PMID- 15221937
OWN - NLM
STAT- MEDLINE
DCOM- 20040827
LR  - 20061115
IS  - 0022-3417 (Print)
IS  - 0022-3417 (Linking)
VI  - 203
IP  - 3
DP  - 2004 Jul
TI  - Array-based comparative genomic hybridization for the detection of DNA sequence 
      copy number changes in Barrett's adenocarcinoma.
PG  - 780-8
AB  - Array-based comparative genomic hybridization (aCGH) allows the identification of 
      DNA sequence copy number changes at high resolution by co-hybridizing 
      differentially labelled test and control DNAs to a micro-array of genomic clones. 
      The present study has analysed a series of 23 formalin-fixed, paraffin 
      wax-embedded tissue samples of Barrett's adenocarcinoma (BCA, n = 18) and 
      non-neoplastic squamous oesophageal (n = 2) and gastric cardia mucosa (n = 3) by 
      aCGH. The micro-arrays used contained 287 genomic targets covering oncogenes, 
      tumour suppressor genes, and DNA sequences localized within chromosomal regions 
      previously reported to be altered in BCA. DNA sequence copy number changes for a 
      panel of approximately 50 genes were identified, most of which have not been 
      previously described in BCA. DNA sequence copy number gains (mean 41 +/- 25/BCA) 
      were more frequent than DNA sequence copy number losses (mean 20 +/- 15/BCA). The 
      highest frequencies for DNA sequence copy number gains were detected for SNRPN 
      (61%); GNLY (44%); NME1 (44%); DDX15, ABCB1 (MDR), ATM, LAMA3, MYBL2, ZNF217, and 
      TNFRSF6B (39% each); and MSH2, TERC, SERPINE1, AFM137XA11, IGF1R, and PTPN1 (33% 
      each). DNA sequence copy number losses were identified for PDGFB (44%); D17S125 
      (39%); AKT3 (28%); and RASSFI, FHIT, CDKN2A (p16), and SAS (CDK4) (28% each). In 
      all non-neoplastic tissue samples of squamous oesophageal and gastric cardia 
      mucosa, the measured mean ratios were 1.00 (squamous oesophageal mucosa) or 1.01 
      (gastric mucosa), indicating that no DNA sequence copy number chances were 
      present. For validation, the DNA sequence copy number changes of selected clones 
      (SNRPN, CMYC, HER2, ZNF217) detected by aCGH were confirmed by fluorescence in 
      situ hybridization (FISH). These data show the sensitivity of aCGH for the 
      identification of DNA sequence copy number changes at high resolution in BCA. The 
      newly identified genes may include so far unknown biomarkers in BCA and are 
      therefore a starting point for further studies elucidating their possible role in 
      Barrett's carcinogenesis.
CI  - Copyright 2004 Pathological Society of Great Britain and Ireland.
FAU - Albrecht, Bettina
AU  - Albrecht B
AD  - University Hospital Freiburg, Institute of Pathology, Freiburg i Br, Germany.
FAU - Hausmann, Michael
AU  - Hausmann M
FAU - Zitzelsberger, Horst
AU  - Zitzelsberger H
FAU - Stein, Hubert
AU  - Stein H
FAU - Siewert, Jorg Rudiger
AU  - Siewert JR
FAU - Hopt, Ulrich
AU  - Hopt U
FAU - Langer, Rupert
AU  - Langer R
FAU - Hofler, Heinz
AU  - Hofler H
FAU - Werner, Martin
AU  - Werner M
FAU - Walch, Axel
AU  - Walch A
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PL  - England
TA  - J Pathol
JT  - The Journal of pathology
JID - 0204634
RN  - 0 (DNA, Neoplasm)
SB  - IM
MH  - Adenocarcinoma/*genetics
MH  - Barrett Esophagus/*genetics
MH  - DNA, Neoplasm/*genetics
MH  - Esophageal Neoplasms/*genetics
MH  - Humans
MH  - In Situ Hybridization, Fluorescence/methods
MH  - Nucleic Acid Hybridization/methods
MH  - Oligonucleotide Array Sequence Analysis/methods
MH  - Precancerous Conditions/*genetics
EDAT- 2004/06/29 05:00
MHDA- 2004/08/28 05:00
CRDT- 2004/06/29 05:00
PHST- 2004/06/29 05:00 [pubmed]
PHST- 2004/08/28 05:00 [medline]
PHST- 2004/06/29 05:00 [entrez]
AID - 10.1002/path.1576 [doi]
PST - ppublish
SO  - J Pathol. 2004 Jul;203(3):780-8. doi: 10.1002/path.1576.