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Items: 1 to 20 of 99

1.

Evaluation of residue-residue contact predictions in CASP9.

Monastyrskyy B, Fidelis K, Tramontano A, Kryshtafovych A.

Proteins. 2011;79 Suppl 10:119-25. doi: 10.1002/prot.23160. Epub 2011 Sep 17.

2.

Evaluation of residue-residue contact prediction in CASP10.

Monastyrskyy B, D'Andrea D, Fidelis K, Tramontano A, Kryshtafovych A.

Proteins. 2014 Feb;82 Suppl 2:138-53. doi: 10.1002/prot.24340. Epub 2013 Aug 31.

3.

Assessment of domain boundary predictions and the prediction of intramolecular contacts in CASP8.

Ezkurdia I, Graña O, Izarzugaza JM, Tress ML.

Proteins. 2009;77 Suppl 9:196-209. doi: 10.1002/prot.22554.

PMID:
19714769
4.

Evaluation of disorder predictions in CASP9.

Monastyrskyy B, Fidelis K, Moult J, Tramontano A, Kryshtafovych A.

Proteins. 2011;79 Suppl 10:107-18. doi: 10.1002/prot.23161. Epub 2011 Sep 16.

5.

Improving accuracy of protein contact prediction using balanced network deconvolution.

Sun HP, Huang Y, Wang XF, Zhang Y, Shen HB.

Proteins. 2015 Mar;83(3):485-96. doi: 10.1002/prot.24744. Epub 2015 Jan 24.

6.

Assessment of intramolecular contact predictions for CASP7.

Izarzugaza JM, Graña O, Tress ML, Valencia A, Clarke ND.

Proteins. 2007;69 Suppl 8:152-8.

PMID:
17671976
7.

A study and benchmark of DNcon: a method for protein residue-residue contact prediction using deep networks.

Eickholt J, Cheng J.

BMC Bioinformatics. 2013;14 Suppl 14:S12. doi: 10.1186/1471-2105-14-S14-S12. Epub 2013 Oct 9.

8.

Toward an accurate prediction of inter-residue distances in proteins using 2D recursive neural networks.

Kukic P, Mirabello C, Tradigo G, Walsh I, Veltri P, Pollastri G.

BMC Bioinformatics. 2014 Jan 10;15:6. doi: 10.1186/1471-2105-15-6.

9.

New encouraging developments in contact prediction: Assessment of the CASP11 results.

Monastyrskyy B, D'Andrea D, Fidelis K, Tramontano A, Kryshtafovych A.

Proteins. 2016 Sep;84 Suppl 1:131-44. doi: 10.1002/prot.24943. Epub 2015 Nov 17.

10.

Predicting residue-residue contacts using random forest models.

Li Y, Fang Y, Fang J.

Bioinformatics. 2011 Dec 15;27(24):3379-84. doi: 10.1093/bioinformatics/btr579. Epub 2011 Oct 20.

PMID:
22016406
11.

Protein Residue Contacts and Prediction Methods.

Adhikari B, Cheng J.

Methods Mol Biol. 2016;1415:463-76. doi: 10.1007/978-1-4939-3572-7_24.

12.

Quality assessment of protein model-structures based on structural and functional similarities.

Konopka BM, Nebel JC, Kotulska M.

BMC Bioinformatics. 2012 Sep 21;13:242. doi: 10.1186/1471-2105-13-242.

13.

Evaluation of CASP8 model quality predictions.

Cozzetto D, Kryshtafovych A, Tramontano A.

Proteins. 2009;77 Suppl 9:157-66. doi: 10.1002/prot.22534.

PMID:
19714774
14.

CASP9 assessment of free modeling target predictions.

Kinch L, Yong Shi S, Cong Q, Cheng H, Liao Y, Grishin NV.

Proteins. 2011;79 Suppl 10:59-73. doi: 10.1002/prot.23181. Epub 2011 Oct 14.

15.

Assessment of protein disorder region predictions in CASP10.

Monastyrskyy B, Kryshtafovych A, Moult J, Tramontano A, Fidelis K.

Proteins. 2014 Feb;82 Suppl 2:127-37. doi: 10.1002/prot.24391. Epub 2013 Nov 22.

16.

A conformation ensemble approach to protein residue-residue contact.

Eickholt J, Wang Z, Cheng J.

BMC Struct Biol. 2011 Oct 12;11:38. doi: 10.1186/1472-6807-11-38.

18.

Protein structure prediction center in CASP8.

Kryshtafovych A, Krysko O, Daniluk P, Dmytriv Z, Fidelis K.

Proteins. 2009;77 Suppl 9:5-9. doi: 10.1002/prot.22517.

19.

FunFOLD: an improved automated method for the prediction of ligand binding residues using 3D models of proteins.

Roche DB, Tetchner SJ, McGuffin LJ.

BMC Bioinformatics. 2011 May 16;12:160. doi: 10.1186/1471-2105-12-160.

20.

Using inferred residue contacts to distinguish between correct and incorrect protein models.

Miller CS, Eisenberg D.

Bioinformatics. 2008 Jul 15;24(14):1575-82. doi: 10.1093/bioinformatics/btn248. Epub 2008 May 29.

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