LiveBench-8: the large-scale, continuous assessment of automated protein structure prediction. (Q30349848)

13 November 2017

LiveBench-8: the large-scale, continuous assessment of automated protein structure prediction. (English)

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protein structure prediction

13 November 2017

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Leszek Rychlewski

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13 November 2017

Daniel Fischer

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13 November 2017

1 January 2005

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13 November 2017

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13 November 2017

14

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13 November 2017

240-245

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LiveBench-6: large-scale automated evaluation of protein structure prediction servers.

13 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

3D-Jury: a simple approach to improve protein structure predictions

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

The 2002 Olympic Games of Protein Structure Prediction

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

EVA: large-scale analysis of secondary structure prediction

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Pcons: a neural-network-based consensus predictor that improves fold recognition.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Fold predictions for bacterial genomes.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

LiveBench-1: continuous benchmarking of protein structure prediction servers

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

The 2000 Olympic Games of protein structure prediction; fully automated programs are being evaluated vis-à-vis human teams in the protein structure prediction experiment CAFASP2.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Enhanced genome annotation using structural profiles in the program 3D-PSSM

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Comparison of sequence profiles. Strategies for structural predictions using sequence information

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Dali: a network tool for protein structure comparison

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Basic local alignment search tool

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

The PDB-Preview database: a repository of in-silico models of 'on-hold' PDB entries

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

CAFASP3: The third critical assessment of fully automated structure prediction methods

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Improvement of the GenTHREADER method for genomic fold recognition

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Evaluation of protein multiple alignments by SAM-T99 using the BAliBASE multiple alignment test set.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

Hybrid fold recognition: combining sequence derived properties with evolutionary information.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2253323

CASP5. Proceedings of the 5th Meeting on the Critical Assessment of Techniques for Protein Structure Prediction. 1-5 December 2002, Asilomar, California, USA

26 November 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/15608124

12 December 2020

We need both computer models and experiments

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https://pubmed.ncbi.nlm.nih.gov/15608124

12 December 2020

Computer modellers seek out 'Ten Most Wanted' proteins

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https://pubmed.ncbi.nlm.nih.gov/15608124

12 December 2020

3D‐SHOTGUN: A novel, cooperative, fold‐recognition meta‐predictor

1 reference

https://pubmed.ncbi.nlm.nih.gov/15608124

12 December 2020

Identifiers

DOI

10.1110/PS.04888805

1 reference

13 November 2017

1 reference

PMC publication ID

2253323

13 November 2017

PubMed publication ID

15608124

1 reference

PMC publication ID

2253323