Using attribution to decode binding mechanism in neural network models for chemistry.
Proceedings of the National Academy of Sciences of the United States of America
(2019)
116
11624
(doi: 10.1073/pnas.1820657116)
RNA Structure and Kinetics Including Pseudoknots through Complete Landscape Enumeration
Biophysical Journal
(2019)
116
353A
(doi: 10.1016/j.bpj.2018.11.1922)
Proline provides site-specific flexibility for in vivo collagen
Scientific reports
(2018)
8
13809
(doi: 10.1038/s41598-018-31937-x)
Analysis of nanobody paratopes reveals greater diversity than classical antibodies.
Protein Engineering Design and Selection
(2018)
31
267
(doi: 10.1093/protein/gzy017)
Comparative analysis of nanobody sequence and structure data
Proteins
(2018)
86
697
(doi: 10.1002/prot.25497)
Statistical and machine learning approaches to predicting protein-ligand interactions
Curr Opin Struct Biol
(2018)
49
123
(doi: 10.1016/j.sbi.2018.01.006)
Power law tails in phylogenetic systems
Proc Natl Acad Sci U S A
(2018)
115
690
(doi: 10.1073/pnas.1711913115)
Optimal Design of Experiments by Combining Coarse and Fine Measurements.
Physical Review Letters
(2017)
119
208101
Predicting protein-ligand affinity with a random matrix framework
Proceedings of the National Academy of Sciences of the United States of America
(2016)
113
13564
(doi: 10.1073/pnas.1611138113)
Inferring interaction partners from protein sequences.
Proc Natl Acad Sci U S A
(2016)
113
12180
(doi: 10.1073/pnas.1606762113)
The Role of Protein-Ligand Contacts in Allosteric Regulation of the Escherichia coli Catabolite Activator Protein*
The Journal of biological chemistry
(2015)
290
22225
(doi: 10.1074/jbc.m115.669267)
Protein Sectors: Statistical Coupling Analysis versus Conservation
Plos Computational Biology
(2015)
11
e1004091
(doi: 10.1371/journal.pcbi.1004091)
Conservation Weighting Functions Enable Covariance Analyses to Detect Functionally Important Amino Acids
PLoS One
(2014)
9
e107723
(doi: 10.1371/journal.pone.0107723)
Feynman-Hellmann Theorem and Signal Identification from Sample Covariance Matrices
Physical Review X
(2014)
4
031032
(doi: 10.1103/physrevx.4.031032)
Predicting Functionally Informative Mutations in Escherichia coli BamA Using Evolutionary Covariance Analysis
Genetics
(2013)
195
443
(doi: 10.1534/genetics.113.155861)
The emergence of protein complexes: Quaternary structure, dynamics and allostery
Biochem Soc Trans
(2012)
40
475
(doi: 10.1042/BST20120056)
Three-Dimensional Structures of Membrane Proteins from Genomic Sequencing
Cell
(2012)
149
1607
(doi: 10.1016/j.cell.2012.04.012)
The interface of protein structure, protein biophysics, and molecular evolution.
Protein science : a publication of the Protein Society
(2012)
21
769
(doi: 10.1002/pro.2071)
A core subunit of Polycomb repressive complex 1 is broadly conserved in function but not primary sequence.
Proceedings of the National Academy of Sciences
(2012)
109
e1063
(doi: 10.1073/pnas.1118678109)
