BAC clones related to prognosis in patients with esophageal squamous carcinoma: An array comparative genomic hybridization study

Shigeo Hirasaki, Tsuyoshi Noguchi, Koshi Mimori, Junko Onuki, Keiko Morita, Hiroshi Inoue, Kenichi Sugihara, Masaki Mori, Takashi Hirano

Research output: Contribution to journalArticle

25 Citations (Scopus)

Abstract

Purpose. The prognosis of patients with esophageal carcinoma is poor. To identify genomic alterations associated with poor patient prognosis, we analyzed whole DNA copy number profiles of esophageal squamous carcinomas (ESCs) using array-based comparative genomic hybridization (aCGH). Materials and Methods. Twenty-one operated and two biopsied cases of esophageal squamous cancer were examined for study. Each sample was laser microdissected to obtain pure cancer cell populations. The extracted DNA was analyzed using aCGH. Results. One of the most representative alterations was a previously reported amplification at 11q13.3. In addition, some novel alterations, such as deletion of 16p13.3, were identified. Of the 19 patients who were re-assessed more than 5 years after the operation, nine were still living and 10 had died from disease recurrence. When aCGH profiles from the surviving group and the deceased group were compared, significant differences were recognized in 68 of 4,030 bacterial artificial chromosome (BAC) clones. Almost half of these clones were present at nine limiting regions in 4q, 13q, 20q, and Xq. For 22 of these 68 BAC clones, there also was a significant difference in the Kaplan-Meier survival curve, using the log-rank test, when comparing patients who had an alteration in a particular clone with those who did not. Conclusions. aCGH study of esophageal squamous cancer clearly identified BAC clones that are related to the prognosis of patients. These clones give us the opportunity to determine specific genes that are associated with cancer progression.

Original languageEnglish
Pages (from-to)406-417
Number of pages12
JournalOncologist
Volume12
Issue number4
DOIs
Publication statusPublished - May 10 2007

Fingerprint

Bacterial Artificial Chromosomes
Comparative Genomic Hybridization
Squamous Cell Carcinoma
Clone Cells
Esophageal Neoplasms
DNA
Kaplan-Meier Estimate
Neoplasms
Lasers
Carcinoma
Recurrence
Population
Genes

All Science Journal Classification (ASJC) codes

  • Oncology
  • Cancer Research

Cite this

BAC clones related to prognosis in patients with esophageal squamous carcinoma : An array comparative genomic hybridization study. / Hirasaki, Shigeo; Noguchi, Tsuyoshi; Mimori, Koshi; Onuki, Junko; Morita, Keiko; Inoue, Hiroshi; Sugihara, Kenichi; Mori, Masaki; Hirano, Takashi.

In: Oncologist, Vol. 12, No. 4, 10.05.2007, p. 406-417.

Research output: Contribution to journalArticle

Hirasaki, Shigeo ; Noguchi, Tsuyoshi ; Mimori, Koshi ; Onuki, Junko ; Morita, Keiko ; Inoue, Hiroshi ; Sugihara, Kenichi ; Mori, Masaki ; Hirano, Takashi. / BAC clones related to prognosis in patients with esophageal squamous carcinoma : An array comparative genomic hybridization study. In: Oncologist. 2007 ; Vol. 12, No. 4. pp. 406-417.
@article{6e4cb361033f4fd5940cf1b7a75b4ebe,
title = "BAC clones related to prognosis in patients with esophageal squamous carcinoma: An array comparative genomic hybridization study",
abstract = "Purpose. The prognosis of patients with esophageal carcinoma is poor. To identify genomic alterations associated with poor patient prognosis, we analyzed whole DNA copy number profiles of esophageal squamous carcinomas (ESCs) using array-based comparative genomic hybridization (aCGH). Materials and Methods. Twenty-one operated and two biopsied cases of esophageal squamous cancer were examined for study. Each sample was laser microdissected to obtain pure cancer cell populations. The extracted DNA was analyzed using aCGH. Results. One of the most representative alterations was a previously reported amplification at 11q13.3. In addition, some novel alterations, such as deletion of 16p13.3, were identified. Of the 19 patients who were re-assessed more than 5 years after the operation, nine were still living and 10 had died from disease recurrence. When aCGH profiles from the surviving group and the deceased group were compared, significant differences were recognized in 68 of 4,030 bacterial artificial chromosome (BAC) clones. Almost half of these clones were present at nine limiting regions in 4q, 13q, 20q, and Xq. For 22 of these 68 BAC clones, there also was a significant difference in the Kaplan-Meier survival curve, using the log-rank test, when comparing patients who had an alteration in a particular clone with those who did not. Conclusions. aCGH study of esophageal squamous cancer clearly identified BAC clones that are related to the prognosis of patients. These clones give us the opportunity to determine specific genes that are associated with cancer progression.",
author = "Shigeo Hirasaki and Tsuyoshi Noguchi and Koshi Mimori and Junko Onuki and Keiko Morita and Hiroshi Inoue and Kenichi Sugihara and Masaki Mori and Takashi Hirano",
year = "2007",
month = "5",
day = "10",
doi = "10.1634/theoncologist.12-4-406",
language = "English",
volume = "12",
pages = "406--417",
journal = "Oncologist",
issn = "1083-7159",
publisher = "AlphaMed Press",
number = "4",

}

TY - JOUR

T1 - BAC clones related to prognosis in patients with esophageal squamous carcinoma

T2 - An array comparative genomic hybridization study

AU - Hirasaki, Shigeo

AU - Noguchi, Tsuyoshi

AU - Mimori, Koshi

AU - Onuki, Junko

AU - Morita, Keiko

AU - Inoue, Hiroshi

AU - Sugihara, Kenichi

AU - Mori, Masaki

AU - Hirano, Takashi

PY - 2007/5/10

Y1 - 2007/5/10

N2 - Purpose. The prognosis of patients with esophageal carcinoma is poor. To identify genomic alterations associated with poor patient prognosis, we analyzed whole DNA copy number profiles of esophageal squamous carcinomas (ESCs) using array-based comparative genomic hybridization (aCGH). Materials and Methods. Twenty-one operated and two biopsied cases of esophageal squamous cancer were examined for study. Each sample was laser microdissected to obtain pure cancer cell populations. The extracted DNA was analyzed using aCGH. Results. One of the most representative alterations was a previously reported amplification at 11q13.3. In addition, some novel alterations, such as deletion of 16p13.3, were identified. Of the 19 patients who were re-assessed more than 5 years after the operation, nine were still living and 10 had died from disease recurrence. When aCGH profiles from the surviving group and the deceased group were compared, significant differences were recognized in 68 of 4,030 bacterial artificial chromosome (BAC) clones. Almost half of these clones were present at nine limiting regions in 4q, 13q, 20q, and Xq. For 22 of these 68 BAC clones, there also was a significant difference in the Kaplan-Meier survival curve, using the log-rank test, when comparing patients who had an alteration in a particular clone with those who did not. Conclusions. aCGH study of esophageal squamous cancer clearly identified BAC clones that are related to the prognosis of patients. These clones give us the opportunity to determine specific genes that are associated with cancer progression.

AB - Purpose. The prognosis of patients with esophageal carcinoma is poor. To identify genomic alterations associated with poor patient prognosis, we analyzed whole DNA copy number profiles of esophageal squamous carcinomas (ESCs) using array-based comparative genomic hybridization (aCGH). Materials and Methods. Twenty-one operated and two biopsied cases of esophageal squamous cancer were examined for study. Each sample was laser microdissected to obtain pure cancer cell populations. The extracted DNA was analyzed using aCGH. Results. One of the most representative alterations was a previously reported amplification at 11q13.3. In addition, some novel alterations, such as deletion of 16p13.3, were identified. Of the 19 patients who were re-assessed more than 5 years after the operation, nine were still living and 10 had died from disease recurrence. When aCGH profiles from the surviving group and the deceased group were compared, significant differences were recognized in 68 of 4,030 bacterial artificial chromosome (BAC) clones. Almost half of these clones were present at nine limiting regions in 4q, 13q, 20q, and Xq. For 22 of these 68 BAC clones, there also was a significant difference in the Kaplan-Meier survival curve, using the log-rank test, when comparing patients who had an alteration in a particular clone with those who did not. Conclusions. aCGH study of esophageal squamous cancer clearly identified BAC clones that are related to the prognosis of patients. These clones give us the opportunity to determine specific genes that are associated with cancer progression.

UR - http://www.scopus.com/inward/record.url?scp=34247844485&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=34247844485&partnerID=8YFLogxK

U2 - 10.1634/theoncologist.12-4-406

DO - 10.1634/theoncologist.12-4-406

M3 - Article

C2 - 17470683

AN - SCOPUS:34247844485

VL - 12

SP - 406

EP - 417

JO - Oncologist

JF - Oncologist

SN - 1083-7159

IS - 4

ER -