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rdf:type |
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lifeskim:mentions |
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pubmed:dateCreated |
2007-7-11
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pubmed:databankReference |
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pubmed:abstractText |
Tiling microarrays are becoming an essential technology in the functional genomics toolbox. They have been applied to the tasks of novel transcript identification, elucidation of transcription factor binding sites, detection of methylated DNA and several other applications in several model organisms. These experiments are being conducted at increasingly finer resolutions as the microarray technology enjoys increasingly greater feature densities. The increased densities naturally lead to increased data analysis requirements. Specifically, the most widely employed algorithm for tiling array analysis involves smoothing observed signals by computing pseudomedians within sliding windows, a O(n2logn) calculation in each window. This poor time complexity is an issue for tiling array analysis and could prove to be a real bottleneck as tiling microarray experiments become grander in scope and finer in resolution.
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pubmed:grant |
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pubmed:commentsCorrections |
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-11101804,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-11752295,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-11988577,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-14993201,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-15461792,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-15499007,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-15539566,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-15961467,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-15979196,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-16046496,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-16127451,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-16365382,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-16672042,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-16787969,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-17038339,
http://linkedlifedata.com/resource/pubmed/commentcorrection/17555595-17060914
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:status |
MEDLINE
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pubmed:issn |
1471-2105
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pubmed:author |
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pubmed:issnType |
Electronic
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pubmed:volume |
8
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
186
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pubmed:dateRevised |
2009-11-18
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pubmed:meshHeading |
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pubmed:year |
2007
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pubmed:articleTitle |
An efficient pseudomedian filter for tiling microrrays.
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pubmed:affiliation |
Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA. thomas.royce@yale.edu <thomas.royce@yale.edu>
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pubmed:publicationType |
Journal Article,
Evaluation Studies,
Research Support, N.I.H., Extramural
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