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SW-ARRAY :
SW-ARRAY : a dynamic programming solution for the identification of copy-number changes in genomic DNA using array comparative genome hybridization data.
- Article/chapterEnglish2005
Publisher, publication year, extent ...
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Oxford University Press (OUP),2005
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printrdacarrier
Numbers
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LIBRIS-ID:oai:DiVA.org:uu-275669
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https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-275669URI
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https://doi.org/10.1093/nar/gki643DOI
Supplementary language notes
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Language:English
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Summary in:English
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Subject category:ref swepub-contenttype
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Subject category:art swepub-publicationtype
Notes
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Comparative genome hybridization (CGH) to DNA microarrays (array CGH) is a technique capable of detecting deletions and duplications in genomes at high resolution. However, array CGH studies of the human genome noting false negative and false positive results using large insert clones as probes have raised important concerns regarding the suitability of this approach for clinical diagnostic applications. Here, we adapt the Smith-Waterman dynamic-programming algorithm to provide a sensitive and robust analytic approach (SW-ARRAY) for detecting copy-number changes in array CGH data. In a blind series of hybridizations to arrays consisting of the entire tiling path for the terminal 2 Mb of human chromosome 16p, the method identified all monosomies between 267 and 1567 kb with a high degree of statistical significance and accurately located the boundaries of deletions in the range 267-1052 kb. The approach is unique in offering both a nonparametric segmentation procedure and a nonparametric test of significance. It is scalable and well-suited to high resolution whole genome array CGH studies that use array probes derived from large insert clones as well as PCR products and oligonucleotides.
Subject headings and genre
Added entries (persons, corporate bodies, meetings, titles ...)
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Regan, Regina
(author)
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Mott, Richard
(author)
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Hedman, Åsa
(author)
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Honey, Ben
(author)
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Daniels, Rachael J
(author)
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Smith, Lee
(author)
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Greenfield, Andy
(author)
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Tiganescu, Ana
(author)
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Buckle, Veronica
(author)
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Ventress, Nicki
(author)
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Ayyub, Helena
(author)
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Salhan, Anita
(author)
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Pedraza-Diaz, Susana
(author)
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Broxholme, John
(author)
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Ragoussis, Jiannis
(author)
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Higgs, Douglas R
(author)
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Flint, Jonathan
(author)
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Knight, Samantha J L
(author)
Related titles
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In:Nucleic Acids Research: Oxford University Press (OUP)33:110305-10481362-4962
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- By the author/editor
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Price, Thomas S
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Regan, Regina
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Mott, Richard
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Hedman, Åsa
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Honey, Ben
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Daniels, Rachael ...
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show more...
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Smith, Lee
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Greenfield, Andy
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Tiganescu, Ana
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Buckle, Veronica
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Ventress, Nicki
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Ayyub, Helena
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Salhan, Anita
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Pedraza-Diaz, Su ...
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Broxholme, John
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Ragoussis, Jiann ...
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Higgs, Douglas R
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Flint, Jonathan
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Knight, Samantha ...
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Computer and Inf ...
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and Bioinformatics
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Nucleic Acids Re ...
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Uppsala University