Trapping and sequence analysis of 1138 putative exons from human chromosome 18

Abstract

In a search for novel genes on chromosome 18 (HC18), on which several regions have been linked to bipolar disorder, we applied exon trapping to HC18-specific cosmids. Among the 1138 exons trapped, 1052 of them have been mapped to HC18, and the remaining 86 have not been localized. No exons were localized to genomic regions other than HC18. BLAST database search revealed that 190 exons were identical to 98 Unigenes on HC18; 98 identical to additional 82 clusters of ESTs not present in the HC18 Unigene set; 39 homologous to genes from human and other species (eo10 À3 ); and the remaining 811 exons had no significant homology to transcripts in public databases. The mapped exons were compared to the 867 annotated genes on HC18 in the Celera databases; 216 exons were identical to 104 Celera 'genes' and the remaining 836 exons were not found in the Celera databases. On average, there were two exons for a matched transcript (known genes and ESTs). Therefore, the 850 novel exons may represent hundreds of novel genes on chromosome 18.

Two somatic biallelic lesions within and near SMAD4 in a human breast cancer cell line

“…We performed Paracel BLAST (Paracel Inc., Pasadena, CA) of BID‐CHR18 (using accession nos. AC027216.6, AC022701.6, and AC080051.6) versus 1,138 candidate chromosome 18 exons found by trap analysis (Chen et al, 2003). This approach identified three putative exons, NCBI accession nos.…”