Kimmel M - Search Results

1

The MASH pipeline for protein function prediction and an algorithm for the geometric refinement of 3D motifs.

Chen BY, Fofanov VY, Bryant DH, Dodson BD, Kristensen DM, Lisewski AM, Kimmel M, Lichtarge O, Kavraki LE. Chen BY, et al. Among authors: kimmel m. J Comput Biol. 2007 Jul-Aug;14(6):791-816. doi: 10.1089/cmb.2007.R017. J Comput Biol. 2007. PMID: 17691895

2

An accurate, sensitive, and scalable method to identify functional sites in protein structures.

Yao H, Kristensen DM, Mihalek I, Sowa ME, Shaw C, Kimmel M, Kavraki L, Lichtarge O. Yao H, et al. Among authors: kimmel m. J Mol Biol. 2003 Feb 7;326(1):255-61. doi: 10.1016/s0022-2836(02)01336-0. J Mol Biol. 2003. PMID: 12547207

3

Algorithms for structural comparison and statistical analysis of 3D protein motifs.

Chen BY, Fofanov VY, Kristensen DM, Kimmel M, Lichtarge O, Kavraki LE. Chen BY, et al. Among authors: kimmel m. Pac Symp Biocomput. 2005:334-45. Pac Symp Biocomput. 2005. PMID: 15759639 Free article.

4

Recurrent use of evolutionary importance for functional annotation of proteins based on local structural similarity.

Kristensen DM, Chen BY, Fofanov VY, Ward RM, Lisewski AM, Kimmel M, Kavraki LE, Lichtarge O. Kristensen DM, et al. Among authors: kimmel m. Protein Sci. 2006 Jun;15(6):1530-6. doi: 10.1110/ps.062152706. Epub 2006 May 2. Protein Sci. 2006. PMID: 16672239 Free PMC article.

5

Cavity-aware motifs reduce false positives in protein function prediction.

Chen BY, Bryant DH, Fofanov VY, Kristensen DM, Cruess AE, Kimmel M, Lichtarge O, Kavraki LE. Chen BY, et al. Among authors: kimmel m. Comput Syst Bioinformatics Conf. 2006:311-23. Comput Syst Bioinformatics Conf. 2006. PMID: 17369649 Free article.

6

Cavity scaling: automated refinement of cavity-aware motifs in protein function prediction.

Chen BY, Bryant DH, Fofanov VY, Kristensen DM, Cruess AE, Kimmel M, Lichtarge O, Kavraki LE. Chen BY, et al. Among authors: kimmel m. J Bioinform Comput Biol. 2007 Apr;5(2a):353-82. doi: 10.1142/s021972000700276x. J Bioinform Comput Biol. 2007. PMID: 17589966

7

Composite motifs integrating multiple protein structures increase sensitivity for function prediction.

Chen BY, Bryant DH, Cruess AE, Bylund JH, Fofanov VY, Kristensen DM, Kimmel M, Lichtarge O, Kavraki LE. Chen BY, et al. Among authors: kimmel m. Comput Syst Bioinformatics Conf. 2007;6:343-55. Comput Syst Bioinformatics Conf. 2007. PMID: 17951837 Free article.

8

Prediction of enzyme function based on 3D templates of evolutionarily important amino acids.

Kristensen DM, Ward RM, Lisewski AM, Erdin S, Chen BY, Fofanov VY, Kimmel M, Kavraki LE, Lichtarge O. Kristensen DM, et al. Among authors: kimmel m. BMC Bioinformatics. 2008 Jan 11;9:17. doi: 10.1186/1471-2105-9-17. BMC Bioinformatics. 2008. PMID: 18190718 Free PMC article.

9

Wee-1 kinase inhibition overcomes cisplatin resistance associated with high-risk TP53 mutations in head and neck cancer through mitotic arrest followed by senescence.

Osman AA, Monroe MM, Ortega Alves MV, Patel AA, Katsonis P, Fitzgerald AL, Neskey DM, Frederick MJ, Woo SH, Caulin C, Hsu TK, McDonald TO, Kimmel M, Meyn RE, Lichtarge O, Myers JN. Osman AA, et al. Among authors: kimmel m. Mol Cancer Ther. 2015 Feb;14(2):608-19. doi: 10.1158/1535-7163.MCT-14-0735-T. Epub 2014 Dec 10. Mol Cancer Ther. 2015. PMID: 25504633 Free PMC article.

10

Evolutionary Action Score of TP53 Identifies High-Risk Mutations Associated with Decreased Survival and Increased Distant Metastases in Head and Neck Cancer.

Neskey DM, Osman AA, Ow TJ, Katsonis P, McDonald T, Hicks SC, Hsu TK, Pickering CR, Ward A, Patel A, Yordy JS, Skinner HD, Giri U, Sano D, Story MD, Beadle BM, El-Naggar AK, Kies MS, William WN, Caulin C, Frederick M, Kimmel M, Myers JN, Lichtarge O. Neskey DM, et al. Among authors: kimmel m. Cancer Res. 2015 Apr 1;75(7):1527-36. doi: 10.1158/0008-5472.CAN-14-2735. Epub 2015 Jan 29. Cancer Res. 2015. PMID: 25634208 Free PMC article.

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