Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures (Q21284287)

Dimensions Publication ID

Dimensions

18 August 2022

Vadim Alexandrov

1

Vadim

Alexandrov

1 reference

Dimensions Publication ID

Dimensions

1035263123

The Pfam protein families database.

18 August 2022

language of work or name

English

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publication date

9 January 2004

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published in

BMC Bioinformatics

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volume

5

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issue

1

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page(s)

2

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cites work

1 reference

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Protein structure comparison by alignment of distance matrices

19 March 2017

1 reference

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A unified statistical framework for sequence comparison and structure comparison

19 March 2017

1 reference

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Protein structure alignment

19 March 2017

1 reference

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A hidden Markov model for predicting transmembrane helices in protein sequences

19 March 2017

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Hidden Markov models in computational biology. Applications to protein modeling

7 April 2017

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7 April 2017

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Structural assignments to the Mycoplasma genitalium proteins show extensive gene duplications and domain rearrangements

12 September 2017

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Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins

12 September 2017

1 reference

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12 September 2017

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Fold recognition using predicted secondary structure sequences and hidden Markov models of protein folds

12 September 2017

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Hierarchical protein structure superposition using both secondary structure and atomic representations.

12 September 2017

1 reference

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Structural alignment of globins, phycocyanins and colicin A.

12 September 2017

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Derivation of rules for comparative protein modeling from a database of protein structure alignments

12 September 2017

1 reference

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Statistics of sequence-structure threading

12 September 2017

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Average Core Structures and Variability Measures for Protein Families: Application to the Immunoglobulins

12 September 2017

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Definition of general topological equivalence in protein structures. A procedure involving comparison of properties and relationships through simulated annealing and dynamic programming

12 September 2017

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27 September 2017

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30 May 2018

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A flexible method to align large numbers of biological sequences.

30 May 2018

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30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=344530

Hierarchical method to align large numbers of biological sequences

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=344530

Towards discovering structural signatures of protein folds based on logical hidden Markov models.

30 May 2018

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Assessing annotation transfer for genomics: quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores.

29 November 2018

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Incorporating global information into secondary structure prediction with hidden Markov models of protein folds.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=344530

Flexible algorithm for direct multiple alignment of protein structures and sequences.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=344530

Finding an average core structure: application to the globins

29 November 2018

1 reference

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Alignment of three-dimensional protein structures: network server for database searching

29 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/14715091

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Using iterative dynamic programming to obtain accurate pairwise and multiple alignments of protein structures

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/14715091

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-5-2

0 references

DBLP publication ID

journals/bmcbi/AlexandrovG04

1 reference

DBLP Dataset 2021-01-02