Quantitative analysis of single amino acid variant peptides associated with pancreatic cancer in serum by an isobaric labeling quantitative method

Song Nie, Haidi Yin, Zhijing Tan, Michelle A. Anderson, Mack Ruffin, Diane M. Simeone, David M. Lubman

Research output: Contribution to journalArticle

15 Citations (Scopus)

Abstract

Single amino acid variations are highly associated with many human diseases. The direct detection of peptides containing single amino acid variants (SAAVs) derived from nonsynonymous single nucleotide polymorphisms (SNPs) in serum can provide unique opportunities for SAAV associated biomarker discovery. In the present study, an isobaric labeling quantitative strategy was applied to identify and quantify variant peptides in serum samples of pancreatic cancer patients and other benign controls. The largest number of SAAV peptides to date in serum including 96 unique variant peptides were quantified in this quantitative analysis, of which five variant peptides showed a statistically significant difference between pancreatic cancer and other controls (p-value < 0.05). Significant differences in the variant peptide SDNCEDTPEAGYFAVAVVK from serotransferrin were detected between pancreatic cancer and controls, which was further validated by selected reaction monitoring (SRM) analysis. The novel biomarker panel obtained by combining α-1-antichymotrypsin (AACT), Thrombospondin-1 (THBS1) and this variant peptide showed an excellent diagnostic performance in discriminating pancreatic cancer from healthy controls (AUC = 0.98) and chronic pancreatitis (AUC = 0.90). These results suggest that large-scale analysis of SAAV peptides in serum may provide a new direction for biomarker discovery research.

Original languageEnglish (US)
Pages (from-to)6058-6066
Number of pages9
JournalJournal of Proteome Research
Volume13
Issue number12
DOIs
StatePublished - Dec 5 2014

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Pancreatic Neoplasms
Labeling
Amino Acids
Peptides
Serum
Chemical analysis
Biomarkers
Area Under Curve
Thrombospondin 1
Chronic Pancreatitis
Transferrin
Polymorphism
Single Nucleotide Polymorphism
Nucleotides
Monitoring
Research

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Chemistry(all)

Cite this

Nie, Song ; Yin, Haidi ; Tan, Zhijing ; Anderson, Michelle A. ; Ruffin, Mack ; Simeone, Diane M. ; Lubman, David M. / Quantitative analysis of single amino acid variant peptides associated with pancreatic cancer in serum by an isobaric labeling quantitative method. In: Journal of Proteome Research. 2014 ; Vol. 13, No. 12. pp. 6058-6066.
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Quantitative analysis of single amino acid variant peptides associated with pancreatic cancer in serum by an isobaric labeling quantitative method. / Nie, Song; Yin, Haidi; Tan, Zhijing; Anderson, Michelle A.; Ruffin, Mack; Simeone, Diane M.; Lubman, David M.

In: Journal of Proteome Research, Vol. 13, No. 12, 05.12.2014, p. 6058-6066.

Research output: Contribution to journalArticle

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