Scores for sequence searches and alignments (Q41109981)

26 September 2017

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title

Scores for sequence searches and alignments (English)

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26 September 2017

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Henikoff S

1

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26 September 2017

publication date

1 June 1996

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Current Opinion in Structural Biology

26 September 2017

published in

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26 September 2017

volume

6

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26 September 2017

issue

3

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26 September 2017

page(s)

353-360

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From genome sequences to protein function

26 September 2017

cites work

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Phosphotransferase sequence homology

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

PROSITE: a dictionary of sites and patterns in proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Profile analysis: detection of distantly related proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Amino acid substitution matrices from an information theoretic perspective

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Amino acid difference formula to help explain protein evolution

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Two types of amino acid substitutions in protein evolution

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Aligning amino acid sequences: Comparison of commonly used methods

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

New scoring matrix for amino acid residue exchanges based on residue characteristic physical parameters

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A new substitution matrix for protein sequence searches based on contact frequencies in protein structures

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Performance evaluation of amino acid substitution matrices

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Amino acid substitution during functionally constrained divergent evolution of protein sequences.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Exhaustive matching of the entire protein sequence database

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Amino acid substitution matrices from protein blocks

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Automated assembly of protein blocks for database searching

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Amino acid substitutions in structurally related proteins. A pattern recognition approach. Determination of a new and efficient scoring matrix.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Environment-specific amino acid substitution tables: tertiary templates and prediction of protein folds

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A Structural Basis for Sequence Comparisons

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Comparison of methods for searching protein sequence databases.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

An Assessment of Amino Acid Exchange Matrices in Aligning Protein Sequences: The Twilight Zone Revisited

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Motif-biased protein sequence alignment.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Maximum-likelihood estimation of the statistical distribution of Smith-Waterman local sequence similarity scores

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Sequence alignment and penalty choice. Review of concepts, case studies and implications

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A Method to Identify Protein Sequences That Fold into a Known Three-Dimensional Structure

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Hidden Markov models in computational biology. Applications to protein modeling

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Hidden Markov models of biological primary sequence information

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Maximum discrimination hidden Markov models of sequence consensus

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Detection of conserved segments in proteins: iterative scanning of sequence databases with alignment blocks

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Improving the sensitivity of the sequence profile method

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Systematic method for the detection of potential lambda Cro-like DNA-binding regions in proteins.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Some useful statistical properties of position-weight matrices

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Position-based sequence weights

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Database of homology-derived protein structures and the structural meaning of sequence alignment

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

The HSSP database of protein structure-sequence alignments

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

The multiplicity of domains in proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

An investigation of conservation-biased gap-penalties for multiple protein sequence alignment.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A protein alignment scoring system sensitive at all evolutionary distances

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Assessment of protein models with three-dimensional profiles

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Statistics of sequence-structure threading

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A large-scale experiment to assess protein structure prediction methods.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Protein structure prediction by threading methods: evaluation of current techniques

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Fold recognition and ab initio structure predictions using hidden Markov models and beta-strand pair potentials

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A simple and fast approach to prediction of protein secondary structure from multiply aligned sequences with accuracy above 70%.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Improved alignment of weakly homologous protein sequences using structural information.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Recognition of related proteins by iterative template refinement (ITR)

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A sequence property approach to searching protein databases

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

New alignment strategy for transmembrane proteins.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A mutation data matrix for transmembrane proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Analysis of amino acid substitution during divergent evolution: the 400 by 400 dipeptide substitution matrix.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Recurring local sequence motifs in proteins.

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Bacterial genome sequence bagged

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

A large family of bacterial activator proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

rbcR [correction of rcbR], a gene coding for a member of the LysR family of transcriptional regulators, is located upstream of the expressed set of ribulose 1,5-bisphosphate carboxylase/oxygenase genes in the photosynthetic bacterium Chromatium vino

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

Basic local alignment search tool

1 reference

https://api.crossref.org/works/10.1016%2FS0959-440X%2896%2980055-8

7 January 2021

10.1016/S0959-440X(96)80055-8

Identifiers

DOI

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26 September 2017

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