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Items: 1 to 20 of 24


An Overview of Practical Applications of Protein Disorder Prediction and Drive for Faster, More Accurate Predictions.

Deng X, Gumm J, Karki S, Eickholt J, Cheng J.

Int J Mol Sci. 2015 Jul 7;16(7):15384-404. doi: 10.3390/ijms160715384.


Characterizing the Discussion of Antibiotics in the Twittersphere: What is the Bigger Picture?

Kendra RL, Karki S, Eickholt JL, Gandy L.

J Med Internet Res. 2015 Jun 19;17(6):e154. doi: 10.2196/jmir.4220.


A Deep Learning Network Approach to ab initio Protein Secondary Structure Prediction.

Spencer M, Eickholt J, Jianlin Cheng.

IEEE/ACM Trans Comput Biol Bioinform. 2015 Jan-Feb;12(1):103-12. doi: 10.1109/TCBB.2014.2343960. Epub 2014 Aug 7.


PCP-ML: protein characterization package for machine learning.

Eickholt J, Wang Z.

BMC Res Notes. 2014 Nov 18;7:810. doi: 10.1186/1756-0500-7-810.


The MULTICOM protein tertiary structure prediction system.

Li J, Bhattacharya D, Cao R, Adhikari B, Deng X, Eickholt J, Cheng J.

Methods Mol Biol. 2014;1137:29-41. doi: 10.1007/978-1-4939-0366-5_3.


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.


DNdisorder: predicting protein disorder using boosting and deep networks.

Eickholt J, Cheng J.

BMC Bioinformatics. 2013 Mar 6;14:88. doi: 10.1186/1471-2105-14-88.


Designing and benchmarking the MULTICOM protein structure prediction system.

Li J, Deng X, Eickholt J, Cheng J.

BMC Struct Biol. 2013 Feb 27;13:2. doi: 10.1186/1472-6807-13-2.


Predicting protein residue-residue contacts using deep networks and boosting.

Eickholt J, Cheng J.

Bioinformatics. 2012 Dec 1;28(23):3066-72. doi: 10.1093/bioinformatics/bts598. Epub 2012 Oct 9.


Recursive protein modeling: a divide and conquer strategy for Protein Structure Prediction and its case study in CASP9.

Cheng J, Eickholt J, Wang Z, Deng X.

J Bioinform Comput Biol. 2012 Jun;10(3):1242003. doi: 10.1142/S0219720012420036.


The MULTICOM toolbox for protein structure prediction.

Cheng J, Li J, Wang Z, Eickholt J, Deng X.

BMC Bioinformatics. 2012 Apr 30;13:65. doi: 10.1186/1471-2105-13-65.


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.


A comprehensive overview of computational protein disorder prediction methods.

Deng X, Eickholt J, Cheng J.

Mol Biosyst. 2012 Jan;8(1):114-21. doi: 10.1039/c1mb05207a. Epub 2011 Aug 26. Review.


APOLLO: a quality assessment service for single and multiple protein models.

Wang Z, Eickholt J, Cheng J.

Bioinformatics. 2011 Jun 15;27(12):1715-6. doi: 10.1093/bioinformatics/btr268. Epub 2011 May 5.


DoBo: Protein domain boundary prediction by integrating evolutionary signals and machine learning.

Eickholt J, Deng X, Cheng J.

BMC Bioinformatics. 2011 Feb 1;12:43. doi: 10.1186/1471-2105-12-43.


MULTICOM: a multi-level combination approach to protein structure prediction and its assessments in CASP8.

Wang Z, Eickholt J, Cheng J.

Bioinformatics. 2010 Apr 1;26(7):882-8. doi: 10.1093/bioinformatics/btq058. Epub 2010 Feb 11.


PreDisorder: ab initio sequence-based prediction of protein disordered regions.

Deng X, Eickholt J, Cheng J.

BMC Bioinformatics. 2009 Dec 21;10:436. doi: 10.1186/1471-2105-10-436.


Prediction of global and local quality of CASP8 models by MULTICOM series.

Cheng J, Wang Z, Tegge AN, Eickholt J.

Proteins. 2009;77 Suppl 9:181-4. doi: 10.1002/prot.22487.


NNcon: improved protein contact map prediction using 2D-recursive neural networks.

Tegge AN, Wang Z, Eickholt J, Cheng J.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W515-8. doi: 10.1093/nar/gkp305. Epub 2009 May 6.


Disease outcome in patients with low stage renal cell carcinoma treated with nephron sparing or radical surgery. 1996.

Lerner SE, Hawkins CA, Blute ML, Grabner A, Wollan PC, Eickholt JT, Zincke H.

J Urol. 2002 Feb;167(2 Pt 2):884-9; discussion 889-90. No abstract available.

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