Breakpoint identification and smoothing of array comparative genomic hybridization data.
CONCLUSIONS
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.


BACKGROUND
aCGH-Smooth is free for researchers at academic and non-profit institutions at http://www.few.vu.nl/~vumarray/.
Jong
Kees
K
Faculty of Sciences, Vrije Universiteit, De Boelelaan 1117, Amsterdam 1081HV, The Netherlands. cjong@few.vu.nl <cjong@few.vu.nl>
Marchiori
Elena
E
Meijer
Gerrit
G
Vaart
A V D
AV
Ylstra
Bauke
B
D000465:Algorithms; D002874:Chromosome Mapping / Q000379:methods*; D004252:DNA Mutational Analysis / Q000379:methods*; D018628:Gene Dosage; D020869:Gene Expression Profiling / Q000379:methods; D017403:In Situ Hybridization / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software