Feasibility of amino acid profiling in long-term stored formalin-fixed paraffin-embedded colorectal neoplasia tissue

Roza C. M. Opperman; Puck E. Bruchner; Sofie Bosch; Tim G. J. de Meij; Evelien Dekker; Nanne K. H. de Boer; Eduard A. Struys

doi:10.1007/s11306-025-02301-8

Feasibility of amino acid profiling in long-term stored formalin-fixed paraffin-embedded colorectal neoplasia tissue

Roza C. M. Opperman^*
, Puck E. Bruchner
, Sofie Bosch
, Tim G. J. de Meij
, Evelien Dekker
, Nanne K. H. de Boer
, Eduard A. Struys

^*Corresponding author for this work

Research output: Contribution to journal › Article › Academic › peer-review

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Abstract

Introduction: Metabolic processes play a role in cancer development, with faecal amino acids emerging as potential biomarkers for colorectal neoplasia. While fresh frozen tissue is preferred for metabolomic analysis, formalin-fixed paraffin-embedded (FFPE) tissue is more widely available. Objectives: We aimed to evaluate amino acid profiles in FFPE tissue across different stages of the adenoma-carcinoma sequence. Method: A panel of 20 amino acids was measured using liquid chromatography–tandem mass spectrometry. Results: Fourteen amino acids were detected, with proline elevated in colorectal carcinoma versus advanced (FC 2.33, p = 0.04) and non-advanced adenomas (FC 2.42, p = 0.02). Conclusion: Despite analytical challenges, amino acid profiling in FFPE tissue is feasible.

Original language	English
Article number	102
Journal	Metabolomics
Volume	21
Issue number	4
DOIs	https://doi.org/10.1007/s11306-025-02301-8
Publication status	Published - 1 Aug 2025

Keywords

Amino acids
Colorectal adenoma
Colorectal cancer
Formalin-fixed paraffin embedded
Liquid-chromatography tandem-mass spectrometry

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1007/s11306-025-02301-8

Feasibility-of-amino-acid-profiling-in-long-term-stored-formalin-fixed-paraffin-embedded-colorectal-neoplasia-tissue.pdfFinal published version, 833 KBLicence: Taverne

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title = "Feasibility of amino acid profiling in long-term stored formalin-fixed paraffin-embedded colorectal neoplasia tissue",

abstract = "Introduction: Metabolic processes play a role in cancer development, with faecal amino acids emerging as potential biomarkers for colorectal neoplasia. While fresh frozen tissue is preferred for metabolomic analysis, formalin-fixed paraffin-embedded (FFPE) tissue is more widely available. Objectives: We aimed to evaluate amino acid profiles in FFPE tissue across different stages of the adenoma-carcinoma sequence. Method: A panel of 20 amino acids was measured using liquid chromatography–tandem mass spectrometry. Results: Fourteen amino acids were detected, with proline elevated in colorectal carcinoma versus advanced (FC 2.33, p = 0.04) and non-advanced adenomas (FC 2.42, p = 0.02). Conclusion: Despite analytical challenges, amino acid profiling in FFPE tissue is feasible.",

keywords = "Amino acids, Colorectal adenoma, Colorectal cancer, Formalin-fixed paraffin embedded, Liquid-chromatography tandem-mass spectrometry",

author = "Opperman, \{Roza C. M.\} and Bruchner, \{Puck E.\} and Sofie Bosch and \{de Meij\}, \{Tim G. J.\} and Evelien Dekker and \{de Boer\}, \{Nanne K. H.\} and Struys, \{Eduard A.\}",

note = "Publisher Copyright: {\textcopyright} The Author(s) 2025.",

year = "2025",

month = aug,

day = "1",

doi = "10.1007/s11306-025-02301-8",

language = "English",

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journal = "Metabolomics",

issn = "1573-3882",

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T1 - Feasibility of amino acid profiling in long-term stored formalin-fixed paraffin-embedded colorectal neoplasia tissue

AU - Opperman, Roza C. M.

AU - Bruchner, Puck E.

AU - Bosch, Sofie

AU - de Meij, Tim G. J.

AU - Dekker, Evelien

AU - de Boer, Nanne K. H.

AU - Struys, Eduard A.

N1 - Publisher Copyright: © The Author(s) 2025.

PY - 2025/8/1

Y1 - 2025/8/1

N2 - Introduction: Metabolic processes play a role in cancer development, with faecal amino acids emerging as potential biomarkers for colorectal neoplasia. While fresh frozen tissue is preferred for metabolomic analysis, formalin-fixed paraffin-embedded (FFPE) tissue is more widely available. Objectives: We aimed to evaluate amino acid profiles in FFPE tissue across different stages of the adenoma-carcinoma sequence. Method: A panel of 20 amino acids was measured using liquid chromatography–tandem mass spectrometry. Results: Fourteen amino acids were detected, with proline elevated in colorectal carcinoma versus advanced (FC 2.33, p = 0.04) and non-advanced adenomas (FC 2.42, p = 0.02). Conclusion: Despite analytical challenges, amino acid profiling in FFPE tissue is feasible.

AB - Introduction: Metabolic processes play a role in cancer development, with faecal amino acids emerging as potential biomarkers for colorectal neoplasia. While fresh frozen tissue is preferred for metabolomic analysis, formalin-fixed paraffin-embedded (FFPE) tissue is more widely available. Objectives: We aimed to evaluate amino acid profiles in FFPE tissue across different stages of the adenoma-carcinoma sequence. Method: A panel of 20 amino acids was measured using liquid chromatography–tandem mass spectrometry. Results: Fourteen amino acids were detected, with proline elevated in colorectal carcinoma versus advanced (FC 2.33, p = 0.04) and non-advanced adenomas (FC 2.42, p = 0.02). Conclusion: Despite analytical challenges, amino acid profiling in FFPE tissue is feasible.

KW - Amino acids

KW - Colorectal adenoma

KW - Colorectal cancer

KW - Formalin-fixed paraffin embedded

KW - Liquid-chromatography tandem-mass spectrometry

UR - https://www.scopus.com/pages/publications/105011763774

U2 - 10.1007/s11306-025-02301-8

DO - 10.1007/s11306-025-02301-8

M3 - Article

C2 - 40715594

SN - 1573-3882

VL - 21

JO - Metabolomics

JF - Metabolomics

IS - 4

M1 - 102

ER -

Feasibility of amino acid profiling in long-term stored formalin-fixed paraffin-embedded colorectal neoplasia tissue

Abstract

Keywords

UN SDGs

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