Sequencing by Hybridization
Encyclopedia
Sequencing by Hybridization is a class of methods for determining the order in which nucleotides occur on a strand of DNA
. Typically used for looking for small changes relative to a known DNA sequence
.
The binding of one strand of DNA to its complementary strand in the DNA double-helix (aka hybridization) is sensitive to even single-base mismatches when the hybrid region is short or if specialized mismatch detection proteins are present. This is exploited in a variety of ways, most notable via DNA chips or microarrays with thousands to billions of synthetic oligonucleotides found in a genome of interest plus many known variations or even all possible single-base variations. This idea and the algorithm behind it were devised by Franco Preparata and Eli Upfal of Brown University Computer Science.
This technology has largely been displaced by Sequencing-by-synthesis based methods.
DNA
Deoxyribonucleic acid is a nucleic acid that contains the genetic instructions used in the development and functioning of all known living organisms . The DNA segments that carry this genetic information are called genes, but other DNA sequences have structural purposes, or are involved in...
. Typically used for looking for small changes relative to a known DNA sequence
DNA sequence
The sequence or primary structure of a nucleic acid is the composition of atoms that make up the nucleic acid and the chemical bonds that bond those atoms. Because nucleic acids, such as DNA and RNA, are unbranched polymers, this specification is equivalent to specifying the sequence of...
.
The binding of one strand of DNA to its complementary strand in the DNA double-helix (aka hybridization) is sensitive to even single-base mismatches when the hybrid region is short or if specialized mismatch detection proteins are present. This is exploited in a variety of ways, most notable via DNA chips or microarrays with thousands to billions of synthetic oligonucleotides found in a genome of interest plus many known variations or even all possible single-base variations. This idea and the algorithm behind it were devised by Franco Preparata and Eli Upfal of Brown University Computer Science.
This technology has largely been displaced by Sequencing-by-synthesis based methods.
Examples of commercial systems
- NABsys
- AffymetrixAffymetrixAffymetrix is a company that manufactures DNA microarrays; it is based in Santa Clara, California, United States. The company was founded by Dr. Stephen Fodor in 1992. It began as a unit in Affymax N.V...
- Complete Genomics Inc.