Edward O’Brien

Professor of Chemistry

Edward O’Brien

Research Summary

Developing and applying Physical Bioinformatic techniques to measure rates of translation transcriptome-wide and their molecular origins as relates to fundamental biology and disease.

Huck Graduate Students

Huck Affiliations

Publication Tags

Proteins Protein Folding Protein Ribosomes Kinetics Messenger Rna Codon Simulation Force Molecules Proteome Experiments Molecular Dynamics Peptides Tunnels Genes Molecule Antibodies Biochemistry Enzymes Electrostatic Force Folding Genome Static Electricity Thermodynamics

Most Recent Publications

Universal protein misfolding intermediates can bypass the proteostasis network and remain soluble and less functional

Daniel A. Nissley, Yang Jiang, Fabio Trovato, Ian Sitarik, Karthik B. Narayan, Philip To, Yingzi Xia, Stephen D. Fried, Edward P. O’Brien, 2022, Nature Communications

A pan-CRISPR analysis of mammalian cell specificity identifies ultra-compact sgRNA subsets for genome-scale experiments

Boyang Zhao, Yiyun Rao, Scott Leighow, Edward P. O’Brien, Luke Gilbert, Justin R. Pritchard, 2022, Nature Communications

Pulse labeling reveals the tail end of protein folding by proteome profiling

Mang Zhu, Erich R. Kuechler, Ryan W.K. Wong, Gaetano Calabrese, Ian M. Sitarik, Viraj Rana, Nikolay Stoynov, Edward P. O'Brien, Jörg Gsponer, Thibault Mayor, 2022, Cell Reports

Cocktail of REGN Antibodies Binds More Strongly to SARS-CoV-2 Than Its Components, but the Omicron Variant Reduces Its Neutralizing Ability

Hung Nguyen, Pham Dang Lan, Daniel A. Nissley, Edward P. O'Brien, Mai Suan Li, 2022, Journal of Physical Chemistry B on p. 2812-2823

Erratum: Ribosome Elongation Kinetics of Consecutively Charged Residues Are Coupled to Electrostatic Force (Biochemistry (2021) 60:43 (3223−3235) DOI:10.1021/acs.biochem.1c00507)

Sarah E. Leininger, Judith Rodriguez, Quyen V. Vu, Yang Jiang, Mai Suan Li, Carol Deutsch, Edward P. O’Brien, 2022, Biochemistry on p. 125

Combinations of slow-translating codon clusters can increase mRNA half-life in Saccharomyces cerevisiae

Ajeet K. Sharma, Johannes Venezian, Ayala Shiber, Günter Kramer, Bernd Bukau, Edward P. O’Brien, 2021, Proceedings of the National Academy of Sciences of the United States of America

RiboA: a web application to identify ribosome A-site locations in ribosome profiling data

Danying Shao, Nabeel Ahmed, Nishant Soni, Edward P. O’Brien, 2021, BMC Bioinformatics

Genomic and experimental evidence that ALK<sup>ATI</sup> does not predict single agent sensitivity to ALK inhibitors

Haider Inam, Ivan Sokirniy, Yiyun Rao, Anushka Shah, Farnaz Naeemikia, Edward O'Brien, Cheng Dong, David M. McCandlish, Justin R. Pritchard, 2021, iScience

Ribosome Elongation Kinetics of Consecutively Charged Residues Are Coupled to Electrostatic Force

Sarah E. Leininger, Judith Rodriguez, Quyen V. Vu, Yang Jiang, Mai Suan Li, Carol Deutsch, Edward P. O'Brien, 2021, Biochemistry on p. 3223-3235

The driving force for co-translational protein folding is weaker in the ribosome vestibule due to greater water ordering

Quyen V. Vu, Yang Jiang, Mai Suan Li, Edward P. O'Brien, 2021, Chemical Science on p. 11851-11857

Most-Cited Papers

Cotranslational Protein Folding inside the Ribosome Exit Tunnel

Ola B. Nilsson, Rickard Hedman, Jacopo Marino, Stephan Wickles, Lukas Bischoff, Magnus Johansson, Annika Müller-Lucks, Fabio Trovato, Joseph D. Puglisi, Edward P. O'Brien, Roland Beckmann, Gunnar von Heijne, 2015, Cell Reports on p. 1533-1540

Profiling Ssb-Nascent Chain Interactions Reveals Principles of Hsp70-Assisted Folding

Kristina Döring, Nabeel Ahmed, Trine Riemer, Harsha Garadi Suresh, Yevhen Vainshtein, Markus Habich, Jan Riemer, Matthias P. Mayer, Edward P. O'Brien, Günter Kramer, Bernd Bukau, 2017, Cell on p. 298-311.e20

Prediction of variable translation rate effects on cotranslational protein folding

Edward P. O'Brien, Michele Vendruscolo, Christopher M. Dobson, 2012, Nature Communications

Does SARS-CoV-2 bind to human ACE2 more strongly than does SARS-CoV?

Hoang Linh Nguyen, Pham Dang Lan, Nguyen Quoc Thai, Daniel A. Nissley, Edward P. O'Brien, Mai Suan Li, 2020, Journal of Physical Chemistry B on p. 7336-7347

Understanding the influence of codon translation rates on cotranslational protein folding

Edward P. O'Brien, Prajwal Ciryam, Michele Vendruscolo, Christopher M. Dobson, 2014, Accounts of Chemical Research on p. 1536-1544

Effects of pH on proteins: Predictions for ensemble and single-molecule pulling experiments

Edward P. O'Brien, Bernard R. Brooks, D. Thirumalai, 2012, Journal of the American Chemical Society on p. 979-987

Trigger factor slows Co-translational folding through kinetic trapping while sterically protecting the nascent chain from aberrant cytosolic interactions

Edward P. O'Brien, John Christodoulou, Michele Vendruscolo, Christopher M. Dobson, 2012, Journal of the American Chemical Society on p. 10920-10932

Kinetic modelling indicates that fast-translating codons can coordinate cotranslational protein folding by avoiding misfolded intermediates

Edward P. O'brien, Michele Vendruscolo, Christopher M. Dobson, 2014, Nature Communications

Protein folding: From theory to practice

D. Thirumalai, Zhenxing Liu, Edward P. O'Brien, Govardhan Reddy, 2013, Current Opinion in Structural Biology on p. 22-29

Timing is everything: Unifying Codon translation rates and nascent proteome behavior

Daniel A. Nissley, Edward P. Obrien, 2014, Journal of the American Chemical Society on p. 17892-17898