Literature DB >> 11159321

MPBLAST : improved BLAST performance with multiplexed queries.

I Korf1, W Gish.   

Abstract

UNLABELLED: We have developed a program, MPBLAST, that increases the throughput of batch BLASTN searches by multiplexing (concatenating) query sequences and thereby reducing the number of actual database searches performed. Throughput was observed to increase in reciprocal proportion to the component sequence length. For sequencing read-sized queries of 500 bp, an order of magnitude speed-up was seen. AVAILABILITY: Free (see http://blast.wustl.edu) CONTACT: [ikorf, gish]@watson.wustl.edu

Mesh：

Year:  2000        PMID： 11159321     DOI： 10.1093/bioinformatics/16.11.1052

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  7 in total

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2.  Automated Gene Ontology annotation for anonymous sequence data.

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3.  Genome sequencing reveals mechanisms for heavy metal resistance and polycyclic aromatic hydrocarbon degradation in Delftia lacustris strain LZ-C.

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4.  Automated generation of heuristics for biological sequence comparison.

Authors:  Guy St C Slater; Ewan Birney
Journal:  BMC Bioinformatics       Date:  2005-02-15       Impact factor: 3.169

5.  Fast batch searching for protein homology based on compression and clustering.

Authors:  Hongwei Ge; Liang Sun; Jinghong Yu
Journal:  BMC Bioinformatics       Date:  2017-11-21       Impact factor: 3.169

6.  Slider--maximum use of probability information for alignment of short sequence reads and SNP detection.

Authors:  Nawar Malhis; Yaron S N Butterfield; Martin Ester; Steven J M Jones
Journal:  Bioinformatics       Date:  2008-10-30       Impact factor: 6.937

7.  miBLAST: scalable evaluation of a batch of nucleotide sequence queries with BLAST.

Authors:  You Jung Kim; Andrew Boyd; Brian D Athey; Jignesh M Patel
Journal:  Nucleic Acids Res       Date:  2005-08-01       Impact factor: 16.971
  7 in total

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