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Prognostic impact of array-based genomic profiles in esophageal squamous cell cancer

Carneiro, Ana LU orcid ; Isinger Ekstrand, Anna LU orcid ; Karlsson, Anna ; Johansson, Janet LU orcid ; Jönsson, Göran B LU ; Bendahl, Pär-Ola LU ; Falkenback, Dan ; Halvarsson, Britta and Nilbert, Mef LU (2008) In BMC Cancer 8(98).
Abstract
Background: Esophageal squamous cell carcinoma (ESCC) is a genetically complex tumor type and a major cause of cancer related mortality. Although distinct genetic alterations have been linked to ESCC development and prognosis, the genetic alterations have not gained clinical applicability. We applied array-based comparative genomic hybridization (aCGH) to obtain a whole genome copy number profile relevant for identifying deranged pathways and clinically applicable markers. Methods: A 32 k aCGH platform was used for high resolution mapping of copy number changes in 30 stage I-IV ESCC. Potential interdependent alterations and deranged pathways were identified and copy number changes were correlated to stage, differentiation and survival.... (More)
Background: Esophageal squamous cell carcinoma (ESCC) is a genetically complex tumor type and a major cause of cancer related mortality. Although distinct genetic alterations have been linked to ESCC development and prognosis, the genetic alterations have not gained clinical applicability. We applied array-based comparative genomic hybridization (aCGH) to obtain a whole genome copy number profile relevant for identifying deranged pathways and clinically applicable markers. Methods: A 32 k aCGH platform was used for high resolution mapping of copy number changes in 30 stage I-IV ESCC. Potential interdependent alterations and deranged pathways were identified and copy number changes were correlated to stage, differentiation and survival. Results: Copy number alterations affected median 19% of the genome and included recurrent gains of chromosome regions 5p, 7p, 7q, 8q, 10q, 11q, 12p, 14q, 16p, 17p, 19p, 19q, and 20q and losses of 3p, 5q, 8p, 9p and 11q. High-level amplifications were observed in 30 regions and recurrently involved 7p11 (EGFR), 11q13 (MYEOV, CCND1, FGF4, FGF3, PPFIA, FAD, TMEM16A, CTTS and SHANK2) and 11q22 (PDFG). Gain of 7p22.3 predicted nodal metastases and gains of 1p36.32 and 19p13.3 independently predicted poor survival in multivariate analysis. Conclusion: aCGH profiling verified genetic complexity in ESCC and herein identified imbalances of multiple central tumorigenic pathways. Distinct gains correlate with clinicopathological variables and independently predict survival, suggesting clinical applicability of genomic profiling in ESCC. (Less)
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author
; ; ; ; ; ; ; and
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
BMC Cancer
volume
8
issue
98
publisher
BioMed Central (BMC)
external identifiers
  • wos:000255937900001
  • scopus:43449107706
  • pmid:18405350
ISSN
1471-2407
DOI
10.1186/1471-2407-8-98
language
English
LU publication?
yes
id
35b0dd40-88bc-40f7-881b-d5ba0110ce73 (old id 1203518)
date added to LUP
2016-04-01 14:01:30
date last changed
2024-10-10 11:10:35
@article{35b0dd40-88bc-40f7-881b-d5ba0110ce73,
  abstract     = {{Background: Esophageal squamous cell carcinoma (ESCC) is a genetically complex tumor type and a major cause of cancer related mortality. Although distinct genetic alterations have been linked to ESCC development and prognosis, the genetic alterations have not gained clinical applicability. We applied array-based comparative genomic hybridization (aCGH) to obtain a whole genome copy number profile relevant for identifying deranged pathways and clinically applicable markers. Methods: A 32 k aCGH platform was used for high resolution mapping of copy number changes in 30 stage I-IV ESCC. Potential interdependent alterations and deranged pathways were identified and copy number changes were correlated to stage, differentiation and survival. Results: Copy number alterations affected median 19% of the genome and included recurrent gains of chromosome regions 5p, 7p, 7q, 8q, 10q, 11q, 12p, 14q, 16p, 17p, 19p, 19q, and 20q and losses of 3p, 5q, 8p, 9p and 11q. High-level amplifications were observed in 30 regions and recurrently involved 7p11 (EGFR), 11q13 (MYEOV, CCND1, FGF4, FGF3, PPFIA, FAD, TMEM16A, CTTS and SHANK2) and 11q22 (PDFG). Gain of 7p22.3 predicted nodal metastases and gains of 1p36.32 and 19p13.3 independently predicted poor survival in multivariate analysis. Conclusion: aCGH profiling verified genetic complexity in ESCC and herein identified imbalances of multiple central tumorigenic pathways. Distinct gains correlate with clinicopathological variables and independently predict survival, suggesting clinical applicability of genomic profiling in ESCC.}},
  author       = {{Carneiro, Ana and Isinger Ekstrand, Anna and Karlsson, Anna and Johansson, Janet and Jönsson, Göran B and Bendahl, Pär-Ola and Falkenback, Dan and Halvarsson, Britta and Nilbert, Mef}},
  issn         = {{1471-2407}},
  language     = {{eng}},
  number       = {{98}},
  publisher    = {{BioMed Central (BMC)}},
  series       = {{BMC Cancer}},
  title        = {{Prognostic impact of array-based genomic profiles in esophageal squamous cell cancer}},
  url          = {{http://dx.doi.org/10.1186/1471-2407-8-98}},
  doi          = {{10.1186/1471-2407-8-98}},
  volume       = {{8}},
  year         = {{2008}},
}