TY  - JOUR
A1  - Aaronson, J S
A1  - Eckman, B
A1  - Blevins, R A
A1  - Borkowski, J A
A1  - Myerson, J
A1  - Imran, S
A1  - Elliston, K O
T1  - Toward the development of a gene index to the human genome: an assessment of the nature of high-throughput EST sequence data.
Y1  - 1996/09/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 829 
EP  - 845 
DO  - 10.1101/gr.6.9.829 
VL  - 6 
IS  - 9 
UR  - http://genome.cshlp.org/content/6/9/829.abstract 
N2  - A rigorous analysis of the Merck-sponsored EST data with respect to known gene sequences increases the utility of the data set and helps refine methods for building a gene index. A highly curated human transcript data base was used as a reference data set of known genes. A detailed analysis of EST sequences derived from known genes was performed to assess the accuracy of EST sequence annotation. The EST data was screened to remove low-quality and low-complexity sequences. A set of high-quality ESTs similar to the transcript data base was identified using BLAST; this subset of ESTs was compared with the set of known genes using the Smith-Waterman algorithm. Error rates of several types were assessed based on a flexible match criterion defining sequence identity. The rate of lane-tracking errors is very low, approximately 0.5%. Insert size data is accurate within approximately 20%. Reversed clone and internal priming error rates are approximately 5% and 2.5%, respectively, contributing to the incorrect identification of reads as 3' ends of genes. Follow-up investigation reveals that a significant number of clones, miscategorized as reversed, represent overlapping genes on the opposite strand of entries in the transcript data base. Relevance of these results to the creation of a high-quality index to the human genome capable of supporting diverse genomic investigations is discussed. 
ER  -