Author

J. E. Pak

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 3 Biochemistry· 2 Immunology· 2 Bioengineering· 1 Biophysics· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 8 Research Focus:host-pathogen & immune response· 5 Organism:human· 4 Assay:proteomics· 4 Research Focus:cell type annotation· 2 Research Focus:clustering· 2 Assay:protein structure· 2 Assay:scRNA-seq· 2

Frequent Co-Authors

E. Waltari· 3 shared C. M. Worthington· 2 shared C. Y. Chiu· 2 shared K. M. McCutcheon· 2 shared P. S. Kim· 2 shared A. A. Gelfand· 1 shared A. Agrawal· 1 shared A. E. Powell· 1 shared

Activity by Year

2019-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 12 mutual co-author links

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3 shared papersImmunology

E. Waltari

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Author profile →

9 papers

Recent·Most cited

Open-source milligram-scale, four channel, automated protein purification system

R. R. Puccinelli, S. S. Sama, C. M. Worthington, A. S. Puschnik, J. E. Pak, R. Gomez-Sjoberg

The paper describes an open-source automated protein purification system capable of parallelizing milligram-scale purification of multiple recombinant proteins.

bioRxiv · Aug 9, 2023Bioengineering

AIRRscape: an interactive tool for exploring B-cell receptor repertoires and antibody responses

E. Waltari, S. Nafees, J. Wong, K. M. McCutcheon, J. E. Pak

AIRRscape is an interactive tool for exploring B-cell receptor repertoires and antibody responses across multiple datasets, revealing convergent sequences in viral immunity.

PLOS Computational Biology · Sep 20, 2022Peer-reviewedImmunology

A single-component luminescent biosensor for the SARS-CoV-2 spike protein

M. Ravalin, H. Roh, R. Suryawanshi, G. R. Kumar, J. E. Pak, M. Ott, A. Y. Ting

This paper develops a single-component luminescent biosensor for detecting SARS-CoV-2 spike protein using E. coli and S. cerevisiae, enabling detection with a cell phone camera.

bioRxiv · Jun 15, 2022Biochemistry

Converting non-neutralizing SARS-CoV-2 antibodies targeting conserved epitopes into broad-spectrum inhibitors through receptor blockade

P. A.-B. Weidenbacher, E. Waltari, I. de los Rios Kobara, B. N. Bell, J. E. Pak, P. S. Kim

This paper converts non-neutralizing SARS-CoV-2 antibodies into broad-spectrum inhibitors by tethering ACE2 to conserved epitope-targeting antibodies, showing potent neutralization against all variants including Omicron.

bioRxiv · Jan 24, 2022 · PreprintBiochemistry

SARS-CoV-2 Spike triggers barrier dysfunction and vascular leak via integrins and TGF-β signaling

S. B. Biering, F. Tramontini Gomes de Sousa, L. V. Tjang, F. Pahmeier, R. Ruan, S. F. Blanc, T. S. Patel, C. M. Worthington, D. R. Glasner, B. Castillo-Rojas, V. Servellita, N. T. Lo, M. P. Wong, C. M. Warnes, D. R. Sandoval, , E. Harris

This study shows SARS-CoV-2 Spike protein causes barrier dysfunction and vascular leak through integrins and TGF-β signaling, independent of viral replication and ACE2.

bioRxiv · Dec 10, 2021 · PreprintMicrobiology

The SARS-CoV-2 spike reversibly samples an open-trimer conformation exposing novel epitopes

S. M. Costello, S. R. Shoemaker, H. T. Hobbs, A. W. Nguyen, C.-L. Hsieh, J. A. Maynard, J. S. McLellan, J. E. Pak, S. Marqusee

The paper identifies an alternative open-trimer conformation of the SARS-CoV-2 spike ectodomain that exposes novel epitopes and is modulated by temperature, binding, and sequence variants.

bioRxiv · Jul 11, 2021Biophysics

A single immunization with spike-functionalized ferritin vaccines elicits neutralizing antibody responses against SARS-CoV-2 in mice

A. E. Powell, K. Zhang, M. Sanyal, S. Tang, P. A. Weidenbacher, S. Li, T. D. Pham, J. E. Pak, W. Chiu, P. S. Kim

This study shows that a single dose of spike-functionalized ferritin vaccines in mice generates neutralizing antibodies against SARS-CoV-2, with S{Delta}C-Fer showing higher efficacy than other spike formats.

bioRxiv · Aug 28, 2020Immunology

Functional characterization and lineage analysis of broadly neutralizing human antibodies against dengue virus identified by single B cell transcriptomics

N. D. Durham, A. Agrawal, E. Waltari, D. Croote, F. Zanini, M. Fouch, E. Davidson, O. Smith, E. Carabajal, J. E. Pak, B. J. Doranz, M. Robinson, A. M. Sanz, L. L. Albornoz, F. Rosso, , L. Goo

The paper identifies two broadly neutralizing antibodies against dengue virus through single B cell transcriptomics and characterizes their epitopes and evolutionary pathways.

bioRxiv · Oct 2, 2019Microbiology

Serological and metagenomic interrogation of cerebrospinal fluid implicates enteroviruses in pediatric acute flaccid myelitis

R. D. Schubert, I. Hawes, P. S. Ramachandran, A. Ramesh, E. D. Crawford, J. E. Pak, W. Wu, C. K. Cheung, B. D. O'Donovan, C. M. Tato, A. Lyden, M. Tan, R. Sit, G. Sowa, H. A. Sample, , Ob

This study identifies high levels of enterovirus antibodies in cerebrospinal fluid of children with acute flaccid myelitis compared to controls, suggesting a causal role for non-polio enteroviruses.

bioRxiv · Jun 19, 2019Microbiology