Array-based cross-species hybridization between genera of Rhabditidae (Nematoda)

ABSTRACT: The objective of this work was to determine the effectiveness of cross-hybridization of gDNA from five native soil nematodes to an Affymetrix Caenorhabditis elegans tiling array. Cross-hybridization experiments using C. briggsae, for which genome information is available, allowed hybridisation intensities to be correlated with known sequence differences. Initial analysis of data by conventional array-based Comparative Genomic Hybridization (aCGH) techniques at the chip level lead to misleading results due to an artefact from the combination of scaling, bandwidth smoothing, and differential GC content in exon and intron regions. To circumvent this artefact, individual probes were instead normalized and centered by adjusting for probe-specific thermodynamic binding affinity. However, cross-h

ORGANISM(S): Caenorhabditis briggsae

SUBMITTER: Michael Herman 

PROVIDER: E-GEOD-23667 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress