Nucleic Acids Research, Vol 25, Issue 17 3389-3402, Copyright © 1997 by Oxford University Press
SF Altschul, TL Madden, AA Schaffer, J Zhang, Z Zhang, W Miller and DJ Lipman
The BLAST programs are widely used tools for searching protein and DNA
databases for sequence similarities. For protein comparisons, a variety of
definitional, algorithmic and statistical refinements described here
permits the execution time of the BLAST programs to be decreased
substantially while enhancing their sensitivity to weak similarities. 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. In
addition, a method is introduced for automatically combining statistically
significant alignments produced by BLAST into a position-specific score
matrix, and searching the database using this matrix. The resulting
Position-Specific Iterated BLAST (PSI-BLAST) program runs at approximately
the same speed per iteration as gapped BLAST, but in many cases is much
more sensitive to weak but biologically relevant sequence similarities.
PSI-BLAST is used to uncover several new and interesting members of the
BRCT superfamily.
REVIEWS
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA. altschul@ncbi.nlm.nih.gov
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|
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|
|
|
|
|
|
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|
|
|
|
 |
|
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|
|
|
|
 |
|
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|
|
|
|
|
|
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|
|
|
|
 |
|
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|
|
|
|
|
|
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|
|
|
|
 |
|
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|
|
|
|
 |
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|
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|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
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|
|
|
|
|
|
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|
|
|
|
|
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|
|
|
|
 |
|
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|
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S. Qin, J. Li, H.-H. Chen, G.-Z. Zhao, W.-Y. Zhu, C.-L. Jiang, L.-H. Xu, and W.-J. Li Isolation, Diversity, and Antimicrobial Activity of Rare Actinobacteria from Medicinal Plants of Tropical Rain Forests in Xishuangbanna, China Appl. Envir. Microbiol., October 1, 2009; 75(19): 6176 - 6186. [Abstract] [Full Text] [PDF]
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 B. Czesny, S. Goshu, J. L. Cook, and K. C. Williamson The Proteasome Inhibitor Epoxomicin Has Potent Plasmodium falciparum Gametocytocidal Activity Antimicrob. Agents Chemother., October 1, 2009; 53(10): 4080 - 4085. [Abstract] [Full Text] [PDF]
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Y. Ito, Y. Kawai, K. Arakawa, Y. Honme, T. Sasaki, and T. Saito Conjugative Plasmid from Lactobacillus gasseri LA39 That Carries Genes for Production of and Immunity to the Circular Bacteriocin Gassericin A Appl. Envir. Microbiol., October 1, 2009; 75(19): 6340 - 6351. [Abstract] [Full Text] [PDF]
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J. Boguslawska, J. Zycka-Krzesinska, A. Wilcks, and J. Bardowski Intra- and Interspecies Conjugal Transfer of Tn916-Like Elements from Lactococcus lactis In Vitro and In Vivo Appl. Envir. Microbiol., October 1, 2009; 75(19): 6352 - 6360. [Abstract] [Full Text] [PDF]
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J. Vyas, M. R. Gryk, and M. R. Schiller VENN, a tool for titrating sequence conservation onto protein structures Nucleic Acids Res., October 1, 2009; 37(18): e124 - e124. [Abstract] [Full Text] [PDF]
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R. Schwarz, P. N. Seibel, S. Rahmann, C. Schoen, M. Huenerberg, C. Muller-Reible, T. Dandekar, R. Karchin, J. Schultz, and T. Muller Detecting species-site dependencies in large multiple sequence alignments Nucleic Acids Res., October 1, 2009; 37(18): 5959 - 5968. [Abstract] [Full Text] [PDF]
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P. S. Kourtev, C. H. Nakatsu, and A. Konopka Inhibition of Nitrate Reduction by Chromium(VI) in Anaerobic Soil Microcosms Appl. Envir. Microbiol., October 1, 2009; 75(19): 6249 - 6257. [Abstract] [Full Text] [PDF]
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S. N. Gardner, A. L. Hiddessen, P. L. Williams, C. Hara, M. C. Wagner, and B. W. Colston Jr Multiplex primer prediction software for divergent targets Nucleic Acids Res., October 1, 2009; 37(19): 6291 - 6304. [Abstract] [Full Text] [PDF]
