scholarly journals Multiplex target capture with double-stranded DNA probes

10.1186/gm454 ◽  
2013 ◽  
Vol 5 (5) ◽  
pp. 50 ◽  
Author(s):  
Peidong Shen ◽  
Wenyi Wang ◽  
Aung-Kyaw Chi ◽  
Yu Fan ◽  
Ronald W Davis ◽  
...  
Keyword(s):  
Dna Probes ◽  
Double Stranded Dna ◽  
Target Capture

Using double-stranded DNA probes to promote specificity in target capture

2013 ◽  
Vol 102 ◽  
pp. 884-890 ◽  
Author(s):  
Bryan A. Baker ◽  
Gita Mahmoudabadi ◽  
Valeria T. Milam
Keyword(s):  
Dna Probes ◽  
Double Stranded Dna ◽  
Target Capture

Hybridization kinetics of double-stranded DNA probes for rapid molecular analysis

The Analyst ◽  
2009 ◽  
Vol 134 (8) ◽  
pp. 1675 ◽  
Author(s):  
Vinay Gidwani ◽  
Reza Riahi ◽  
Donna D. Zhang ◽  
Pak Kin Wong
Keyword(s):  
Molecular Analysis ◽  
Dna Probes ◽  
Double Stranded Dna ◽  
Kinetics Of

scholarly journals A nuclease-polymerase chain reaction enables amplification of probes used for capture-based DNA target enrichment

2019 ◽  
Vol 47 (22) ◽  
pp. e147-e147
Author(s):  
Ka Wai Leong ◽  
Fangyan Yu ◽  
Viktor A Adalsteinsson ◽  
Sarah Reed ◽  
Gregory Gydush ◽  
...  
Keyword(s):  
Terminal Deoxynucleotidyl Transferase ◽  
Target Enrichment ◽  
Chain Reaction ◽  
Sequence Dependence ◽  
Thermostable Enzymes ◽  
Chain Reactions ◽  
Target Sequencing ◽  
Hybridization Capture ◽  
Double Stranded Dna ◽  
Target Capture

Abstract DNA target enrichment via hybridization capture is a commonly adopted approach which remains expensive due in-part to using biotinylated-probe panels. Here we provide a novel isothermal amplification reaction to amplify rapidly existing probe panels without knowledge of the sequences involved, thereby decreasing a major portion of the overall sample preparation cost. The reaction employs two thermostable enzymes, BST-polymerase and duplex-specific nuclease DSN. DSN initiates random ‘nicks’ on double-stranded-DNA which enable BST to polymerize DNA by displacing the nicked-strand. Displaced strands re-hybridize and the process leads to an exponential chain-reaction generating biotinylated DNA fragments within minutes. When starting from single-stranded-DNA, DNA is first converted to double-stranded-DNA via terminal-deoxynucleotidyl-transferase (TdT) prior to initiation of BST–DSN reaction. Biotinylated probes generated by TdT–BST–DSN (TBD) reactions using panels of 33, 190 or 7186 DNA targets are used for hybrid-capture-based target enrichment from amplified circulating-DNA, followed by targeted re-sequencing. Polymerase-nuclease isothermal-chain-reactions generate random amplified probes with no apparent sequence dependence. One round of target-capture using TBD probes generates a modest on-target sequencing ratio, while two successive rounds of capture generate >80% on-target reads with good sequencing uniformity. TBD-reactions generate enough capture-probes to increase by approximately two to three orders-of-magnitude the target-enrichment experiments possible from an initial set of probes.

scholarly journals Application of partially double-stranded DNA probes to high-throughput SNPs genotyping

2008 ◽  
Vol 52 (1) ◽  
pp. 237-238
Author(s):  
T. Ishii ◽  
K. Muraki ◽  
N. Shimada ◽  
A. Kano ◽  
N. Nishida ◽  
...  
Keyword(s):  
High Throughput ◽  
Dna Probes ◽  
Double Stranded Dna
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