Dataset Information
Derivation of species-specific hybridization-like knowledge out of cross-species hybridization results.
Ontology highlight
ABSTRACT: Background
One of the approaches for conducting genomics research in organisms without extant microarray platforms is to profile their expression patterns by using Cross-Species Hybridization (CSH). Several different studies using spotted microarray and CSH produced contradicting conclusions in the ability of CSH to reflect biological processes described by species-specific hybridization (SSH).Results
We used a tomato-spotted cDNA microarray to examine the ability of CSH to reflect SSH data. Potato RNA was hybridized to spotted cDNA tomato and potato microarrays to generate CSH and SSH data, respectively. Difficulties arose in obtaining transcriptomic data from CSH that reflected those obtained from SSH. Nevertheless, once the data was filtered for those corresponding to matching probe sets, by restricting proper cutoffs of probe homology, the CSH transcriptome data showed improved reflection of those of the SSH.Conclusions
This study evaluated the relative performance of CSH compared to SSH, and proposes methods to ensure that CSH closely reflects the biological process analyzed by SSH.
SUBMITTER: Bar-Or C
PROVIDER: S-EPMC1482311 | biostudies-literature | 2006 May
REPOSITORIES: biostudies-literature
Publications
Derivation of species-specific hybridization-like knowledge out of cross-species hybridization results.
BMC genomics 20060508
<h4>Background</h4>One of the approaches for conducting genomics research in organisms without extant microarray platforms is to profile their expression patterns by using Cross-Species Hybridization (CSH). Several different studies using spotted microarray and CSH produced contradicting conclusions in the ability of CSH to reflect biological processes described by species-specific hybridization (SSH).<h4>Results</h4>We used a tomato-spotted cDNA microarray to examine the ability of CSH to refle ...[more]
