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Items: 1 to 20 of 253

1.

A knowledge-based approach for predicting gene-disease associations.

Zhou H, Skolnick J.

Bioinformatics. 2016 Jun 9. pii: btw358. [Epub ahead of print]

PMID:
27283949
2.

Catalytic and substrate promiscuity: distinct multiple chemistries catalysed by the phosphatase domain of receptor protein tyrosine phosphatase.

Srinivasan B, Marks H, Mitra S, Smalley DM, Skolnick J.

Biochem J. 2016 Jul 15;473(14):2165-77. doi: 10.1042/BCJ20160289. Epub 2016 May 17.

PMID:
27208174
3.

ENTPRISE: An Algorithm for Predicting Human Disease-Associated Amino Acid Substitutions from Sequence Entropy and Predicted Protein Structures.

Zhou H, Gao M, Skolnick J.

PLoS One. 2016 Mar 16;11(3):e0150965. doi: 10.1371/journal.pone.0150965. eCollection 2016.

4.

How special is the biochemical function of native proteins?

Skolnick J, Gao M, Zhou H.

F1000Res. 2016 Feb 23;5. pii: F1000 Faculty Rev-207. doi: 10.12688/f1000research.7374.1. eCollection 2016. Review.

5.

Are protein-protein interfaces special regions on a protein's surface?

Tonddast-Navaei S, Skolnick J.

J Chem Phys. 2015 Dec 28;143(24):243149. doi: 10.1063/1.4937428.

PMID:
26723634
6.

Effects of confinement on models of intracellular macromolecular dynamics.

Chow E, Skolnick J.

Proc Natl Acad Sci U S A. 2015 Dec 1;112(48):14846-51. doi: 10.1073/pnas.1514757112. Epub 2015 Nov 16.

7.
8.

PoLi: A Virtual Screening Pipeline Based on Template Pocket and Ligand Similarity.

Roy A, Srinivasan B, Skolnick J.

J Chem Inf Model. 2015 Aug 24;55(8):1757-70. doi: 10.1021/acs.jcim.5b00232. Epub 2015 Aug 12.

9.

Metabolomics identifies the intersection of phosphoethanolamine with menaquinone-triggered apoptosis in an in vitro model of leukemia.

Dhakshinamoorthy S, Dinh NT, Skolnick J, Styczynski MP.

Mol Biosyst. 2015 Sep;11(9):2406-16. doi: 10.1039/c5mb00237k.

PMID:
26175011
10.

183 On the origin and completeness of ligand binding pockets with applications to drug discovery.

Skolnick J.

J Biomol Struct Dyn. 2015;33 Suppl 1:121. doi: 10.1080/07391102.2015.1032820. No abstract available.

PMID:
26103393
11.

Comprehensive prediction of drug-protein interactions and side effects for the human proteome.

Zhou H, Gao M, Skolnick J.

Sci Rep. 2015 Jun 9;5:11090. doi: 10.1038/srep11090.

12.

Insights into Disease-Associated Mutations in the Human Proteome through Protein Structural Analysis.

Gao M, Zhou H, Skolnick J.

Structure. 2015 Jul 7;23(7):1362-9. doi: 10.1016/j.str.2015.03.028. Epub 2015 May 28.

13.

Hurt, tired and queasy: Specific variants in the ATPase domain of the TRAP1 mitochondrial chaperone are associated with common, chronic "functional" symptomatology including pain, fatigue and gastrointestinal dysmotility.

Boles RG, Hornung HA, Moody AE, Ortiz TB, Wong SA, Eggington JM, Stanley CM, Gao M, Zhou H, McLaughlin S, Zare AS, Sheldon KM, Skolnick J, McKernan KJ.

Mitochondrion. 2015 Jul;23:64-70. doi: 10.1016/j.mito.2015.05.002. Epub 2015 May 27.

14.

GS-align for glycan structure alignment and similarity measurement.

Lee HS, Jo S, Mukherjee S, Park SJ, Skolnick J, Lee J, Im W.

Bioinformatics. 2015 Aug 15;31(16):2653-9. doi: 10.1093/bioinformatics/btv202. Epub 2015 Apr 8.

PMID:
25857669
16.

Implications of the small number of distinct ligand binding pockets in proteins for drug discovery, evolution and biochemical function.

Skolnick J, Gao M, Roy A, Srinivasan B, Zhou H.

Bioorg Med Chem Lett. 2015 Mar 15;25(6):1163-70. doi: 10.1016/j.bmcl.2015.01.059. Epub 2015 Feb 3. Review.

17.

Sliding of proteins non-specifically bound to DNA: Brownian dynamics studies with coarse-grained protein and DNA models.

Ando T, Skolnick J.

PLoS Comput Biol. 2014 Dec 11;10(12):e1003990. doi: 10.1371/journal.pcbi.1003990. eCollection 2014 Dec.

18.

On the role of physics and evolution in dictating protein structure and function.

Skolnick J, Gao M, Zhou H.

Isr J Chem. 2014 Aug 1;54(8-9):1176-1188.

19.

LIGSIFT: an open-source tool for ligand structural alignment and virtual screening.

Roy A, Skolnick J.

Bioinformatics. 2015 Feb 15;31(4):539-44. doi: 10.1093/bioinformatics/btu692. Epub 2014 Oct 21.

20.

Experimental validation of FINDSITE(comb) virtual ligand screening results for eight proteins yields novel nanomolar and micromolar binders.

Srinivasan B, Zhou H, Kubanek J, Skolnick J.

J Cheminform. 2014 Apr 26;6:16. doi: 10.1186/1758-2946-6-16. eCollection 2014.

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