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 TICSP Series
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:
https://lup.lub.lu.se/record/4933175
- author
- Autio, Reija
; Hautaniemi, Sampsa
; Ringnér, Markus
LU
; Kauraniemi, Päivikki
; Edgren, Henrik
; Yli-Harja, Olli
; Astola, Jaakko
; Kallioniemi, Anne
and Kallioniemi, Olli-Pekka
- organization
- publishing date
- 2004
- type
- Chapter in Book/Report/Conference proceeding
- publication status
- published
- subject
- host publication
- 2nd TICSP Workshop on Computational Systems Biology, WCSB 2004 : Silja Opera, Helsinki-St. Petersburg, June 14 - 16, 2004 - Silja Opera, Helsinki-St. Petersburg, June 14 - 16, 2004
- series title
- TICSP Series
- editor
- Aho, Tommi ; Lähdesmäki, Harri and Yli-Harja, Olli
- volume
- 24
- pages
- 29 - 30
- publisher
- Tampere University of Technology
- conference name
- 2nd TICSP Workshop on Computational Systems Biology, WCSB'2004
- conference dates
- 2004-06-14 - 2004-06-16
- 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
- 2016-04-04 14:02:47
- date last changed
- 2023-04-18 17:53:20
@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 : Silja Opera, Helsinki-St. Petersburg, June 14 - 16, 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}},
series = {{TICSP Series}},
title = {{A method for finding putative causes of gene expression variation}},
url = {{https://lup.lub.lu.se/search/files/17531161/4933180.pdf}},
volume = {{24}},
year = {{2004}},
}