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PLAN: a web platform for automating high-throughput BLAST searches and for managing and mining results
Ji He1, Xinbin Dai, Xuechun Zhao
1Bioinformatics Lab, Plant Biology Division, Samuel Roberts Noble Foundation, 2510 Sam Noble Parkway, Ardmore, OK 73401, USA. jhe@noble.org <jhe@noble.org>
BMC Bioinformatics
|February 13, 2007
Summary
Personal BLAST Navigator (PLAN) streamlines high-throughput sequence alignment analysis by automating BLAST searches and managing results. This platform enhances knowledge discovery and data sharing for genomics researchers.
Area of Science:
- Genomics
- Bioinformatics
- Computational Biology
Background:
- BLAST searches are crucial for sequence alignment and functional genomics.
- High-throughput sequencing generates large datasets, challenging traditional analysis.
- Existing solutions lack generic software for managing and mining BLAST results.
Purpose of the Study:
- To develop a versatile web platform for personalized pre- and post-BLAST tasks.
- To address the need for efficient management and analysis of large-scale sequence alignment data.
- To facilitate automated high-throughput BLAST searching and result interpretation.
Main Methods:
- Personal BLAST Navigator (PLAN) web platform.
- Integration with hardware-accelerated BLAST solutions (Decypher).
- Features include database management, automated searching, result indexing, filtering, annotation, and project organization.
Main Results:
- PLAN offers automated high-throughput BLAST searching and personalized result management.
- Results are visualized in spreadsheets and graphs, with full-text search capabilities.
- Automated sequence annotation and data export in various formats (Excel, FASTA) are supported.
Conclusions:
- PLAN enhances knowledge discovery, management, and sharing from sequence alignment results.
- The platform is user-intuitive, platform-independent, and easily configurable.
- PLAN is freely available to academic users with provided support and open-source code.
