Kamb A, Wang C, Thomas A, DeHoff B S, Norris F H, Richardson K, Rine J, Skolnick M H, Rosteck P R
Myriad Genetics, Inc., Salt Lake City, Utah 84108, USA.
Comput Biomed Res. 1995 Apr;28(2):140-53. doi: 10.1006/cbmr.1995.1010.
We present an approach to the gene identification phase of positional cloning that combines sparse sampling of DNA sequences from large genomic regions with computational analysis. We call the method "software trapping." The goal is to find coding exons while avoiding massive DNA sequence determination and contig assembly. Instead, rapid sequence sampling is combined with exon screening software such as a newly developed package called XPOUND to identify coding sequences. We have tested the approach using a set of model genomic sequences with known intron/exon structures as well as with bona fide P1 genomic clones. The results suggest that the strategy is a useful complement to other methods for finding genes in poorly characterized regions of genomes.
我们提出了一种用于定位克隆基因鉴定阶段的方法，该方法将来自大型基因组区域的DNA序列的稀疏采样与计算分析相结合。我们将该方法称为“软件捕获”。其目标是找到编码外显子，同时避免大量的DNA序列测定和重叠群组装。相反，快速序列采样与外显子筛选软件（如新开发的名为XPOUND的软件包）相结合，以识别编码序列。我们已经使用一组具有已知内含子/外显子结构的模型基因组序列以及真正的P1基因组克隆对该方法进行了测试。结果表明，该策略是在基因组特征不佳区域寻找基因的其他方法的有用补充。