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 M. Candela, E. Biagi, M. Centanni, S. Turroni, M. Vici, F. Musiani, B. Vitali, S. Bergmann, S. Hammerschmidt, and P. Brigidi Bifidobacterial enolase, a cell surface receptor for human plasminogen involved in the interaction with the host Microbiology, October 1, 2009; 155(10): 3294 - 3303. [Abstract] [Full Text] [PDF]
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C. Liang, L. Mao, D. Ware, and L. Stein Evidence-based gene predictions in plant genomes Genome Res., October 1, 2009; 19(10): 1912 - 1923. [Abstract] [Full Text] [PDF]
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 A. Dowejko, R. J. Bauer, U. D.A. Muller-Richter, and T. E. Reichert The human homolog of the Drosophila headcase protein slows down cell division of head and neck cancer cells Carcinogenesis, October 1, 2009; 30(10): 1678 - 1685. [Abstract] [Full Text] [PDF]
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M. C. Voicu, J. E. K. Cooke, and J. J. Zwiazek Aquaporin gene expression and apoplastic water flow in bur oak (Quercus macrocarpa) leaves in relation to the light response of leaf hydraulic conductance J. Exp. Bot., October 1, 2009; 60(14): 4063 - 4075. [Abstract] [Full Text] [PDF]
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K. Forslund and E. L. Sonnhammer Benchmarking homology detection procedures with low complexity filters Bioinformatics, October 1, 2009; 25(19): 2500 - 2505. [Abstract] [Full Text] [PDF]
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 J. P. Foxe and S. I. Wright Signature of Diversifying Selection on Members of the Pentatricopeptide Repeat Protein Family in Arabidopsis lyrata Genetics, October 1, 2009; 183(2): 663 - 672. [Abstract] [Full Text] [PDF]
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D.-D. Wu, G.-D. Wang, D. M Irwin, and Y.-P. Zhang A Profound Role for the Expansion of Trypsin-Like Serine Protease Family in the Evolution of Hematophagy in Mosquito Mol. Biol. Evol., October 1, 2009; 26(10): 2333 - 2341. [Abstract] [Full Text] [PDF]
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J. Gu and V. J. Hilser Sequence-Based Analysis of Protein Energy Landscapes Reveals Nonuniform Thermal Adaptation within the Proteome Mol. Biol. Evol., October 1, 2009; 26(10): 2217 - 2227. [Abstract] [Full Text] [PDF]
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E. A. Franzosa and Y. Xia Structural Determinants of Protein Evolution Are Context-Sensitive at the Residue Level Mol. Biol. Evol., October 1, 2009; 26(10): 2387 - 2395. [Abstract] [Full Text] [PDF]
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A. K. Ghosh, N. Chauhan, S. Rajakumari, G. Daum, and R. Rajasekharan At4g24160, a Soluble Acyl-Coenzyme A-Dependent Lysophosphatidic Acid Acyltransferase Plant Physiology, October 1, 2009; 151(2): 869 - 881. [Abstract] [Full Text] [PDF]
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Z. Tao, H. Liu, D. Qiu, Y. Zhou, X. Li, C. Xu, and S. Wang A Pair of Allelic WRKY Genes Play Opposite Roles in Rice-Bacteria Interactions Plant Physiology, October 1, 2009; 151(2): 936 - 948. [Abstract] [Full Text] [PDF]
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A. Bertucci, E. Tambutte, S. Tambutte, D. Allemand, and D. Zoccola Symbiosis-dependent gene expression in coral-dinoflagellate association: cloning and characterization of a P-type H+-ATPase gene Proc R Soc B, September 30, 2009; (2009) rspb.2009.1266v1. [Abstract] [Full Text] [PDF]
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E. van den Born, A. Bekkelund, M. N. Moen, M. V. Omelchenko, A. Klungland, and P. O. Falnes Bioinformatics and functional analysis define four distinct groups of AlkB DNA-dioxygenases in bacteria Nucleic Acids Res., September 28, 2009; (2009) gkp774v1. [Abstract] [Full Text] [PDF]
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L. Zhao, H. Dong, C. C. Zhang, L. Kinch, M. Osawa, M. Iacovino, N. V. Grishin, M. Kyba, and L. J.-s. Huang A JAK2 Interdomain Linker Relays Epo Receptor Engagement Signals to Kinase Activation J. Biol. Chem., September 25, 2009; 284(39): 26988 - 26998. [Abstract] [Full Text] [PDF]
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O. Zhaxybayeva, W. F. Doolittle, R. T. Papke, and J. P. Gogarten Intertwined Evolutionary Histories of Marine Synechococcus and Prochlorococcus marinus Gen Biol Evol, September 23, 2009; 2009(0): 325 - 339. [Abstract] [Full Text] [PDF]
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