Getting the most from PSI-BLAST.

Keywords

Sequence homology, Homology (biology), Computer science, Key (lock), Data science

References

• Homology-based fold predictions for Mycoplasma genitalium proteins.Martijn A. Huynen, Tobias Doerks, Frank Eisenhaber — 1998
• Local sequence alignments with monotonic gap penaltiesRichard Mott — 1999
• The structure of the superantigen exfoliative toxin A suggests a novel regulation as a serine protease.Gregory M. Vath, C.A. Earhart, James V. Rago — 1997
• Benchmarking PSI-BLAST in genome annotation.Arne Müller, Robert M. MacCallum, Michael J.E. Sternberg — 1999
• Iterated profile searches with PSI-BLAST--a tool for discovery in protein databases.Stephen F. Altschul, Eugene V. Koonin — 1998
• Predicting coiled coils from protein sequencesAndrei N. Lupas, Marc Van Dyke, Jeff Stock — 1991
• Statistics of Local Complexity in Amino Acid Sequences and Sequence DatabasesJohn C. Wootton, Scott Federhen — 1993
• Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods.Jong Moon Park, Kevin Karplus, Christian Barrett — 1998
• Accurate formula for P-values of gapped local sequence and profile alignments.Richard Mott — 2000
• Identification of common molecular subsequences.Temple F. Smith, Michael S. Waterman — 1981
• A model recognition approach to the prediction of all-helical membrane protein structure and topology.David T. Jones, William R. Taylor, Janet M. Thornton — 1994
• Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements.A. A. Schaffer — 2001
• Combining sensitive database searches with multiple intermediates to detect distant homologues.Asaf Salamov, Makiko Suwa, Christine Orengo — 1999
• NMR structure of the histidine kinase domain of the E. coli osmosensor EnvZToshiyuki Tanaka, Soumitra Kumar Saha, Chieri Tomomori — 1998
• Positionally cloned human disease genes: patterns of evolutionary conservation and functional motifs.Arcady Mushegian, Douglas E. Bassett, Mark S. Boguski — 1997
• Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.Stephen F. Altschul — 1997
• CAST OF NEW PLAYERS: A PROFILE OF NEW PRECAST GELS FOR NUCLEIC ACIDM. Brush — 1999

Cited by

• Prediction of protein relative solvent accessibility with support vector machines and long‐range interaction 3D local descriptor貴之 熊澤 — 2004
• A robust method to detect structural and functional remote homologuesOri Shachar, Michal Linial — 2004
• FFPred 2.0: Improved Homology-Independent Prediction of Gene Ontology Terms for Eukaryotic Protein SequencesGary C. Wood — 2013
• Assessing the quality of modelled 3D protein structures using the ModFOLD server.Daniel B. Roche, Maria T. Buenavista, Liam J. McGuffin — 2014
• High specificity automatic function assignment for enzyme sequencesDan Roden — 2011
• Cellular subversion: towards a complete repertoire of type-III secretion system effectors in enterohaemorrhagic Escherichia coli O157:H7S. Matthews — 2010
• Target selection and deselection at the Berkeley Structural Genomics CenterJohn‐Marc Chandonia, Sung‐Hou Kim, Steven E. Brenner — 2005
• Neuroimaging databases as a resource for scientific discovery.John D. Van Horn, John K. Wolfe, Autumn Agnoli — 2005
• Sequence patterns mediating functions of disordered proteins.Konstantinos Exarchos, Κωνσταντίνα Κούρου, Themis P. Exarchos — 2015
• Aligning sequences to structures.Liam J. McGuffin — 2008
• Human protein function prediction : application of machine learning for integration of heterogeneous data sourcesAnna Lobley — 2010
• A Bioinformatics Analysis of Bacterial Type-III Secretion System Genes and ProteinsChristopher M. Bailey — 2010
• Protein structure prediction Zinc-binding sites, one-dimensional structure and remote homologyNanjiang Shu — 2010
• Developing a novel method for homology detection of transmembrane proteinsNaama Hurwitz — 2013
• Sélection de modèle par chemin de régularisation pour les machines à vecteurs support à coût quadratique. (Model selection using regularization path for quadratic cost support vector machines)Rémi Bonidal — 2013
• Structural genomics of Mycobacterium tuberculosis.J. Johnston — 2004
• From Sequence to Structure And Back Again: An Alignment TaleV. A. Simossis — 2005
• Using BLAST for Performing Sequence AlignmentMatthew D. Healy — 2007
• nm23-H1基因转染前后人高转移大细胞肺癌细胞株的比较蛋白质组学研究Liwei Gao, Wen Zhu, Lu Li — 2010
• Classification of response regulators based on their surface properties.Douglas J. Kojetin, Daniel M. Sullivan, Richele J. Thompson — 2007

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