T
Thomas L. Madden
Researcher at National Institutes of Health
Publications - 32
Citations - 112890
Thomas L. Madden is an academic researcher from National Institutes of Health. The author has contributed to research in topics: Sequence profiling tool & GenBank. The author has an hindex of 23, co-authored 29 publications receiving 101822 citations.
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Journal ArticleDOI
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Stephen F. Altschul,Thomas L. Madden,Alejandro A. Schäffer,Jinghui Zhang,Zheng Zhang,Webb Miller,David J. Lipman +6 more
TL;DR: A new criterion for triggering the extension of word hits, combined with a new heuristic for generating gapped alignments, yields a gapped BLAST program that runs at approximately three times the speed of the original.
Journal ArticleDOI
BLAST+: architecture and applications.
Christiam Camacho,George Coulouris,Vahram Avagyan,Ning Ma,Jason S. Papadopoulos,Kevin Bealer,Thomas L. Madden +6 more
TL;DR: The new BLAST command-line applications, compared to the current BLAST tools, demonstrate substantial speed improvements for long queries as well as chromosome length database sequences.
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Database resources of the National Center for Biotechnology Information
David L. Wheeler,Deanna M. Church,Ron Edgar,Scott Federhen,Wolfgang Helmberg,Thomas L. Madden,Joan Pontius,Gregory D. Schuler,Lynn M. Schriml,Edwin Sequeira,Tugba O. Suzek,Tatiana Tatusova,Lukas Wagner +12 more
TL;DR: In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources for the data in GenBank and other biological data made available through NCBI’s website.
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Primer-BLAST: A tool to design target-specific primers for polymerase chain reaction
TL;DR: A new software tool called Primer-BLAST is presented to alleviate the difficulty in designing target-specific primers and combines BLAST with a global alignment algorithm to ensure a full primer-target alignment and is sensitive enough to detect targets that have a significant number of mismatches to primers.
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NCBI BLAST: a better web interface
Mark D. Johnson,Irena Zaretskaya,Yan Raytselis,Yuri Merezhuk,Scott D. McGinnis,Thomas L. Madden +5 more
TL;DR: The public interface of BLAST at the NCBI website has recently been reengineered to improve usability and performance, and key new features include simplified search forms, improved navigation, and a list of recent BLAST results.