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SDRS--an algorithm for analyzing large-scale dose-response data.
Ji RR, Siemers NO, Lei M, Schweizer L, Bruccoleri RE. Ji RR, et al. Among authors: bruccoleri re. Bioinformatics. 2011 Oct 15;27(20):2921-3. doi: 10.1093/bioinformatics/btr489. Epub 2011 Aug 24. Bioinformatics. 2011. PMID: 21865301 Free PMC article.
Transcriptional profiling of the dose response: a more powerful approach for characterizing drug activities.
Ji RR, de Silva H, Jin Y, Bruccoleri RE, Cao J, He A, Huang W, Kayne PS, Neuhaus IM, Ott KH, Penhallow B, Cockett MI, Neubauer MG, Siemers NO, Ross-Macdonald P. Ji RR, et al. Among authors: bruccoleri re. PLoS Comput Biol. 2009 Sep;5(9):e1000512. doi: 10.1371/journal.pcbi.1000512. Epub 2009 Sep 18. PLoS Comput Biol. 2009. PMID: 19763178 Free PMC article.
FDR-FET: an optimizing gene set enrichment analysis method.
Ji RR, Ott KH, Yordanova R, Bruccoleri RE. Ji RR, et al. Among authors: bruccoleri re. Adv Appl Bioinform Chem. 2011;4:37-42. doi: 10.2147/AABC.S15840. Epub 2011 Mar 15. Adv Appl Bioinform Chem. 2011. PMID: 21918636 Free PMC article.
Simulated annealing with restrained molecular dynamics using a flexible restraint potential: theory and evaluation with simulated NMR constraints.
Bassolino-Klimas D, Tejero R, Krystek SR, Metzler WJ, Montelione GT, Bruccoleri RE. Bassolino-Klimas D, et al. Among authors: bruccoleri re. Protein Sci. 1996 Apr;5(4):593-603. doi: 10.1002/pro.5560050404. Protein Sci. 1996. PMID: 8845749 Free PMC article.
A new functional representation of NMR-derived distance constraints, the flexible restraint potential, has been implemented in the program CONGEN (Bruccoleri RE, Karplus M, 1987, Biopolymers 26:137-168) for molecular structure generation. ...
A new functional representation of NMR-derived distance constraints, the flexible restraint potential, has been implemented in the program C …
Homology modeling using simulated annealing of restrained molecular dynamics and conformational search calculations with CONGEN: application in predicting the three-dimensional structure of murine homeodomain Msx-1.
Li H, Tejero R, Monleon D, Bassolino-Klimas D, Abate-Shen C, Bruccoleri RE, Montelione GT. Li H, et al. Among authors: bruccoleri re. Protein Sci. 1997 May;6(5):956-70. doi: 10.1002/pro.5560060502. Protein Sci. 1997. PMID: 9144767 Free PMC article.
We have developed an automatic approach for homology modeling using restrained molecular dynamics and simulated annealing procedures, together with conformational search algorithms available in the molecular mechanics program CONGEN (Bruccoleri RE, Karplus M, 1987, …
We have developed an automatic approach for homology modeling using restrained molecular dynamics and simulated annealing procedures, togeth …
Simulated annealing with restrained molecular dynamics using CONGEN: energy refinement of the NMR solution structures of epidermal and type-alpha transforming growth factors.
Tejero R, Bassolino-Klimas D, Bruccoleri RE, Montelione GT. Tejero R, et al. Among authors: bruccoleri re. Protein Sci. 1996 Apr;5(4):578-92. doi: 10.1002/pro.5560050403. Protein Sci. 1996. PMID: 8845748 Free PMC article.
The new functionality of the program CONGEN (Bruccoleri RE, Karplus M, 1987, Biopolymers 26:137-168; Bassolino-Klimas D et al., 1996, Protein Sci 5:593-603) has been applied for energy refinement of two previously determined solution NMR structures, murine epidermal …
The new functionality of the program CONGEN (Bruccoleri RE, Karplus M, 1987, Biopolymers 26:137-168; Bassolino-Klimas D et al. …
61 results