Author

P. V. Phaneuf

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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Bioengineering· 3 Microbiology· 1

Signature Assays, Organisms & Methods

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Organism:E. coli· 4 Approach:statistical model· 3 Assay:whole-genome sequencing· 3 Research Focus:variant effect prediction· 2 Research Focus:cell type annotation· 1 Research Focus:chromatin & epigenetic regulation· 1 Approach:comparative / phylogenetic analysis· 1 Assay:DNA methylation· 1

Frequent Co-Authors

B. O. Palsson· 3 shared L. Yang· 2 shared M. Wu· 2 shared R. Szubin· 2 shared S. H. Kim· 2 shared A. Feist· 1 shared A. M. Feist· 1 shared A. V. Sastry· 1 shared

Activity by Year

2019-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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3 shared papersBioengineering

B. O. Palsson

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Author profile →

4 papers

Recent·Most cited

Data-Driven Strain Design Towards Mitigating Biomanufacturing Stresses

P. V. Phaneuf, S. H. Kim, K. Rychel, C. Rode, F. Beulig, B. O. Palsson, L. Yang

This paper identifies mutations improving stress tolerance in E. coli for melatonin production using a data-driven approach integrating adaptive evolution data and multi-omics analysis.

bioRxiv · Sep 17, 2023 · PreprintBioengineering

Laboratory-acquired mutations fall outside the wild-type alleleome of Escherichia coli

E. A. Catoiu, P. V. Phaneuf, J. Monk, B. Palsson

The paper compares laboratory-acquired mutations to the wild-type alleleome of E. coli, finding that lab mutations rarely exist in the wild-type alleleome and are less likely to be synonymous.

bioRxiv · Apr 4, 2022 · PreprintBioengineering

Data-Driven Strain Design Using Aggregated Adaptive Laboratory Evolution Mutational Data

P. V. Phaneuf, D. C. Zielinski, J. T. Yurkovich, J. Johnsen, R. Szubin, L. Yang, S. H. Kim, S. Schulz, M. Wu, C. Dalldorf, E. Ozdemir, B. O. Palsson, A. Feist

This paper presents a data-driven workflow to design microbial strains using aggregated ALE mutational data, revealing gene-centric mutations that significantly alter cellular states.

bioRxiv · Jul 19, 2021Bioengineering

Adaptive laboratory evolution of Escherichia coli under acid stress

B. Du, C. A. Olson, A. V. Sastry, X. Fang, P. V. Phaneuf, K. Chen, M. Wu, R. Szubin, S. Xu, Y. Gao, Y. Hefner, A. M. Feist, B. O. Palsson

This study evolves E. coli under acid stress and identifies genetic and expression changes that enhance acid tolerance.

bioRxiv · Jun 4, 2019Microbiology