Author

W. R. Becker

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biochemistry· 2 Biophysics· 2

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Approach:deep learning· 2 Assay:DNA methylation· 2 Approach:experimental assay· 2 Research Focus:protein folding & dynamics· 2 Research Focus:benchmarking· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

W. J. Greenleaf· 4 shared D. Herschlag· 2 shared I. Jarmoskaite· 2 shared K. Kappel· 2 shared P. P. Vaidyanathan· 2 shared R. Das· 2 shared S. K. Denny· 2 shared A. Ho· 1 shared

Activity by Year

2018-2024 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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4 shared papersBiophysics

W. J. Greenleaf

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4 papers

Recent·Most cited

High-Throughput DNA melt measurements enable improved models of DNA folding thermodynamics

Y. Ke, E. Sharma, H. K. Wayment-Steele, W. R. Becker, A. Ho, E. Marklund, W. J. Greenleaf

This paper introduces a high-throughput method to measure DNA melting and develops models to improve DNA folding thermodynamics predictions.

bioRxiv · Jan 8, 2024Biophysics

Quantification of Cas9 binding and cleavage across diverse guide sequences maps landscapes of target engagement

E. A. Boyle, W. R. Becker, H. B. Bai, J. S. Chen, J. A. Doudna, W. J. Greenleaf

The paper quantifies Cas9 binding and cleavage across diverse guide sequences, revealing sequence-specific variations in efficacy and specificity, and develops a predictive biophysical model.

bioRxiv · Sep 9, 2020Biochemistry

Quantitative high-throughput tests of ubiquitous RNA secondary structure prediction algorithms via RNA/protein binding

W. R. Becker, I. Jarmoskaite, K. Kappel, P. P. Vaidyanathan, S. K. Denny, R. Das, W. J. Greenleaf, D. Herschlag

The paper quantitatively tests RNA secondary structure prediction algorithms using RNA-MaP, revealing significant deviations between predictions and experimental stabilities.

bioRxiv · Mar 8, 2019 · PreprintBiophysics

A quantitative and predictive model for RNA binding by human Pumilio proteins

I. Jarmoskaite, S. K. Denny, P. P. Vaidyanathan, W. R. Becker, J. O. L. Andreasson, C. J. Layton, K. Kappel, V. Shivashankar, R. Sreenivasan, R. Das, W. J. Greenleaf, D. Herschlag

The paper develops a predictive model for RNA binding by human PUM1 and PUM2 using RNA-MaP data, showing residue flipping and positional coupling, and validates it against in vivo crosslinking data.

bioRxiv · Aug 29, 2018Biochemistry