P(1)	797;805;806	795–806	120.9	1188.5127	1188.5133	−0.5	2.49 ± 0.10	0.072
GGPGADGVP(0.952)GKDGP(0.048)R	755;760	747–761	116.2	1352.6553	1352.6592	−2.9	2.87 ± 0.11	0.018
GARGNDGARGSDGQP(1)	332	318–332	101.9	1430.6367	1430.6389	−1.5	2.73 ± 0.11	0.063

Abbreviations: AA- amino acid.

^a-hydroxyproline site probabilities listed in parenthesis;

^b-Amino acid site modification;

^c-peptide score is −log probability

^d-Mann-Whitney U