Comparability of Microarray Data between Amplified and Non Amplified RNA in Colorectal Carcinoma
Joint Authors
Papadopoulos, Thomas
Zeittraeger, Isabel
Lausen, Berthold
Schellerer, Vera
Hohenberger, Werner
Dimmler, Arno
Wein, Axel
Brueckl, Wolfgang M.
Schildberg, Claus
Hahn, Eckhart G.
Croner, Roland S.
Source
Issue
Vol. 2009, Issue 2009 (31 Dec. 2009), pp.1-9, 9 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2009-09-06
Country of Publication
Egypt
No. of Pages
9
Main Subjects
Abstract EN
Microarray analysis reaches increasing popularity during the investigation of prognostic gene clusters in oncology.
The standardisation of technical procedures will be essential to compare various datasets produced by different research groups.
In several projects the amount of available tissue is limited.
In such cases the preamplification of RNA might be necessary prior to microarray hybridisation.
To evaluate the comparability of microarray results generated either by amplified or non amplified RNA we isolated RNA from colorectal cancer samples (stage UICC IV) following tumour tissue enrichment by macroscopic manual dissection (CMD).
One part of the RNA was directly labelled and hybridised to GeneChips (HG-U133A, Affymetrix), the other part of the RNA was amplified according to the “Eberwine” protocol and was then hybridised to the microarrays.
During unsupervised hierarchical clustering the samples were divided in groups regarding the RNA pre-treatment and 5.726 differentially expressed genes were identified.
Using independent microarray data of 31 amplified vs.
24 non amplified RNA samples from colon carcinomas (stage UICC III) in a set of 50 predictive genes we validated the amplification bias.
In conclusion microarray data resulting from different pre-processing regarding RNA pre-amplification can not be compared within one analysis.
American Psychological Association (APA)
Croner, Roland S.& Lausen, Berthold& Schellerer, Vera& Zeittraeger, Isabel& Wein, Axel& Schildberg, Claus…[et al.]. 2009. Comparability of Microarray Data between Amplified and Non Amplified RNA in Colorectal Carcinoma. BioMed Research International،Vol. 2009, no. 2009, pp.1-9.
https://search.emarefa.net/detail/BIM-988457
Modern Language Association (MLA)
Croner, Roland S.…[et al.]. Comparability of Microarray Data between Amplified and Non Amplified RNA in Colorectal Carcinoma. BioMed Research International No. 2009 (2009), pp.1-9.
https://search.emarefa.net/detail/BIM-988457
American Medical Association (AMA)
Croner, Roland S.& Lausen, Berthold& Schellerer, Vera& Zeittraeger, Isabel& Wein, Axel& Schildberg, Claus…[et al.]. Comparability of Microarray Data between Amplified and Non Amplified RNA in Colorectal Carcinoma. BioMed Research International. 2009. Vol. 2009, no. 2009, pp.1-9.
https://search.emarefa.net/detail/BIM-988457
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-988457