Author

Andrew D. Marques

University of PennsylvaniaORCID 0000-0001-8887-7242Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Approach:experimental assay· 1 Approach:machine learning (classical)· 1 Assay:metagenomics· 1 Research Focus:protein design· 1

Frequent Co-Authors

Aaron T. TimpermaniD· 1 shared Ahmed M Moustafa· 1 shared Christian Wirsching· 1 shared Cuong T. ToiD· 1 shared Elizabeth Aine Fitts· 1 shared Frederic D. BushmaniD· 1 shared Haeun Karissa Lim· 1 shared Jiayi Duan· 1 shared

Activity by Year

2021-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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1 shared paperMicrobiology

Aaron T. TimpermanORCID

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2 papers

Recent·Most cited

MicrobiologymSystemsPeer-reviewedJun 2, 2026

Optimizing methods for virome analysis based on studies of a synthetic viral community

Jiayi Duan, Andrew D. Marques, Matthew Hogenauer…·Frederic D. Bushman

This paper evaluates virome analysis methods using a synthetic viral community, finding that VLP enrichment improves read yields and longer sequencing cycles enhance genome assembly.

DOI 10.1128/msystems.00188-26

metagenomicsexperimental assay

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BioinformaticsbioRxivPreprintMay 18, 2021

Using machine learning to design adeno-associated virus capsids with high likelihood of viral assembly

Cuong T. To, Christian Wirsching, Andrew D. Marques, Sergei Zolotukhin

This paper uses machine learning to design AAV capsid sequences with high viability, introducing Origami for sequence optimization and evaluation.

1 citation

machine learning (classical)protein design

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