Real-time dynamic single-molecule protein sequencing on an integrated semiconductor device

The emerging landscape of single-molecule protein sequencing technologies

(2021) Javier Antonio Alfaro et al.   NATURE METHODS

Bottom-up fabrication of a proteasome–nanopore that unravels and processes single proteins

(2021) Shengli Zhang et al.   Nature Chemistry

Multiple rereads of single proteins at single–amino acid resolution using nanopores

(2021) Henry Brinkerhoff et al.   SCIENCE

Beyond mass spectrometry, the next step in proteomics

(2020) Winston Timp et al.   Science Advances

Generalized Born Implicit Solvent Models for Biomolecules

(2019) Alexey V. Onufriev et al.   Annual Review of Biophysics

ff19SB: Amino-Acid-Specific Protein Backbone Parameters Trained against Quantum Mechanics Energy Surfaces in Solution

(2019) Chuan Tian et al.   Journal of Chemical Theory and Computation

How many human proteoforms are there?

(2018) Ruedi Aebersold et al.   Nature Chemical Biology

Highly parallel single-molecule identification of proteins in zeptomole-scale mixtures

(2018) Jagannath Swaminathan et al.   NATURE BIOTECHNOLOGY

Bound Waters Mediate Binding of Diverse Substrates to a Ubiquitin Ligase

(2017) Juliana Muñoz-Escobar et al.   STRUCTURE

On the Dependency of Cellular Protein Levels on mRNA Abundance

(2016) Yansheng Liu et al.   CELL

Coming of age: ten years of next-generation sequencing technologies

(2016) Sara Goodwin et al.   NATURE REVIEWS GENETICS

Structural Basis of an N-Degron Adaptor with More Stringent Specificity

(2016) Benjamin J. Stein et al.   STRUCTURE

Empirical estimation of local dielectric constants: Toward atomistic design of collagen mimetic peptides

(2015) Douglas H. Pike et al.   BIOPOLYMERS

A Theoretical Justification for Single Molecule Peptide Sequencing

(2015) Jagannath Swaminathan et al.   PLoS Computational Biology

MMPBSA.py: An Efficient Program for End-State Free Energy Calculations

(2012) Bill R. Miller et al.   Journal of Chemical Theory and Computation

The quantitative proteome of a human cell line

(2011) M. Beck et al.   Molecular Systems Biology

Structural basis for the recognition of N-end rule substrates by the UBR box of ubiquitin ligases

(2010) Woo Suk Choi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The structural and biochemical characterizations of a novel TET peptidase complex from Pyrococcus horikoshii reveal an integrated peptide degradation system in hyperthermophilic Archaea

(2009) M. Asunción Durá et al.   MOLECULAR MICROBIOLOGY