Author

Jeremy E. Wilkinson

Pacific Biosciences (United States)ORCID 0000-0002-8024-5600Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Microbiology· 2

Signature Assays, Organisms & Methods

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Research Focus:clustering· 2 Approach:deep learning· 2 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Assay:metagenomics· 2 Approach:statistical model· 2 Research Focus:cell type annotation· 1 Research Focus:database / resource· 1

Frequent Co-Authors

Daniel M. PortikiD· 2 shared Allison K. GuitoriD· 1 shared Anabelle Damerum· 1 shared Benjamin AuchiD· 1 shared Brett Farthing· 1 shared Christopher QuinceiD· 1 shared Daniel J. NaskoiD· 1 shared Gaëtan Benoit· 1 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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2 shared papersMicrobiology

Daniel M. PortikORCID

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Metagenomic strain-resolved DNA modification patterns link extrachromosomal genetic elements to host strains

Shuai Wang, Allison K. Guitor, Luis E. Valentin-Alvarado, Rebecca E. Garner, Pengfei Zhang, Ming Yan, Ling-Dong Shi, Marie Charlotte Schoelmerich, Holly M. Steininger, Daniel M. Portik, Siyuan Zhang, Jeremy E. Wilkinson, Susan V. Lynch, Michael J. Morowitz, Matthias Hess, , Rohan Sachdeva

The paper introduces MODIFI, a tool for detecting DNA modifications in metagenomes, and identifies ECE-host linkages in environmental and human samples.

bioRxiv · Mar 28, 2026 · PreprintMicrobiology

Highly accurate metagenome-assembled genomes from human gut microbiota using long-read assembly, binning, and consolidation methods

Daniel M. Portik, Xiaowen Feng, Gaëtan Benoit, Daniel J. Nasko, Benjamin Auch, Samuel Bryson, Raúl J. Cano, Martha R. Carlin, Anabelle Damerum, Brett Farthing, Jonas Grove, Moutusee Islam, Kyle W. Langford, Ivan Liachko, Kristopher M. Locken, , Jeremy E. Wilkinson

This study improves metagenome-assembled genomes from human gut microbiota using long-read sequencing and novel assembly methods, yielding more high-quality MAGs and uncovering uncultured diversity.

bioRxiv · May 10, 2024 · PreprintMicrobiology