BLAST: a more efficient report with usability improvements

By G. Boratyn, Christiam Camacho, Peter S. Cooper, George F. Coulouris, Amelia Fong, Ning Ma, Thomas L. Madden, Wayne Matten, Scott D. McGinnis, Yuri Merezhuk and 5 more. Nucleic Acids Res., 2013

1,230 citations recorded by the source corpus.

The Basic Local Alignment Search Tool (BLAST) website at the National Center for Biotechnology (NCBI) is an important resource for searching and aligning sequences. A new BLAST report allows faster loading of alignments, adds navigation aids, allows easy downloading of subject sequences and reports and has improved usability. Here, we describe these improvements to the BLAST report, discuss design decisions, describe other improvements to the search page and database documentation and outline plans for future development. The NCBI BLAST URL is http://blast.ncbi.nlm.nih.gov.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/03e29b7002237d07f325a26823ac7a786924e64d

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Citations in the corpus

Database resources of the National Center for Biotechnology Information (2020, methodology): “SV is also the graphical viewer for Nucleotide and Protein records and the BLAST (10) and Primer-BLAST (11) results pages.”
BacMet: antibacterial biocide and metal resistance genes database (2013, background): “25) (35), forming the larger ‘BacMet Predicted database’.”
Current challenges and best-practice protocols for microbiome analysis (2019, methodology): “Due to the rapidly increasing size of sequencing datasets, the canonical BLAST-based alignment of sequences to GenBank has become impracticable [89].”
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities (2019, methodology): “However, this visualization is scalable because BLAST is only used to compute protein similarity for the focus genes within the set.”
Database resources of the National Center for Biotechnology Information (2014, methodology): “The BLAST programs (31–33) perform sequence-similarity searches against a variety of nucleotide and protein databases, returning a set of gapped alignments with links to full sequence records and related NCBI resources.”
NCBI Viral Genomes Resource (2014, background): “cgi) (54), providing fewer, higher quality sequences within search results.”