Bioinformatics BLAST processing Workflow

Created: 2011-04-05 21:17:52      Last updated: 2011-04-05 21:43:46

This is a simple workflow demonstrating a sequence Basic Local Alignment Search Tool (BLAST).

This workflow shows an example of a common bioinformatics pipeline workflow using tools from several different institutions. This workflow starts by formatting the NCIBI/NCBI Escherichia coli (E. coli) database, creating a database-index table, using a FASTA query instructions to create a filtering file, and finally running miBLAST, an efficient Basic Local Alignment Search Tool (BLAST) for batch of nucleotide sequence queries. Such batch workloads contain a large number of query sequences and can be evaluated for each individual query one at time. We have integrated NCBI BLAST with miBLAST (University of Michigan) to improve the sequence search and alignment efficiency without any loss in sensitivity. miBLAST employs a q-gram indexing and a filtering algorithm for quickly detecting sequence similarity between the query sequences and the database sequences, which results in a substantial increase in overall performance. This bioinformatics pipeline workflow specifies a FASTA database, the size of the search word and a set of search instructions, performs the P+BLAST search and completes in 1 minute. The nested insert images illustrate a fragment of the final alignment results of this pipeline.


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