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      NCBI BLAST: a better web interface

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          Abstract

          Basic Local Alignment Search Tool (BLAST) is a sequence similarity search program. The public interface of BLAST, http://www.ncbi.nlm.nih.gov/blast, at the NCBI website has recently been reengineered to improve usability and performance. Key new features include simplified search forms, improved navigation, a list of recent BLAST results, saved search strategies and a documentation directory. Here, we describe the BLAST web application's new features, explain design decisions and outline plans for future improvement.

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          BLAST: improvements for better sequence analysis

          Jian Ye, Scott McGinnis, Thomas Madden (2006)
          Basic local alignment search tool (BLAST) is a sequence similarity search program. The National Center for Biotechnology Information (NCBI) maintains a BLAST server with a home page at . We report here on recent enhancements to the results produced by the BLAST server at the NCBI. These include features to highlight mismatches between similar sequences, show where the query was masked for low-complexity sequence, and integrate information about the database sequences from the NCBI Entrez system into the BLAST display. Changes to how the database sequences are fetched have also improved the speed of the report generator.
          Article 0 comments Cited 201 times – based on 0 reviews     Review now
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            Improved sensitivity of nucleic acid database searches using application-specific scoring matrices

            D States, C Gish, S Altschul (1991)
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              BLAST

              B.R. Korf, M Yandell, S. J. Bedell (2011)
              Article 0 comments Cited 19 times – based on 0 reviews     Review now
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                Author and article information

                Journal
                Journal ID (nlm-ta): Nucleic Acids Res
                Journal ID (iso-abbrev): Nucleic Acids Res
                Journal ID (publisher-id): nar
                Journal ID (hwp): nar
                Title: Nucleic Acids Research
                Publisher: Oxford University Press
                ISSN (Print): 0305-1048
                ISSN (Electronic): 1362-4962
                Publication date (Print): 1 July 2008
                Publication date (Electronic): 24 April 2008
                Publication date PMC-release: 24 April 2008
                Volume: 36
                Issue: Web Server issue
                Pages: W5-W9
                Affiliations
                National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA
                Author notes
                *To whom correspondence should be addressed. +1 301 435 5991+1 301 480 0814 madden@ 123456ncbi.nlm.nih.gov
                Article
                Publisher ID: gkn201
                DOI: 10.1093/nar/gkn201
                PMC ID: 2447716
                PubMed ID: 18440982
                SO-VID: 97553f47-36b6-41de-85ce-c4b02acbeeaf
                Copyright © © 2008 The Author(s)
                License:

                This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                Date received : 30 January 2008
                Date revision received : 18 March 2008
                Date accepted : 4 April 2008
                Categories
                Subject: Articles

                ScienceOpen disciplines: Genetics
                Data availability:
                ScienceOpen disciplines: Genetics

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