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Array-CGH and multipoint FISH to decode complex chromosomal rearrangements

BioMed Central
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  • Methodology Article
  • Biology
  • Medicine

Abstract ral ss BioMed CentBMC Genomics Open AcceMethodology article Array-CGH and multipoint FISH to decode complex chromosomal rearrangements Eva Darai-Ramqvist*1, Teresita Diaz de Ståhl2, Agneta Sandlund1, Kiran Mantripragada2, George Klein1, Jan Dumanski3, Stefan Imreh1 and Maria Kost-Alimova1 Address: 1Department of Microbiology, Tumour and Cell Biology (MTC), Karolinska Institutet, S-17177, Stockholm, Sweden, 2Department of Pathology, Rudbeck Laboratory, Uppsala University Hospital, S-75185, Uppsala, Sweden and 3Howell and Elizabeth Heflin Center for Human Genetics, University of Alabama at Birmingham (UAB), Medical School, Birmingham, AL 35294-0024, USA Email: Eva Darai-Ramqvist* - [email protected]; Teresita Diaz de Ståhl - [email protected]; Agneta Sandlund - [email protected]; Kiran Mantripragada - [email protected]; George Klein - [email protected]; Jan Dumanski - [email protected]; Stefan Imreh - [email protected]; Maria Kost-Alimova - [email protected] * Corresponding author Abstract Background: Recently, several high-resolution methods of chromosome analysis have been developed. It is important to compare these methods and to select reliable combinations of techniques to analyze complex chromosomal rearrangements in tumours. In this study we have compared array-CGH (comparative genomic hybridization) and multipoint FISH (mpFISH) for their ability to characterize complex rearrangements on human chromosome 3 (chr3) in tumour cell lines. We have used 179 BAC/PAC clones covering chr3 with an approximately 1 Mb resolution to analyze nine carcinoma lines. Chr3 was chosen for analysis, because of its frequent rearrangements in human solid tumours. Results: The ploidy of the tumour cell lines ranged from near-diploid to near-pentaploid. Chr3 locus copy number was assessed by interphase and metaphase mpFISH. Totally 53 chr3 fragments were identified having copy numbers from 0 to 14. MpFISH results f

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