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A method for finding putative causes of gene expression variation

Autio, Reija; Hautaniemi, Sampsa; Ringnér, Markus LU ; Kauraniemi, Päivikki; Edgren, Henrik; Yli-Harja, Olli; Astola, Jaakko; Kallioniemi, Anne and Kallioniemi, Olli-Pekka (2004) 2nd TICSP Workshop on Computational Systems Biology, WCSB'2004 In 2nd TICSP Workshop on Computational Systems Biology, WCSB 2004 24. p.29-30
Abstract
The majority of microarray studies evaluate gene ex-

pression differences between various specimens or con-

ditions. However, the causes of this variability often re-

main unknown. Our aim is to identify underlying causes

of these patterns, a process that would eventually enable

a mechanistic understanding of the deregulation of gene

expression in cancer. The procedure consists of three

phases: pre-processing, data integration and statistical

analysis. We have applied the strategy to identify genes

that are overexpressed due to amplification in breast

cancer. The data were obtained from 14 breast cancer

cell lines, which were subjected to... (More)
The majority of microarray studies evaluate gene ex-

pression differences between various specimens or con-

ditions. However, the causes of this variability often re-

main unknown. Our aim is to identify underlying causes

of these patterns, a process that would eventually enable

a mechanistic understanding of the deregulation of gene

expression in cancer. The procedure consists of three

phases: pre-processing, data integration and statistical

analysis. We have applied the strategy to identify genes

that are overexpressed due to amplification in breast

cancer. The data were obtained from 14 breast cancer

cell lines, which were subjected to cDNA microarray

based copy number and expression experiments. The re-

sult of the analysis was a list that consisted of 92 genes.

This set includes several genes that are known to be both

overexpressed and amplified in breast cancer. The com-

plete study was published in Journal of the Franklin In-

stitute 2004, and in this paper we focus on the main

issues of the study. (Less)
Please use this url to cite or link to this publication:
author
organization
publishing date
type
Chapter in Book/Report/Conference proceeding
publication status
published
subject
in
2nd TICSP Workshop on Computational Systems Biology, WCSB 2004
editor
Aho, Tommi; Lähdesmäki, Harri; Yli-Harja, Olli; ; and
volume
24
pages
2 pages
publisher
Tampere University of Technology
conference name
2nd TICSP Workshop on Computational Systems Biology, WCSB'2004
ISSN
1456-2774
ISBN
952-15-1204-0
language
English
LU publication?
yes
id
30a1a409-5f3c-4737-987a-386b48e4692d (old id 4933175)
date added to LUP
2015-01-12 12:33:45
date last changed
2016-11-28 14:38:13
@inproceedings{30a1a409-5f3c-4737-987a-386b48e4692d,
  abstract     = {The majority of microarray studies evaluate gene ex-<br/><br>
pression differences between various specimens or con-<br/><br>
ditions. However, the causes of this variability often re-<br/><br>
main unknown. Our aim is to identify underlying causes<br/><br>
of these patterns, a process that would eventually enable<br/><br>
a mechanistic understanding of the deregulation of gene<br/><br>
expression in cancer. The procedure consists of three<br/><br>
phases: pre-processing, data integration and statistical<br/><br>
analysis. We have applied the strategy to identify genes<br/><br>
that are overexpressed due to amplification in breast<br/><br>
cancer. The data were obtained from 14 breast cancer<br/><br>
cell lines, which were subjected to cDNA microarray<br/><br>
based copy number and expression experiments. The re-<br/><br>
sult of the analysis was a list that consisted of 92 genes.<br/><br>
This set includes several genes that are known to be both<br/><br>
overexpressed and amplified in breast cancer. The com-<br/><br>
plete study was published in Journal of the Franklin In-<br/><br>
stitute 2004, and in this paper we focus on the main<br/><br>
issues of the study.},
  author       = {Autio, Reija and Hautaniemi, Sampsa and Ringnér, Markus and Kauraniemi, Päivikki and Edgren, Henrik and Yli-Harja, Olli and Astola, Jaakko and Kallioniemi, Anne and Kallioniemi, Olli-Pekka},
  booktitle    = {2nd TICSP Workshop on Computational Systems Biology, WCSB 2004},
  editor       = {Aho, Tommi and Lähdesmäki, Harri and Yli-Harja, Olli},
  isbn         = {952-15-1204-0},
  issn         = {1456-2774},
  language     = {eng},
  pages        = {29--30},
  publisher    = {Tampere University of Technology},
  title        = {A method for finding putative causes of gene expression variation},
  volume       = {24},
  year         = {2004},
}