Escherichia coli Leucine-Responsive Regulatory Protein Bridges DNA In Vivo and Tunably Dissociates in the Presence of Exogenous Leucine

por Ziegler, Christine A., Freddolino, Peter L.
Publicado 2023

Going beyond Clustering in MD Trajectory Analysis: An Application to Villin Headpiece Folding

por Rajan, Aruna, Freddolino, Peter L., Schulten, Klaus
Publicado 2010

Fitness Landscape Transformation through a Single Amino Acid Change in the Rho Terminator

por Freddolino, Peter L., Goodarzi, Hani, Tavazoie, Saeed
Publicado 2012

COFACTOR: improved protein function prediction by combining structure, sequence and protein–protein interaction information

por Zhang, Chengxin, Freddolino, Peter L., Zhang, Yang
Publicado 2017

Intracellular acidification is a hallmark of thymineless death in E. coli

por Ketcham, Alexandra, Freddolino, Peter L., Tavazoie, Saeed
Publicado 2022

CR-I-TASSER: Assemble Protein Structures from Cryo-EM Density Maps using Deep Convolutional Neural Networks

por Zhang, Xi, Zhang, Biao, Freddolino, Peter L, Zhang, Yang
Publicado 2022

Genetic context effects can override canonical cis regulatory elements in Escherichia coli

por Scholz, Scott A, Lindeboom, Chase D, Freddolino, Peter L
Publicado 2022

Stereochemical errors and their implications for molecular dynamics simulations

por Schreiner, Eduard, Trabuco, Leonardo G, Freddolino, Peter L, Schulten, Klaus
Publicado 2011

Stochastic tuning of gene expression enables cellular adaptation in the absence of pre-existing regulatory circuitry

por Freddolino, Peter L, Yang, Jamie, Momen-Roknabadi, Amir, Tavazoie, Saeed
Publicado 2018

Dynamic landscape of protein occupancy across the Escherichia coli chromosome

por Freddolino, Peter L., Amemiya, Haley M., Goss, Thomas J., Tavazoie, Saeed
Publicado 2021

PEPPI: Whole-proteome Protein-protein Interaction Prediction through Structure and Sequence Similarity, Functional Association, and Machine Learning

por Bell, Eric W., Schwartz, Jacob H., Freddolino, Peter L., Zhang, Yang
Publicado 2022

Correction: Dynamic landscape of protein occupancy across the Escherichia coli chromosome

por Freddolino, Peter L., Amemiya, Haley M., Goss, Thomas J., Tavazoie, Saeed
Publicado 2022

Structure of FlgK reveals the divergence of the bacterial Hook-Filament Junction of Campylobacter

por Bulieris, Paula V., Shaikh, Nausad H., Freddolino, Peter L., Samatey, Fadel A.
Publicado 2017

An intrinsically disordered linker controlling the formation and the stability of the bacterial flagellar hook

por Barker, Clive S., Meshcheryakova, Irina V., Kostyukova, Alla S., Freddolino, Peter L., Samatey, Fadel A.
Publicado 2017

LOMETS3: integrating deep learning and profile alignment for advanced protein template recognition and function annotation

por Zheng, Wei, Wuyun, Qiqige, Zhou, Xiaogen, Li, Yang, Freddolino, Peter L, Zhang, Yang
Publicado 2022

Nutrigenomic regulation of sensory plasticity

por Sung, Hayeon, Vaziri, Anoumid, Wilinski, Daniel, Woerner, Riley KR, Freddolino, Peter L, Dus, Monica
Publicado 2023

Persistent epigenetic reprogramming of sweet taste by diet

por Vaziri, Anoumid, Khabiri, Morteza, Genaw, Brendan T., May, Christina E., Freddolino, Peter L., Dus, Monica
Publicado 2020

Deep mutational scanning highlights a new role for cytosolic regions in Hrd1 function

por Peterson, Brian G., Hwang, Jiwon, Russ, Jennifer E., Schroeder, Jeremy, Freddolino, Peter L., Baldridge, Ryan D.
Publicado 2023

Bacterial Adaptation through Loss of Function

por Hottes, Alison K., Freddolino, Peter L., Khare, Anupama, Donnell, Zachary N., Liu, Julia C., Tavazoie, Saeed
Publicado 2013

Epistasis at the SARS-CoV-2 RBD Interface and the Propitiously Boring Implications for Vaccine Escape

por Rochman, Nash D., Faure, Guilhem, Wolf, Yuri I., Freddolino, Peter L., Zhang, Feng, Koonin, Eugene V.
Publicado 2021