BAG clones

What we have just described is the approach used by the publicly funded Human Genome Project consortium. The National Science Foundation and the National Institutes of Health have funded the preparation of Mbraries of BAG clones. Participating laboratories rephcate the libraries and perform the sequencing using the shotgun sequencing technique. 

I Arabidopsis lhaliana DNA chromosome 5, BAG clone T5K6 (ESSA project)... 

As we have already seen, different methods produce different types of results—in some cases, lists of putative exons are returned but these exons are not in a genomic context in other cases, complete gene structures are predicted but possibly at a cost of less-reliable individual exon predictions. Looking at the absolute results for the 7q31 BAG clone, anywhere between one and three genes are predicted for the region, and those one to three genes have anywhere between 27 and 34 exons. In cases of similar exons, the boundaries of the exons are not always consistent. Which method is the winner in this particular case is not important what is important is the variance in the results. 

Figure 10.2. XGRAIL output using the human BAG clone RG364P16 from 7q31 as the query. The upper window shows the results of the prediction, with the histogram representing the probability that a given stretch of DNA is an exon. The various bars in the center represent features of the DNA (e.g., arrows represent repetitive DNA, and vertical bars represent repeat sequences). Exon and gene models, protein translations, and the results of a genQuest search using the protein translation are shown.

Database searches reveal sequences of (BAG) clones that provide a genomic con-tig that includes CBi sequences. 

ESTs with >93% homology with the relevant 80 kb of these BAG clone sequences were also used for GBi DNA sequence assemblies. 

A parallel analysis of thousands of gene sequences to individual BAG clones from the barley genome has been reported, " and a parallel on-chip gene synthesis has been applied to optimising protein expression of lacZa. A DNA chip based on interactions of nine consecutive guanines has been... 

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