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» Designing seeds for similarity search in genomic DNA
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BMCBI
2004
120views more  BMCBI 2004»
13 years 5 months ago
Optimal cDNA microarray design using expressed sequence tags for organisms with limited genomic information
Background: Expression microarrays are increasingly used to characterize environmental responses and hostparasite interactions for many different organisms. Probe selection for cD...
Yian A. Chen, David J. Mckillen, Shuyuan Wu, Matth...
RIVF
2008
13 years 7 months ago
Speeding up subset seed algorithm for intensive protein sequence comparison
Abstract--Sequence similarity search is a common and repeated task in molecular biology. The rapid growth of genomic databases leads to the need of speeding up the treatment of thi...
Van Hoa Nguyen, Dominique Lavenier
LREC
2008
125views Education» more  LREC 2008»
13 years 7 months ago
Similar Term Discovery using Web Search
We present an approach to the discovery of semantically similar terms that utilizes a web search engine as both a source for generating related terms and a tool for estimating the...
Peter G. Anick, Vijay Murthi, Shaji Sebastian
BMCBI
2007
123views more  BMCBI 2007»
13 years 5 months ago
Tracembler - software for in-silico chromosome walking in unassembled genomes
Background: Whole genome shotgun sequencing produces increasingly higher coverage of a genome with random sequence reads. Progressive whole genome assembly and eventual finishing ...
Qunfeng Dong, Matthew D. Wilkerson, Volker Brendel
BMCBI
2006
108views more  BMCBI 2006»
13 years 5 months ago
Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress
Background: In our previous studies, we found that the sites in prokaryotic genomes which are most susceptible to duplex destabilization under the negative superhelical stresses t...
Huiquan Wang, Craig J. Benham