title: Systematic analysis of cDNA microarray-based CGH.
abstract: cDNA microarray-based CGH (Microarray-CGH) is a useful technique for detecting genomic aberrations with a high resolution. However, the criteria for determining a genomic alteration have not been determined. We evaluated the genome-wide measurement of copy number of each gene in normal gastric and placenta tissues with both sex-matched, direct and sex-mismatched, indirect designs using 17K cDNA microarray. The results revealed the range of genomic copy number of normal tissues to be +/-0.3 of the log(2) ratio (gain >0.3, loss <-0.3) in the autosomal genes with direct and indirect designs. The copy number at a gene level from the X chromosomal genes using the direct and indirect sex-mismatched designs was +/-0.68 of the log(2) ratio (amplification >0.68, deletion <-0.68). In summary, the suggested method can be used as a guideline for analysis of genomic aberration using a Microarray-CGH in both direct and indirect designs.
authors.affiliation: Cancer Metastasis Research Center, Yonsei University College of Medicine, Seoul 120-752, Korea.
authors.forename: Chan Hee
authors.initials: CH
authors.lastname: Park
authors.forename: Ha Jin
authors.initials: HJ
authors.lastname: Jeong
authors.forename: Yeon Ho
authors.initials: YH
authors.lastname: Choi
authors.forename: Sang Cheol
authors.initials: SC
authors.lastname: Kim
authors.forename: Hei Chul
authors.initials: HC
authors.lastname: Jeong
authors.forename: Kyu Hyun
authors.initials: KH
authors.lastname: Park
authors.forename: Gui Yeon
authors.initials: GY
authors.lastname: Lee
authors.forename: Tae Soo
authors.initials: TS
authors.lastname: Kim
authors.forename: Sang Wha
authors.initials: SW
authors.lastname: Yang
authors.forename: Sung Whan
authors.initials: SW
authors.lastname: Ahn
authors.forename: Yang Seok
authors.initials: YS
authors.lastname: Kim
authors.forename: Sun Young
authors.initials: SY
authors.lastname: Rha
authors.forename: Hyun Cheol
authors.initials: HC
authors.lastname: Chung
mesh_terms: D002877:Chromosomes, Human / Q000235:genetics; D005260:Female; D015894:Genome, Human / Q000235:genetics; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D008297:Male; D009693:Nucleic Acid Hybridization / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis