An automated film reader for DNA sequencing based on homomorphic deconvolution

Author

Ives, Jeffrey T. ; Gesteland, Raymond F. ; Stockham, Thomas G., Jr.

Author_Institution

Dept. of Human Genetics, Utah Univ., Salt Lake City, UT, USA

Volume

41

Issue

6

fYear

1994

fDate

6/1/1994 12:00:00 AM

Firstpage

509

Lastpage

519

Abstract

An automated reader for electrophoresis based DNA sequencing methods is described that provides fast and accurate sequence determination. Digitized sequencing lanes are processed with homomorphic blind deconvolution in preparation for peak detection, interlane alignment, peak refinement and base calling. Initial reads from direct blot sequencing films have error rates of about 1% at the rate of 5 nucleotides/s. Typical read lengths are 500-600 nucleotides. The described reader is a significant improvement over existing readers and could be an essential component in the sequencing efforts of the Human Genome Project.

Keywords

DNA; biological techniques and instruments; cellular biophysics; computerised instrumentation; electrophoresis; molecular biophysics; Human Genome Project; automated film reader; base calling; digitized sequencing lanes; direct blot sequencing films; electrophoresis based DNA sequencing; error rate; homomorphic blind deconvolution; interlane alignment; nucleotides; peak detection; peak refinement; Bioinformatics; Cities and towns; DNA; Deconvolution; Electrokinetics; Error analysis; Genetics; Genomics; Humans; Sequences; Base Sequence; Bias (Epidemiology); Blotting, Southern; Electrophoresis; Human Genome Project; Humans; Molecular Sequence Data; Reproducibility of Results; Sequence Analysis, DNA; Signal Processing, Computer-Assisted;

fLanguage

English

Journal_Title

Biomedical Engineering, IEEE Transactions on

Publisher

ieee

ISSN

0018-9294

Type

jour

DOI

10.1109/10.293238

Filename

293238