Author

Brett Smith

Institute for Systems BiologyORCID 0000-0002-2586-5014Unclaimed 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:differential expression· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:gene regulatory network inference· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Approach:experimental assay· 1

Frequent Co-Authors

Andrew T. MagisiD· 2 shared Christopher G. LaustediD· 2 shared Leroy HoodiD· 2 shared Noa RappaportiD· 2 shared Pamela Troisch· 2 shared Ajay Suresh AkhadeiD· 1 shared Ameek Bhalla· 1 shared Andrew WebsteriD· 1 shared

Activity by Year

2022-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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2 shared papersImmunology

Andrew T. MagisORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Multiomics Reveals Compartmentalized Immune Responses and Tissue-Vascular Signatures in Lyme Disease

Clifford Rostomily, Ameek Bhalla, Henry R. Hampton, Lance T. Pflieger, Mary E. Brunkow, Denise Cooper, Christopher G. Lausted, Ajay Suresh Akhade, Brett Smith, Kelsey Scherler, Pamela Troisch, Kai Wang, Gary P. Wormser, Noa Rappaport, Leroy Hood, Naeha Subramanian

This study uses multiomic analysis to identify compartmentalized immune responses and tissue-vascular signatures in Lyme disease, linking local immune processes to systemic symptoms.

bioRxiv · May 27, 2025 · PreprintImmunology

APMAT analysis reveals the association between CD8 T cell receptors, cognate antigen, and T cell phenotype and persistence

Jingyi Xie, Daniel G. Chen, William Chour, Rachel H. Ng, Rongyu Zhang, Dan Yuan, Jongchan Choi, Michaela McKasson, Pamela Troisch, Brett Smith, Lesley Jones, Andrew Webster, Yusuf Rasheed, Sarah Li, Rick Edmark, , James R. Heath

APMAT analysis links CD8 T cell receptors, cognate antigens, and T cell phenotype/persistence using integrated experimental-computational methods.

Nature Communications · Feb 6, 2025Peer-reviewedImmunology

Genome-microbiome interplay provides insight into the determinants of the human blood metabolome

Christian Diener, Chengzhen L. Dai, Tomasz Maciej Wilmanski, Priyanka Baloni, Brett Smith, Noa Rappaport, Leroy Hood, Andrew T. Magis, Sean M. Gibbons

The paper analyzes the genetic and microbiome contributions to blood metabolite variation across 2,049 individuals, finding that over 60% of metabolites are associated with either genetics or the microbiome, with some showing interaction effects.

Nature Metabolism · Nov 10, 2022Peer-reviewedSystems Biology