title: Production of random DNA oligomers for scalable DNA computing.
abstract: While remarkably complex networks of connected DNA molecules can form from a relatively small number of distinct oligomer strands, a large computational space created by DNA reactions would ultimately require the use of many distinct DNA strands. The automatic synthesis of this many distinct strands is economically prohibitive. We present here a new approach to producing distinct DNA oligomers based on the polymerase chain reaction (PCR) amplification of a few random template sequences. As an example, we designed a DNA template sequence consisting of a 50-mer random DNA segment flanked by two 20-mer invariant primer sequences. Amplification of a dilute sample containing about 30 different template molecules allows us to obtain around 10(11) copies of these molecules and their complements. We demonstrate the use of these amplicons to implement some of the vector operations that will be required in a DNA implementation of an analog neural network.
authors.affiliation: University of California, Riverside, CA 92521, USA.
authors.forename: Sixue S L
authors.initials: SS
authors.lastname: Wang
authors.forename: John J X
authors.initials: JJ
authors.lastname: Johnson
authors.forename: Bradley S T
authors.initials: BS
authors.lastname: Hughes
authors.forename: Dundar A O
authors.initials: DA
authors.lastname: Karabay
authors.forename: Karson D W
authors.initials: KD
authors.lastname: Bader
authors.forename: Allen
authors.initials: A
authors.lastname: Austin
authors.forename: Alan
authors.initials: A
authors.lastname: Austin
authors.forename: Aisha
authors.initials: A
authors.lastname: Habib
authors.forename: Husnia
authors.initials: H
authors.lastname: Hatef
authors.forename: Megha
authors.initials: M
authors.lastname: Joshi
authors.forename: Lawrence
authors.initials: L
authors.lastname: Nguyen
authors.forename: Allen P
authors.initials: AP
authors.lastname: Mills
mesh_terms: D039301:Computers, Molecular; D004247:DNA / Q000737:chemistry / Q000235:genetics; D017931:DNA Primers; D004277:DNA, Single-Stranded; D004591:Electrophoresis, Polyacrylamide Gel; D005822:Genetic Vectors; D009838:Oligodeoxyribonucleotides / Q000737:chemistry; D016133:Polymerase Chain Reaction; D017422:Sequence Analysis, DNA
chemical_list: D017931:DNA Primers; D004277:DNA, Single-Stranded; D009838:Oligodeoxyribonucleotides; D004247:DNA