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Multiplexed Programmable Release of Captured DNA
Author(s) -
KennedyDarling Julia,
Holden Matthew T.,
Shortreed Michael R.,
Smith Lloyd M.
Publication year - 2014
Publication title -
chembiochem
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.05
H-Index - 126
eISSN - 1439-7633
pISSN - 1439-4227
DOI - 10.1002/cbic.201402343
Subject(s) - oligonucleotide , sequencing by hybridization , nucleic acid , computational biology , biology , dna , dna microarray , chromatin , proteome , dna sequencing , complementary sequences , sequence (biology) , nucleic acid thermodynamics , microbiology and biotechnology , biochemistry , base sequence , gene , gene expression , statistics , mathematics , dna sequencer
Nucleic‐acid hybridization is widely used for the specific capture of complementary sequences from complex samples. It is useful for both analytical methodologies, such as array hybridization (e.g. transcriptome analysis, genetic‐variation analysis), and preparative strategies such as exome sequencing and sequence‐specific proteome capture and analysis (PICh, HyCCAPP). It has not generally been possible to selectively elute particular captured subsequences, however, as the conditions employed for disruption of a duplex can lack the specificity needed to discriminate between different sequences. We show here that it is possible to bind and selectively release multiple sets of sequences by using toehold‐mediated DNA branch migration. The strategy is illustrated for simple mixtures of oligonucleotides, for the sequence‐specific capture and specific release of crosslinked yeast chromatin, and for the specific release of oligonucleotides hybridized to DNA microarrays.