The construction of amino acid substitution matrices for the comparison of proteins with non-standard compositions.
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On the evolution of the standard amino-acid alphabetInParanoid 7: new algorithms and tools for eukaryotic orthology analysisPLAST: parallel local alignment search tool for database comparisonLocal structural differences in homologous proteins: specificities in different SCOP classesMapping the Geometric Evolution of Protein Folding MotorAn interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution matricesDetecting remote homologues using scoring matrices calculated from the estimation of amino acid substitution rates of beta-barrel membrane proteins.Query-seeded iterative sequence similarity searching improves selectivity 5-20-foldConsidering scores between unrelated proteins in the search database improves profile comparison.SIMAP--the database of all-against-all protein sequence similarities and annotations with new interfaces and increased coverageRetrieval accuracy, statistical significance and compositional similarity in protein sequence database searchesA novel series of compositionally biased substitution matrices for comparing Plasmodium proteinsGeometric aspects of biological sequence comparison.Island method for estimating the statistical significance of profile-profile alignment scoresESTIMATING THE GUMBEL SCALE PARAMETER FOR LOCAL ALIGNMENT OF RANDOM SEQUENCES BY IMPORTANCE SAMPLING WITH STOPPING TIMESThe construction and use of log-odds substitution scores for multiple sequence alignment.Compositional adjustment of Dirichlet mixture priors.A genome alignment algorithm based on compression.Decreasing the number of false positives in sequence classificationAccurate statistics for local sequence alignment with position-dependent scoring by rare-event sampling.The Janus-faced E-values of HMMER2: extreme value distribution or logistic function?SubVis: an interactive R packageĀ for exploring the effects of multiple substitution matrices on pairwise sequence alignmentA novel substitution matrix fitted to the compositional bias in Mollicutes improves the prediction of homologous relationships.Accelerating pairwise statistical significance estimation for local alignment by harvesting GPU's power.Protein database searches using compositionally adjusted substitution matricesDrug repurposing: mining protozoan proteomes for targets of known bioactive compounds.Powerful fusion: PSI-BLAST and consensus sequences.Genome-wide structural modelling of TCR-pMHC interactionsSplit-alignment of genomes finds orthologies more accurately.dissectHMMER: a HMMER-based score dissection framework that statistically evaluates fold-critical sequence segments for domain fold similarity.muBLASTP: database-indexed protein sequence search on multicore CPUs.Improved search heuristics find 20,000 new alignments between human and mouse genomesBayesian nonparametrics in protein remote homology search.GPCRtm: An amino acid substitution matrix for the transmembrane region of class A G Protein-Coupled Receptors.Genome bias influences amino acid choices: analysis of amino acid substitution and re-compilation of substitution matrices exclusive to an AT-biased genome.Discovery of Recurrent Sequence Motifs in Saccharomyces cerevisiae Cell Wall Proteins.Composition-modified matrices improve identification of homologs of saccharomyces cerevisiae low-complexity glycoproteins.A new repeat-masking method enables specific detection of homologous sequences.Conserved processes and lineage-specific proteins in fungal cell wall evolution.InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic.
P2860
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P2860
The construction of amino acid substitution matrices for the comparison of proteins with non-standard compositions.
description
2004 nĆ® lÅ«n-bĆ»n
@nan
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2004 Õ©Õ¾Õ”ÕÆÕ”Õ¶Õ« Õ°ÕøÕæÕ„Õ“Õ¢Õ„ÖÕ«Õ¶ Õ°ÖÕ”ÕæÕ”ÖÕ”ÕÆÕ¾Õ”Õ® Õ£Õ«ÕæÕ”ÕÆÕ”Õ¶ Õ°ÕøÕ¤Õ¾Õ”Õ®
@hy
2004幓ć®č«ę
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2004幓č«ę
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2004幓č«ę
@zh-hant
2004幓č«ę
@zh-hk
2004幓č«ę
@zh-mo
2004幓č«ę
@zh-tw
2004幓č®ŗę
@wuu
name
The construction of amino acid ...... ith non-standard compositions.
@ast
The construction of amino acid ...... ith non-standard compositions.
@en
type
label
The construction of amino acid ...... ith non-standard compositions.
@ast
The construction of amino acid ...... ith non-standard compositions.
@en
prefLabel
The construction of amino acid ...... ith non-standard compositions.
@ast
The construction of amino acid ...... ith non-standard compositions.
@en
P2860
P356
P1433
P1476
The construction of amino acid ...... ith non-standard compositions.
@en
P2093
Stephen F Altschul
P2860
P304
P356
10.1093/BIOINFORMATICS/BTI070
P407
P577
2004-10-27T00:00:00Z