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» Algorithmically Independent Sequences
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136
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RECOMB
2002
Springer
16 years 2 months ago
Deconvolving sequence variation in mixed DNA populations
We present an original approach to identifying sequence variants in a mixed DNA population from sequence trace data. The heart of the method is based on parsimony: given a wildtyp...
Andy Wildenberg, Steven Skiena, Pavel Sumazin
DNA
2005
Springer
15 years 8 months ago
Two Proteins for the Price of One: The Design of Maximally Compressed Coding Sequences
Abstract. The emerging field of synthetic biology moves beyond conventional genetic manipulation to construct novel life forms which do not originate in nature. We explore the pro...
Bei Wang, Dimitris Papamichail, Steffen Mueller, S...
93
Voted
IPPS
2002
IEEE
15 years 7 months ago
Aligning Two Fragmented Sequences
Upon completion of the human and mouse genome sequences, world-wide sequencing capacity will turn to other complex organisms. Current strategies call for many of these genomes to ...
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
112
Voted
SDM
2008
SIAM
112views Data Mining» more  SDM 2008»
15 years 3 months ago
A pattern mining approach toward discovering generalized sequence signatures
Typically, sequence signatures, such as motifs and domains, are assumed to be localized in one region of a sequence or are derived as combinations of the former. We generalize the...
Dietmar H. Dorr, Anne Denton
141
Voted
KDD
2008
ACM
217views Data Mining» more  KDD 2008»
16 years 2 months ago
Stream prediction using a generative model based on frequent episodes in event sequences
This paper presents a new algorithm for sequence prediction over long categorical event streams. The input to the algorithm is a set of target event types whose occurrences we wis...
Srivatsan Laxman, Vikram Tankasali, Ryen W. White