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Substitution matrix
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1	Aligning protein sequences with predicted secondary structure John Kececioglu∗ Eagu Kim† Add to Reading List Source URL: www.cs.arizona.edu Language: English - Date: 2010-03-22 00:58:21 Bioinformatics Computational phylogenetics Biology Mathematical and theoretical biology Sequence alignment Multiple sequence alignment Substitution matrix BLOSUM Protein secondary structure Dynamic programming PSIPRED Substitution model
2	Vol. 1 noPages 1–1 BIOINFORMATICS Using an alignment of fragment strings for Add to Reading List Source URL: iddo-friedberg.net Language: English - Date: 2013-02-06 13:49:51 Bioinformatics Biology Computational phylogenetics Protein methods Matrices Protein structure Sequence alignment Substitution matrix Multiple sequence alignment BLOSUM Protein structure prediction Structural alignment
3	Local Packing Density Is the Main Structural Determinant of the Rate of Protein Sequence Evolution at Site Level Add to Reading List Source URL: www.ncbi.nlm.nih.gov Language: English Biology Bioinformatics Protein structure Computational phylogenetics Nucleic acids Solvents Nucleic acid sequence Substitution matrix Sequence alignment Protein domain STING Solvent exposure
4	IEEE TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, VOL. 5, NO. 4, Add to Reading List Source URL: www.cs.arizona.edu Language: English - Date: 2008-10-07 19:38:46 Bioinformatics Computational phylogenetics Multiple sequence alignment Sequence alignment Linear regression BLOSUM Phylo Equation solving Substitution matrix Hidden Markov model Clustal BLAST
5	© 2004 Nature Publishing Group http://www.nature.com/naturebiotechnology _computational BIOLOGY PRIMER Add to Reading List Source URL: bioinfo.ict.ac.cn Language: English - Date: 2014-11-28 11:09:46 Bioinformatics Computational phylogenetics BLOSUM Sequence alignment BLAST FASTA Homology Position weight matrix Matrix Substitution matrix Multiple sequence alignment
6	Switching Between Stabilizing Controllers 3 Jo˜ao P. Hespanha 1 Dept. of Electrical and Computer Engineering, University of California, Santa Barbara, CA Add to Reading List Source URL: www.ece.ucsb.edu Language: English - Date: 2016-08-11 19:54:32 Control theory Mathematical modeling State-space representation Dynamical system Matrix Substitution Holomorphic functional calculus
7	J. Mol. Bwl, A General Method Applicable to the Search for Similarities in the Amino Acid Sequence of Two Proteins SAGLB. NEEDLE>=ASD CHRISTUS D. WUKSCH Department of Biochemistry, Northwestern Univers Add to Reading List Source URL: bioinfo.ict.ac.cn Language: English - Date: 2014-11-28 11:05:21 Molecular biology Genetics Bioinformatics Molecular genetics Protein biosynthesis Genetic code Amino acid Protein Point mutation Mutation Substitution matrix BLOSUM
8	Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach Peter Beerli* and Joseph Felsenstein Department of Genetics, University of Washington, Add to Reading List Source URL: evolution.gs.washington.edu Language: English - Date: 2012-05-07 19:04:34 Statistics Statistical theory Statistical genetics Estimation theory Population genetics Coalescent theory M-estimators Maximum likelihood estimation Likelihood-ratio test Likelihood function Substitution model Confidence interval
9	183 EVALUATION OF SEQUENCE ALIGNMENTS OF DISTANTLY RELATED SEQUENCE PAIRS WITH RESPECT TO STRUCTURAL SIMILARITY AYSAM GÜRLER Add to Reading List Source URL: www.jsbi.org Language: English - Date: 2007-09-27 22:33:12 Bioinformatics Biology Computational phylogenetics Protein methods Protein structure Matrices Sequence alignment Structural alignment BLAST FASTA Substitution matrix Sequence analysis
10	Construction of Phylogenetic Trees from Amino Acid Sequences using a Genetic Algorithm Hideo Matsuda Add to Reading List Source URL: www.jsbi.org Language: English - Date: 1998-01-09 02:50:08 Computational phylogenetics Phylogenetics Biology Bioinformatics Multiple sequence alignment Neighbor joining PHYLIP Maximum parsimony Sequence alignment Phylogenetic tree Substitution matrix UPGMA

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