Gene expression in Barrett's esophagus

Laser capture versus whole tissue

Hashem B. El-Serag, Zhannat Z. Nurgalieva, Toni Ann Mistretta, Milton J. Finegold, Rhonda Souza, Susan Hilsenbeck, Chad Shaw, Gretchen Darlington

Research output: Contribution to journalArticle

27 Citations (Scopus)

Abstract

Objective. Diagnosis of Barrett's esophagus (BE) is typically done through morphologic analysis of esophageal tissue biopsy. Such samples contain several cell types. Laser capture microdissection (LCM) allows the isolation of specific cells from heterogeneous cell populations. The purpose of this study was to determine the degree of overlap of the two sample types and to define a set of genes that might serve as biochemical markers for BE. Material and methods. Biopsies were obtained from regions of the glandular tissue of BE and normal esophagus from 9 subjects with BE. Samples from 5 subjects were examined as whole tissue (BE [whole]; E [whole]), and in 4 subjects the glandular epithelium of BE was isolated using LCM (BE [LCM]) and compared with the averaged values (E [LCM]) for both basal cell (B [LCM]) and squamous cell (S [LCM]) epithelium. Results. Gene expression revealed 1797 probe sets between BE [whole] and E [whole] (fold change > 2.0; p<0.001). Most of these genes (74%) were also differentially expressed between BE [LCM] and E [LCM], showing that there was high concordance between the two sampling methods. LCM provided a great deal of additional information (2113 genes) about the alterations in gene expression that may represent the BE phenotype. Conclusions. There are differences in gene expression profiles depending on whether specimens are whole tissue biopsies or LCM dissected. Whole tissue biopsies should prove satisfactory for diagnostic purposes. Because the data from LCM samples delineated many more Barrett's-specific genes, this procedure might provide more information regarding pathogenesis than would whole tissue material.

Original languageEnglish (US)
Pages (from-to)787-795
Number of pages9
JournalScandinavian Journal of Gastroenterology
Volume44
Issue number7
DOIs
StatePublished - 2009

Fingerprint

Laser Capture Microdissection
Barrett Esophagus
Lasers
Gene Expression
Biopsy
Genes
Epithelium
Cell Separation
Transcriptome
Esophagus
Biomarkers
Epithelial Cells

Keywords

  • Disorders
  • Esophageal

ASJC Scopus subject areas

  • Gastroenterology

Cite this

El-Serag, H. B., Nurgalieva, Z. Z., Mistretta, T. A., Finegold, M. J., Souza, R., Hilsenbeck, S., ... Darlington, G. (2009). Gene expression in Barrett's esophagus: Laser capture versus whole tissue. Scandinavian Journal of Gastroenterology, 44(7), 787-795. https://doi.org/10.1080/00365520902898127

Gene expression in Barrett's esophagus : Laser capture versus whole tissue. / El-Serag, Hashem B.; Nurgalieva, Zhannat Z.; Mistretta, Toni Ann; Finegold, Milton J.; Souza, Rhonda; Hilsenbeck, Susan; Shaw, Chad; Darlington, Gretchen.

In: Scandinavian Journal of Gastroenterology, Vol. 44, No. 7, 2009, p. 787-795.

Research output: Contribution to journalArticle

El-Serag, HB, Nurgalieva, ZZ, Mistretta, TA, Finegold, MJ, Souza, R, Hilsenbeck, S, Shaw, C & Darlington, G 2009, 'Gene expression in Barrett's esophagus: Laser capture versus whole tissue', Scandinavian Journal of Gastroenterology, vol. 44, no. 7, pp. 787-795. https://doi.org/10.1080/00365520902898127
El-Serag, Hashem B. ; Nurgalieva, Zhannat Z. ; Mistretta, Toni Ann ; Finegold, Milton J. ; Souza, Rhonda ; Hilsenbeck, Susan ; Shaw, Chad ; Darlington, Gretchen. / Gene expression in Barrett's esophagus : Laser capture versus whole tissue. In: Scandinavian Journal of Gastroenterology. 2009 ; Vol. 44, No. 7. pp. 787-795.
@article{60d5222774884dcf83ee2d0f02b4f41b,
title = "Gene expression in Barrett's esophagus: Laser capture versus whole tissue",
abstract = "Objective. Diagnosis of Barrett's esophagus (BE) is typically done through morphologic analysis of esophageal tissue biopsy. Such samples contain several cell types. Laser capture microdissection (LCM) allows the isolation of specific cells from heterogeneous cell populations. The purpose of this study was to determine the degree of overlap of the two sample types and to define a set of genes that might serve as biochemical markers for BE. Material and methods. Biopsies were obtained from regions of the glandular tissue of BE and normal esophagus from 9 subjects with BE. Samples from 5 subjects were examined as whole tissue (BE [whole]; E [whole]), and in 4 subjects the glandular epithelium of BE was isolated using LCM (BE [LCM]) and compared with the averaged values (E [LCM]) for both basal cell (B [LCM]) and squamous cell (S [LCM]) epithelium. Results. Gene expression revealed 1797 probe sets between BE [whole] and E [whole] (fold change > 2.0; p<0.001). Most of these genes (74{\%}) were also differentially expressed between BE [LCM] and E [LCM], showing that there was high concordance between the two sampling methods. LCM provided a great deal of additional information (2113 genes) about the alterations in gene expression that may represent the BE phenotype. Conclusions. There are differences in gene expression profiles depending on whether specimens are whole tissue biopsies or LCM dissected. Whole tissue biopsies should prove satisfactory for diagnostic purposes. Because the data from LCM samples delineated many more Barrett's-specific genes, this procedure might provide more information regarding pathogenesis than would whole tissue material.",
keywords = "Disorders, Esophageal",
author = "El-Serag, {Hashem B.} and Nurgalieva, {Zhannat Z.} and Mistretta, {Toni Ann} and Finegold, {Milton J.} and Rhonda Souza and Susan Hilsenbeck and Chad Shaw and Gretchen Darlington",
year = "2009",
doi = "10.1080/00365520902898127",
language = "English (US)",
volume = "44",
pages = "787--795",
journal = "Scandinavian Journal of Gastroenterology",
issn = "0036-5521",
publisher = "Informa Healthcare",
number = "7",

