Screening for copy-number alterations and LOH in CLL - a comparative study of four microarray platforms

ABSTRACT: Screening for gene copy-number alterations (CNAs) has improved by applying genome-wide microarrays, where SNP arrays also allow analysis of loss of heterozygozity (LOH). We here analyzed 10 chronic lymphocytic leukemia (CLL) samples using four different high-resolution platforms: BAC arrays (32K), oligonucleotide arrays (185K, Agilent), and two SNP arrays (250K, Affymetrix and 317K, Illumina). Cross-platform comparison revealed 29 concordantly detected CNAs, including known recurrent alterations, which confirmed that all platforms are powerful tools when screening for large aberrations. However, detection of 32 additional regions present in 2-3 platforms illustrated a discrepancy in detection of small CNAs, which often involved reported copy-number variations. LOH analysis revealed concord

ORGANISM(S): Homo sapiens

SUBMITTER: Richard Rosenquist Brandell 

PROVIDER: E-GEOD-13557 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress