J. Otwinowski

发表

Major antigenic site B of human influenza H3N2 viruses has an evolving local fitness landscape

I. Wilson, N. Wu, J. Otwinowski, 2020, Nature Communications.

Detecting epistasis from an ensemble of adapting populations

David M. McCandlish, J. Plotkin, D. McCandlish, 2015, Evolution; international journal of organic evolution.

Inferring the shape of global epistasis

J. Plotkin, D. McCandlish, J. Otwinowski, 2018, Proceedings of the National Academy of Sciences.

Host-Pathogen Coevolution and the Emergence of Broadly Neutralizing Antibodies in Chronic Infections

J. Plotkin, J. Otwinowski, Armita Nourmohammad, 2015, bioRxiv.

Inferring fitness landscapes by regression produces biased estimates of epistasis

Jakub Otwinowski, Joshua B Plotkin, J. Plotkin, 2014, Proceedings of the National Academy of Sciences.

Fierce selection and interference in B-cell repertoire response to chronic HIV-1

T. Mora, A. Walczak, J. Otwinowski, 2019 .

Fierce Selection and Interference in B-Cell Repertoire Response to Chronic HIV-1

Thierry Mora, Aleksandra M Walczak, Jakub Otwinowski, 2018, Molecular biology and evolution.

Accumulation of beneficial mutations in one dimension.

J. Otwinowski, S. Boettcher, Jakub Otwinowski, 2011, Physical review. E, Statistical, nonlinear, and soft matter physics.

Clonal interference and Muller's ratchet in spatial habitats.

J. Krug, J. Otwinowski, 2013, Physical biology.

Proceedings of the Sixth International Workshop on Multiple Partonic Interactions at the Large Hadron Collider

D. Kar, O. Kepka, M. Krasny, 2015, 1506.05829.

Learning the shape of protein microenvironments with a holographic convolutional neural network

Colin H. LaMont, P. Bradley, J. Otwinowski, 2022, bioRxiv.

Dynamics of B-cell repertoires and emergence of cross-reactive responses in COVID-19 patients with different disease severity.

William S. DeWitt, J. Peiris, O. Tsang, 2020, ArXiv.

On the role of epistasis in adaptation

David M. McCandlish, J. Plotkin, D. McCandlish, 2014 .

The diversity of evolutionary dynamics on epistatic versus non-epistatic fitness landscapes

David M. McCandlish, J. Plotkin, D. McCandlish, 2014, 1410.2508.

Inferring protein stability and function from a high-throughput assay

J. Otwinowski, 2018 .

Biophysical Inference of Epistasis and the Effects of Mutations on Protein Stability and Function

Jakub Otwinowski, J. Otwinowski, 2018, Molecular biology and evolution.

Design of an optimal combination therapy with broadly neutralizing antibodies to suppress HIV-1

Colin H. LaMont, J. Otwinowski, Armita Nourmohammad, 2021, eLife.

Clonal competition in B-cell repertoires during chronic HIV-1 infection

Thierry Mora, Aleksandra M Walczak, Jakub Otwinowski, 2018, bioRxiv.

Genotype to Phenotype Mapping and the Fitness Landscape of the E. coli lac Promoter

Ilya Nemenman, Jakub Otwinowski, I. Nemenman, 2012, PloS one.

Clonal interference and Mullerʼs ratchet in spatial habitats

J. Krug, J. Otwinowski, Jakub Otwinowski, 2013, Physical biology.

Speeding up Evolutionary Search by Small Fitness Fluctuations

Ilya Nemenman, Jakub Otwinowski, Sorin Tanase-Nicola, 2010, Journal of statistical physics.

Dynamics of B cell repertoires and emergence of cross-reactive responses in patients with different severities of COVID-19

William S. DeWitt, J. Peiris, I. Wilson, 2021, Cell Reports.

Dynamics of B-cell repertoires and emergence of cross-reactive responses in COVID-19 patients with different disease severity

William S. DeWitt, J. Peiris, O. Tsang, 2020, medRxiv.

Direct observation of colloidal aggregation by critical Casimir forces.

Stefano Sacanna, Jakub Otwinowski, Peter Schall, 2009, Physical review letters.

A totally asymmetric exclusion process with hierarchical long range connections

Stefan Boettcher, Jakub Otwinowski, J. Otwinowski, 2009, 0902.2262.

Contrastive losses as generalized models of global epistasis

David H. Brookes, J. Otwinowski, S. Sinai, 2023, ArXiv.

Novel techniques of laser acceleration: from structures to plasmas

G. Shvets, O. Polomarov, J. Otwinowski, 2006, Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences.

Information-Geometric Optimization with Natural Selection

Colin H. LaMont, J. Otwinowski, Armita Nourmohammad, 2019, Entropy.

Major antigenic site B of human influenza H3N2 viruses has an evolving local fitness landscape

I. Wilson, N. Wu, J. Otwinowski, 2020, Nature Communications.

Fitness distributions in spatial populations undergoing clonal interference

J. Krug, J. Otwinowski, 2013 .

Information-Geometric Optimization with Natural Selection

Colin H. LaMont, J. Otwinowski, Armita Nourmohammad, 2019, Entropy.