Feenstra KA - Search Results

1

HIV-1 envelope glycoprotein signatures that correlate with the development of cross-reactive neutralizing activity.

van den Kerkhof TL, Feenstra KA, Euler Z, van Gils MJ, Rijsdijk LW, Boeser-Nunnink BD, Heringa J, Schuitemaker H, Sanders RW. van den Kerkhof TL, et al. Among authors: feenstra ka. Retrovirology. 2013 Sep 23;10:102. doi: 10.1186/1742-4690-10-102. Retrovirology. 2013. PMID: 24059682 Free PMC article.

2

Sequence comparison by sequence harmony identifies subtype-specific functional sites.

Pirovano W, Feenstra KA, Heringa J. Pirovano W, et al. Among authors: feenstra ka. Nucleic Acids Res. 2006;34(22):6540-8. doi: 10.1093/nar/gkl901. Epub 2006 Nov 27. Nucleic Acids Res. 2006. PMID: 17130172 Free PMC article.

3

Sequence harmony: detecting functional specificity from alignments.

Feenstra KA, Pirovano W, Krab K, Heringa J. Feenstra KA, et al. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W495-8. doi: 10.1093/nar/gkm406. Epub 2007 Jun 21. Nucleic Acids Res. 2007. PMID: 17584793 Free PMC article.

4

Multi-RELIEF: a method to recognize specificity determining residues from multiple sequence alignments using a Machine-Learning approach for feature weighting.

Ye K, Feenstra KA, Heringa J, Ijzerman AP, Marchiori E. Ye K, et al. Among authors: feenstra ka. Bioinformatics. 2008 Jan 1;24(1):18-25. doi: 10.1093/bioinformatics/btm537. Epub 2007 Nov 17. Bioinformatics. 2008. PMID: 18024975

5

PRALINETM: a strategy for improved multiple alignment of transmembrane proteins.

Pirovano W, Feenstra KA, Heringa J. Pirovano W, et al. Among authors: feenstra ka. Bioinformatics. 2008 Feb 15;24(4):492-7. doi: 10.1093/bioinformatics/btm636. Epub 2008 Jan 2. Bioinformatics. 2008. PMID: 18174178

6

On defining the dynamics of hydrophobic patches on protein surfaces.

Lijnzaad P, Feenstra KA, Heringa J, Holstege FC. Lijnzaad P, et al. Among authors: feenstra ka. Proteins. 2008 Jul;72(1):105-14. doi: 10.1002/prot.21924. Proteins. 2008. PMID: 18186474

7

The meaning of alignment: lessons from structural diversity.

Pirovano W, Feenstra KA, Heringa J. Pirovano W, et al. Among authors: feenstra ka. BMC Bioinformatics. 2008 Dec 23;9:556. doi: 10.1186/1471-2105-9-556. BMC Bioinformatics. 2008. PMID: 19105835 Free PMC article.

8

Executing multicellular differentiation: quantitative predictive modelling of C.elegans vulval development.

Bonzanni N, Krepska E, Feenstra KA, Fokkink W, Kielmann T, Bal H, Heringa J. Bonzanni N, et al. Among authors: feenstra ka. Bioinformatics. 2009 Aug 15;25(16):2049-56. doi: 10.1093/bioinformatics/btp355. Epub 2009 Jun 10. Bioinformatics. 2009. PMID: 19515963

9

Multi-Harmony: detecting functional specificity from sequence alignment.

Brandt BW, Feenstra KA, Heringa J. Brandt BW, et al. Among authors: feenstra ka. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W35-40. doi: 10.1093/nar/gkq415. Epub 2010 Jun 4. Nucleic Acids Res. 2010. PMID: 20525785 Free PMC article.

10

Enabling grand-canonical Monte Carlo: extending the flexibility of GROMACS through the GromPy python interface module.

Pool R, Heringa J, Hoefling M, Schulz R, Smith JC, Feenstra KA. Pool R, et al. Among authors: feenstra ka. J Comput Chem. 2012 May 5;33(12):1207-14. doi: 10.1002/jcc.22947. Epub 2012 Feb 28. J Comput Chem. 2012. PMID: 22370965

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