J 2009

MSMAD: a computationally efficient method for the analysis of noisy array CGH data

BUDINSKÁ, Eva, Eva GELNAROVÁ and Michael G. SCHIMEK

Basic information

Original name

MSMAD: a computationally efficient method for the analysis of noisy array CGH data

Name in Czech

MSMAD: výpočetně efektivní metoda pro analýzu dat arrayCGH

Authors

BUDINSKÁ, Eva (703 Slovakia, guarantor), Eva GELNAROVÁ (203 Czech Republic) and Michael G. SCHIMEK (40 Austria)

Edition

Bioinformatics, Oxford University Press, 2009, 1367-4803

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

Genetics and molecular biology

Country of publisher

United Kingdom of Great Britain and Northern Ireland

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

Impact factor

Impact factor: 4.926

RIV identification code

RIV/00216224:14110/09:00035237

Organization unit

Faculty of Medicine

UT WoS

000264189600002

Keywords in English

MSMAD; microarray; arrayCGH; median absolute deviation; median smoothing

Tags

Tags

International impact, Reviewed
Změněno: 19/3/2009 14:17, Mgr. Eva Budinská, Ph.D.

Abstract

ORIG CZ

V originále

Genome analysis has become one of the most important tools for understanding the complex process of cancerogenesis. With increasing resolution of CGH arrays, the demand for computationally efficient algorithms arises, which are effective in the detection of aberrations even in very noisy data. We developed a rather simple, non-parametric technique of high computational efficiency for CGH array analysis that adopts a median absolute deviation concept for breakpoint detection, comprising median smoothing for pre-processing. The resulting algorithm has the potential to outperform any single smoothing approach as well as several recently proposed segmentation techniques. We show its performance through the application of simulated and real datasets in comparison to three other methods for array CGH analysis.

In Czech

Vyvinuli jsme efektivní metodu analýzy dat arrayCGH arrayí, vuyžívající koncept mediánového vyhlazování a absolutní mediánové odchýlky.

Links

NR9076, research and development project
Name: Genomické profilování v predikci odpovědi na chemoradioterapii u pacientů s lokálně pokročilým karcinomem konečníku
NR9484, research and development project
Name: Určení nových genetických změn v nádorovém genomu nemocných s chronickou B lymfocytární leukémií (B-CLL) metodou array komparativní genomové hybridizace