Daron M Standley

发表

Protein Loop Modeling with Optimized Backbone Potential Functions.

Chi Zhang, Shide Liang, Jamica Sarmiento, 2012, Journal of chemical theory and computation.

Protein loop selection using orientation‐dependent force fields derived by parameter optimization

Chi Zhang, Shide Liang, Daron M Standley, 2011, Proteins.

Outcome of a workshop on applications of protein models in biomedical research.

Roland L Dunbrack, Roland L. Dunbrack, Andrej Sali, 2009, Structure.

MAFFT: iterative refinement and additional methods.

Kazutaka Katoh, Daron M Standley, K. Katoh, 2014, Methods in molecular biology.

Community-wide assessment of protein-interface modeling suggests improvements to design methodology.

Kengo Kinoshita, Haruki Nakamura, Genki Terashi, 2011, Journal of molecular biology.

Outcome of a workshop on archiving structural models of biological macromolecules.

Roland L Dunbrack, Roland L. Dunbrack, Wah Chiu, 2006, Structure.

Analysis of Protein Intermolecular Interactions with MAFFT-DASH.

Kazutaka Katoh, Daron M Standley, John Rozewicki, 2021, Methods in molecular biology.

High‐resolution modeling of antibody structures by a combination of bioinformatics, expert knowledge, and molecular simulations

Haruki Nakamura, Kenji Mizuguchi, Junichi Higo, 2014, Proteins.

Automated processing of label-free Raman microscope images of macrophage cells with standardized regression for high-throughput analysis

Katsumasa Fujita, Nicholas I Smith, Daron M Standley, 2010, Immunome research.

Translation-dependent unwinding of stem–loops by UPF1 licenses Regnase-1 to degrade inflammatory mRNAs

Osamu Takeuchi, Tomoko Emura, Mariko Okada-Hatakeyama, 2019, Nucleic acids research.

Detecting local structural similarity in proteins by maximizing number of equivalent residues

Haruki Nakamura, Daron M Standley, Haruki Nakamura, 2004, Proteins.

Stochastic binary modeling of cells in continuous time as an alternative to biochemical reaction equations.

Alexis Vandenbon, Daron M Standley, Shizuo Akira, 2011, Physical review. E, Statistical, nonlinear, and soft matter physics.

A novel protein distance matrix based on the minimum arc-length between two amino-acid residues on the surface of a globular protein.

Ryuzo Azuma, Damien Hall, Kazuo Yamashita, 2014, Biophysical chemistry.

Ab initio simulation of a 57‐residue protein in explicit solvent reproduces the native conformation in the lowest free‐energy cluster

Haruki Nakamura, Junichi Higo, Jinzen Ikebe, 2011, Protein science : a publication of the Protein Society.

A novel unbiased measure for motif co-occurrence predicts combinatorial regulation of transcription

Alexis Vandenbon, Daron M Standley, Shizuo Akira, 2012, BMC Genomics.

Localization and nucleotide specificity of Blastocystis succinyl-CoA synthetase

Daron M Standley, D. Standley, A. Roger, 2008, Molecular microbiology.

The IκB kinase complex regulates the stability of cytokine-encoding mRNA induced by TLR–IL-1R by controlling degradation of regnase-1

Osamu Takeuchi, Daron M Standley, Shizuo Akira, 2011, Nature Immunology.

N4BP1 restricts HIV-1 and its inactivation by MALT1 promotes viral reactivation

Osamu Takeuchi, Daron M Standley, Sho Miyamoto, 2019, Nature Microbiology.

Functional annotation by sequence‐weighted structure alignments: Statistical analysis and case studies from the Protein 3000 structural genomics project in Japan

Haruki Nakamura, Daron M Standley, Haruki Nakamura, 2008, Proteins.