(Q24632911)

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Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates

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scholarly article

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates (English)

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

computational mathematics

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probabilistic modeling

0 references

protein folding

0 references

1

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

3

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

4

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

author name string

Eshel Faraggi

2

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

language of work or name

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publication date

11 June 2011

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

2 references

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

27

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

15

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

2076-2082

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

Low-homology protein threading

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Predicting continuous local structure and the effect of its substitution for secondary structure in fragment-free protein structure prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

MUSTER: Improving protein sequence profile-profile alignments by using multiple sources of structure information

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

The HHpred interactive server for protein homology detection and structure prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

TM-align: a protein structure alignment algorithm based on the TM-score

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Protein secondary structure prediction based on position-specific scoring matrices

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

SCOP: a structural classification of proteins database for the investigation of sequences and structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Identification of common molecular subsequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Automated server predictions in CASP7

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Assessment of predictions submitted for the CASP6 comparative modeling category

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Protein threading by linear programming

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Exploring the extremes of sequence/structure space with ensemble fold recognition in the program Phyre

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

Evaluation of comparative protein modeling by MODELLER

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

7 April 2017

SPINE X: improving protein secondary structure prediction by multistep learning coupled with prediction of solvent accessible surface area and backbone torsion angles

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Trends in template/fragment-free protein structure prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Characterizing the existing and potential structural space of proteins by large-scale multiple loop permutations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Improving threading algorithms for remote homology modeling by combining fragment and template comparisons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Profile Comparer: a program for scoring and aligning profile hidden Markov models

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Improving the prediction accuracy of residue solvent accessibility and real-value backbone torsion angles of proteins by guided-learning through a two-layer neural network.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

SP5: improving protein fold recognition by using torsion angle profiles and profile-based gap penalty model

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Ab initio folding of terminal segments with secondary structures reveals the fine difference between two closely related all-atom statistical energy functions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Template-based modeling and free modeling by I-TASSER in CASP7.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Fams-ace: a combined method to select the best model after remodeling all server models.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Analysis of TASSER-based CASP7 protein structure prediction results.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Pcons.net: protein structure prediction meta server.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

DDOMAIN: Dividing structures into domains using a normalized domain-domain interaction profile

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Achieving 80% ten-fold cross-validated accuracy for secondary structure prediction by large-scale training.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

A machine learning information retrieval approach to protein fold recognition.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

On the origin and highly likely completeness of single-domain protein structures.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Protein-structure prediction by recombination of fragments.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Fold recognition by combining sequence profiles derived from evolution and from depth-dependent structural alignment of fragments

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Alignment of protein sequences by their profiles

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Automated prediction of CASP-5 structures using the Robetta server.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

PROSPECT II: protein structure prediction program for genome-scale applications.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

MaxSub: an automated measure for the assessment of protein structure prediction quality.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Protein fold recognition by prediction-based threading

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

27 September 2017

Structure-based evaluation of sequence comparison and fold recognition alignment accuracy.

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

The PDB is a covering set of small protein structures

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

Identification of related proteins on family, superfamily and fold level.

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

pGenTHREADER and pDomTHREADER: new methods for improved protein fold recognition and superfamily discrimination

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

Single-body residue-level knowledge-based energy score combined with sequence-profile and secondary structure information for fold recognition

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

A graph spectral analysis of the structural similarity network of protein chains.

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

Fold recognition by concurrent use of solvent accessibility and residue depth

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTR350

21 January 2018

SPARKS 2 and SP3 servers in CASP6.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3137224

28 November 2018

Hidden Markov models that use predicted secondary structures for fold recognition

1 reference

https://pubmed.ncbi.nlm.nih.gov/21666270

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Boosting Protein Threading Accuracy

1 reference

https://pubmed.ncbi.nlm.nih.gov/21666270

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/BIOINFORMATICS/BTR350

2 references

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

DBLP publication ID

journals/bioinformatics/YangFZZ11

1 reference

DBLP Dataset 2021-01-02

28 January 2021

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PMC publication ID

2 references

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

PubMed publication ID

2 references

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21666270%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

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