Breakpoint identification and smoothing of array comparative genomic hybridization data

Kees Jong; Elena Marchiori; Gerrit Meijer; A. V.D. Vaart; Bauke Ylstra; C. Jong

doi:https://doi.org/10.1093/bioinformatics/bth355

Breakpoint identification and smoothing of array comparative genomic hybridization data

Kees Jong, Elena Marchiori, Gerrit Meijer, A. V.D. Vaart, Bauke Ylstra, C. Jong

Research output: Contribution to journal › Article › Academic › peer-review

149 Citations (Scopus)

Abstract

Summary: 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.

Original language	English
Pages (from-to)	3636-3637
Number of pages	2
Journal	Bioinformatics
Volume	20
Issue number	18
DOIs	https://doi.org/10.1093/bioinformatics/bth355
Publication status	Published - 12 Dec 2004

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https://research.vu.nl/ws/files/2411614/219751.pdf

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AU - Marchiori, Elena

AU - Meijer, Gerrit

AU - Vaart, A. V.D.

AU - Ylstra, Bauke

AU - Jong, C.

PY - 2004/12/12

Y1 - 2004/12/12

N2 - Summary: 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.

AB - Summary: 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.

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VL - 20

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EP - 3637

JO - Bioinformatics

JF - Bioinformatics

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ER -

Breakpoint identification and smoothing of array comparative genomic hybridization data

Abstract

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