Breakpoint identification and smoothing of array comparative genomic hybridization data

We describe a tool, called aCGH-Smooth, for the automated identification of breakpoints and smoothing of microarray comparative genomic hybridization (array CGH) data. aCGH-Smooth is written in visual C++, has a user-friendly interface including a visualization of the results and user-defined parame...

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Veröffentlicht in:	Bioinformatics 2004-12, Vol.20 (18), p.3636-3637
Hauptverfasser:	Jong, Kees, Marchiori, Elena, Meijer, Gerrit, Vaart, A. v. d., Ylstra, Bauke
Format:	Artikel
Sprache:	eng
Schlagworte:	Algorithms Biological and medical sciences Chromosome Mapping - methods DNA Mutational Analysis - methods Fundamental and applied biological sciences. Psychology Gene Dosage Gene Expression Profiling - methods General aspects In Situ Hybridization - methods Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) Oligonucleotide Array Sequence Analysis - methods Sequence Analysis, DNA - methods Software
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Beschreibung
Zusammenfassung:	We describe a tool, called aCGH-Smooth, for the automated identification of breakpoints and smoothing of microarray comparative genomic hybridization (array CGH) data. aCGH-Smooth is written in visual C++, has a user-friendly interface including a visualization of the results and user-defined parameters adapting the performance of data smoothing and breakpoint recognition. aCGH-Smooth can handle array-CGH data generated by all array-CGH platforms: BAC, PAC, cosmid, cDNA and oligo CGH arrays. The tool has been successfully applied to real-life data. Availability: aCGH-Smooth is free for researchers at academic and non-profit institutions at http://www.few.vu.nl/~vumarray/
ISSN:	1367-4803 1460-2059 1367-4811
DOI:	10.1093/bioinformatics/bth355