Sequencing of pools of nucleic acids on oligonucleotide arrays
Identifieur interne : 004543 ( Main/Exploration ); précédent : 004542; suivant : 004544Sequencing of pools of nucleic acids on oligonucleotide arrays
Auteurs : Alexander B. Chetverin [États-Unis] ; Fred Russell Kramer [États-Unis]Source :
- BioSystems [ 0303-2647 ] ; 1993.
English descriptors
- Teeft :
- Address oligonucleotide, Address oligonucleotides, Address sets, Ambiguous region, Array, Block tata, Bold squares, Branch points, Complementary, Complementary copy, Complementary strands, Complete group, Constant segment, Different strands, Direct sequencing, Genome, Group addresses, Human genome, Hybridization, Hybridization errors, Identical address sets, Identical strand sets, Incomplete groups, Individual address, Individual addresses, Individual areas, Individual strand, Inlet arrow, Input data, Interchangeable blocks, Large genomes, Latter case, Lysov, Many times, More strands, Nucleic, Nucleic acid, Nucleic acid sequences, Nucleic acid strands, Nucleic acids, Nucleotide, Nucleotide sequence, Nucleotide sequences, Oligonucleotide, Oligonucleotide arrays, Oligonucleotides, Other strands, Outlet arrow, Output sequence, Partial, Partial sequence, Partialing, Partialing array, Physical mapping, Polymerase, Pool size, Prime sets, Publishers ireland, Repetitive, Repetitive probes, Repetitive region, Repetitive regions, Resultant partials, Same pool, Same strand, Sequence blocks, Sequence reconstruction, Sequencing, Spare sets, Strand, Strand sets, Terminal extension, Total length.
Abstract
Abstract: In sequencing-by-hybridization methods, the nucleotide sequence of a nucleic acid is reconstructed by overlapping oligonucleotides capable of hybridizing with the nucleic acid. In their present form, the methods are hardly suitable for sequencing of long nucleic acid molecules because of the occurrence of non-unique overlaps between the oligonucleotides, and similarly to the conventional sequencing methods, it is necessary to obtain an individual molecule. In the method described here, most ambiguities in reconstruction of a sequence from the constituent oligonucleotides are eliminated by preparing on oligonucleotide arrays and separate surveying of the nucleic acid nested partials. This enables longer nucleic acids to be sequenced, and results in a high redundancy of the input data allowing most hybridization errors to be eliminated by algorithmic means. Furthermore, large pools of nucleic acid strands can be sequenced directly, without isolating individual strands.
Url:
DOI: 10.1016/0303-2647(93)90072-K
Affiliations:
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Chetverin</name><affiliation wicri:level="1"><country xml:lang="fr">États-Unis</country><wicri:regionArea>Public Health Research Institute, 455 First Avenue, New York, NY 10016</wicri:regionArea><wicri:noRegion>NY 10016</wicri:noRegion></affiliation></author><author><name sortKey="Kramer, Fred Russell" sort="Kramer, Fred Russell" uniqKey="Kramer F" first="Fred Russell" last="Kramer">Fred Russell Kramer</name><affiliation wicri:level="1"><country xml:lang="fr">États-Unis</country><wicri:regionArea>Public Health Research Institute, 455 First Avenue, New York, NY 10016</wicri:regionArea><wicri:noRegion>NY 10016</wicri:noRegion></affiliation></author></analytic><monogr></monogr><series><title level="j">BioSystems</title><title level="j" type="abbrev">BIO</title><idno type="ISSN">0303-2647</idno><imprint><publisher>ELSEVIER</publisher><date type="published" when="1993">1993</date><biblScope unit="volume">30</biblScope><biblScope unit="issue">1–3</biblScope><biblScope unit="page" from="215">215</biblScope><biblScope unit="page" to="231">231</biblScope></imprint><idno type="ISSN">0303-2647</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0303-2647</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="Teeft" xml:lang="en"><term>Address oligonucleotide</term><term>Address oligonucleotides</term><term>Address sets</term><term>Ambiguous region</term><term>Array</term><term>Block tata</term><term>Bold squares</term><term>Branch points</term><term>Complementary</term><term>Complementary copy</term><term>Complementary strands</term><term>Complete group</term><term>Constant segment</term><term>Different strands</term><term>Direct sequencing</term><term>Genome</term><term>Group addresses</term><term>Human genome</term><term>Hybridization</term><term>Hybridization errors</term><term>Identical address sets</term><term>Identical strand sets</term><term>Incomplete groups</term><term>Individual address</term><term>Individual addresses</term><term>Individual areas</term><term>Individual strand</term><term>Inlet arrow</term><term>Input data</term><term>Interchangeable blocks</term><term>Large genomes</term><term>Latter case</term><term>Lysov</term><term>Many times</term><term>More strands</term><term>Nucleic</term><term>Nucleic acid</term><term>Nucleic acid sequences</term><term>Nucleic acid strands</term><term>Nucleic acids</term><term>Nucleotide</term><term>Nucleotide sequence</term><term>Nucleotide sequences</term><term>Oligonucleotide</term><term>Oligonucleotide arrays</term><term>Oligonucleotides</term><term>Other strands</term><term>Outlet arrow</term><term>Output sequence</term><term>Partial</term><term>Partial sequence</term><term>Partialing</term><term>Partialing array</term><term>Physical mapping</term><term>Polymerase</term><term>Pool size</term><term>Prime sets</term><term>Publishers ireland</term><term>Repetitive</term><term>Repetitive probes</term><term>Repetitive region</term><term>Repetitive regions</term><term>Resultant partials</term><term>Same pool</term><term>Same strand</term><term>Sequence blocks</term><term>Sequence reconstruction</term><term>Sequencing</term><term>Spare sets</term><term>Strand</term><term>Strand sets</term><term>Terminal extension</term><term>Total length</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Abstract: In sequencing-by-hybridization methods, the nucleotide sequence of a nucleic acid is reconstructed by overlapping oligonucleotides capable of hybridizing with the nucleic acid. In their present form, the methods are hardly suitable for sequencing of long nucleic acid molecules because of the occurrence of non-unique overlaps between the oligonucleotides, and similarly to the conventional sequencing methods, it is necessary to obtain an individual molecule. In the method described here, most ambiguities in reconstruction of a sequence from the constituent oligonucleotides are eliminated by preparing on oligonucleotide arrays and separate surveying of the nucleic acid nested partials. This enables longer nucleic acids to be sequenced, and results in a high redundancy of the input data allowing most hybridization errors to be eliminated by algorithmic means. 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