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New powerful statistics for alignment-free sequence comparison under a pattern transfer model.

Abstract:

Alignment-free sequence comparison is widely used for comparing gene regulatory regions and for identifying horizontally transferred genes. Recent studies on the power of a widely used alignment-free comparison statistic D2 and its variants D*2 and D(s)2 showed that their power approximates a limit smaller than 1 as the sequence length tends to infinity under a pattern transfer model. We develop new alignment-free statistics based on D2, D*2 and D(s)2 by comparing local sequence pairs and the...

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Publication status:
Published

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Publisher copy:
10.1016/j.jtbi.2011.06.020

Authors


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Institution:
University of Oxford
Division:
MPLS
Department:
Statistics
Role:
Author
Journal:
Journal of theoretical biology More from this journal
Volume:
284
Issue:
1
Pages:
106-116
Publication date:
2011-09-01
DOI:
EISSN:
1095-8541
ISSN:
0022-5193
Language:
English
Keywords:
Pubs id:
pubs:166770
UUID:
uuid:cee784d0-0c05-4511-8803-074f292e3415
Local pid:
pubs:166770
Source identifiers:
166770
Deposit date:
2012-12-19

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