AI Article Synopsis
- The study focuses on finding specific genes that are more present in certain cancers for monoclonal antibody therapies, aiming to improve previous methods.
- A script-based workflow filtered human gene data to identify those with transmembrane domains and checked them against the human EST database for accuracy.
- The validation process improved the precision of gene selection, which was later confirmed through RT-PCR tests, showing reliable tissue distribution for the selected genes.
Article Abstract
In contrast to earlier attempts for the identification of target candidates suitable for monoclonal antibody (mAb) based cancer therapies we concentrated on highly selective lineage-specific genes additionally preserved or even overexpressed in orthotopic cancers. In a script aided workflow we reduced all human entries of the RefSeq mRNA database to those encoding transmembrane domain bearing gene products and subjected them to BLAST analysis against the human EST database. All BLAST results were validated in a gene centric way allowing two types of data curation prior to expression profiling of matching ESTs in selected healthy tissues: (i) exclusion of questionable ESTs arising e.g. from genomic contamination and (ii) elimination of erroneously predicted mRNAs as well as transcripts with only weak EST coverage. The impact of such stringent input control on accuracy of prediction is underlined by RT-PCR confirmation of predicted tissue distribution patterns for a number of selected candidates.
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| http://dx.doi.org/10.1016/j.gene.2008.02.009 | DOI Listing |
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