}

TY - JOUR

T1 - Gene expression in Barrett's esophagus

T2 - Laser capture versus whole tissue

AU - El-Serag, Hashem B.

AU - Nurgalieva, Zhannat Z.

AU - Mistretta, Toni Ann

AU - Finegold, Milton J.

AU - Souza, Rhonda

AU - Hilsenbeck, Susan

AU - Shaw, Chad

AU - Darlington, Gretchen

PY - 2009

Y1 - 2009

N2 - Objective. Diagnosis of Barrett's esophagus (BE) is typically done through morphologic analysis of esophageal tissue biopsy. Such samples contain several cell types. Laser capture microdissection (LCM) allows the isolation of specific cells from heterogeneous cell populations. The purpose of this study was to determine the degree of overlap of the two sample types and to define a set of genes that might serve as biochemical markers for BE. Material and methods. Biopsies were obtained from regions of the glandular tissue of BE and normal esophagus from 9 subjects with BE. Samples from 5 subjects were examined as whole tissue (BE [whole]; E [whole]), and in 4 subjects the glandular epithelium of BE was isolated using LCM (BE [LCM]) and compared with the averaged values (E [LCM]) for both basal cell (B [LCM]) and squamous cell (S [LCM]) epithelium. Results. Gene expression revealed 1797 probe sets between BE [whole] and E [whole] (fold change > 2.0; p<0.001). Most of these genes (74%) were also differentially expressed between BE [LCM] and E [LCM], showing that there was high concordance between the two sampling methods. LCM provided a great deal of additional information (2113 genes) about the alterations in gene expression that may represent the BE phenotype. Conclusions. There are differences in gene expression profiles depending on whether specimens are whole tissue biopsies or LCM dissected. Whole tissue biopsies should prove satisfactory for diagnostic purposes. Because the data from LCM samples delineated many more Barrett's-specific genes, this procedure might provide more information regarding pathogenesis than would whole tissue material.

AB - Objective. Diagnosis of Barrett's esophagus (BE) is typically done through morphologic analysis of esophageal tissue biopsy. Such samples contain several cell types. Laser capture microdissection (LCM) allows the isolation of specific cells from heterogeneous cell populations. The purpose of this study was to determine the degree of overlap of the two sample types and to define a set of genes that might serve as biochemical markers for BE. Material and methods. Biopsies were obtained from regions of the glandular tissue of BE and normal esophagus from 9 subjects with BE. Samples from 5 subjects were examined as whole tissue (BE [whole]; E [whole]), and in 4 subjects the glandular epithelium of BE was isolated using LCM (BE [LCM]) and compared with the averaged values (E [LCM]) for both basal cell (B [LCM]) and squamous cell (S [LCM]) epithelium. Results. Gene expression revealed 1797 probe sets between BE [whole] and E [whole] (fold change > 2.0; p<0.001). Most of these genes (74%) were also differentially expressed between BE [LCM] and E [LCM], showing that there was high concordance between the two sampling methods. LCM provided a great deal of additional information (2113 genes) about the alterations in gene expression that may represent the BE phenotype. Conclusions. There are differences in gene expression profiles depending on whether specimens are whole tissue biopsies or LCM dissected. Whole tissue biopsies should prove satisfactory for diagnostic purposes. Because the data from LCM samples delineated many more Barrett's-specific genes, this procedure might provide more information regarding pathogenesis than would whole tissue material.

KW - Disorders

KW - Esophageal

UR - http://www.scopus.com/inward/record.url?scp=70350650795&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=70350650795&partnerID=8YFLogxK

U2 - 10.1080/00365520902898127

DO - 10.1080/00365520902898127

M3 - Article

VL - 44

SP - 787

EP - 795

JO - Scandinavian Journal of Gastroenterology

JF - Scandinavian Journal of Gastroenterology

SN - 0036-5521

IS - 7

ER -