Sequencing two DNA templates in five channels by digital compression

Authors

Michaela Nelson, University of Chicago
Yanping Zhang, University of Nebraska-Lincoln
David L. Steffens, LI-COR Inc.
Reingard Grabherr, University of Nebraska-Lincoln
James L. Van Etten, University of Nebraska-LincolnFollow

Document Type

Article

Date of this Version

1993

Comments

Published in Proc. Natl. Acad. Sci. USA Vol. 90, pp. 1647-1651, March 1993. Used by Permission

Abstract

By applying algebraic coding methods to the Sanger dideoxynucleotide procedure, DNA sequences of two templates can be determined simultaneousl in only flve reactions and data channels. A 5:2 data compression is accomplished by instantaneous source coding of nucleotide sequence pairs into one set of 5-bit block codes. A general algebraic expression, 2" - 1 ≥ 4^f, describes conditions under which f DNA templates can be sequenced using n channels. Such compression sequencing is accurate and effcient, as demonstrated by manual ³⁵S autoradiographic detection and automated on-line analysis using fluorescent-labeled primers. Symmetric 5:2 compression is especially useful when comparing two closely related sequences.