Author

David F. Smith

Cincinnati Children's Hospital Medical CenterORCID 0000-0002-0048-4012Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genetic & Genomic Medicine· 2 Systems Biology· 2 Bioinformatics· 1 Genetics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 6 Research Focus:differential expression· 5 Assay:bulk RNA-seq· 4 Approach:statistical model· 4 Research Focus:gene regulatory network inference· 3 Approach:machine learning (classical)· 3 Assay:ChIP-seq· 2 Approach:Bayesian inference· 1

Frequent Co-Authors

John B. HogeneschiD· 5 shared Gang WuiD· 4 shared Lauren J. FranceyiD· 4 shared Marc D. RubeniD· 4 shared Ron C. AnafiiD· 3 shared Andrew C. LiuiD· 2 shared John E. OblongiD· 2 shared Joseph D. SherrilliD· 2 shared

Activity by Year

2018-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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5 shared papersSystems Biology

John B. HogeneschORCID

Mutual co-authors in cluster

Author profile →

7 papers

Recent·Most cited

Comparison of PU.1 genomic binding across immune cells reveals cell type-specific roles in autoimmune disease

David A. Lewis, Molly Shook, Lucinda P. Lawson, Sreeja Parameswaran, Xiaoting Chen, Lee Edsall, Omer A. Donmez, Cailing Yin, Diego A. Rosado‐Tristani, Andrew VonHandorf, Phillip J. Dexheimer, Carmy R. Forney, Jennifer M. Felton, Arame A. Diouf, Katelyn A. Dunn, , Leah Claire Kottyan

medRxiv · Jan 27, 2026 · PreprintGenetic & Genomic Medicine

Machine learning approaches to identify sleep genes

Yin Yeng Lee, Mehari Endale, Gang Wu, Marc D. Ruben, Lauren J. Francey, Andrew R. Morris, Natalie Y Choo, Ron C. Anafi, David F. Smith, Andrew C. Liu, John B. Hogenesch

This study uses machine learning to predict sleep-related genes from genomic data and validates the NF-κB pathway's role in sleep duration in mice.

SLEEP · Dec 3, 2022Peer-reviewedGenomics

High-resolution promoter interaction analysis implicates genes involved in the activation of Type 3 Innate Lymphoid Cells in autoimmune disease risk

Valeriya Malysheva, Helen F. Ray-Jones, Nora Lakes, Rachel A. Brown, Tareian A. Cazares, Owen Clay, David E Ohayon, Pavel Artemov, Joseph A. Wayman, Zi F. Yang, Monica Della Rosa, Carmen Petitjean, Clarissa D. Booth, Joseph I. J. Ellaway, Jenna R. Barnes, , Mikhail Spivakov

The paper maps promoter interactions in human ILC3s using PCHi-C and links GWAS risk variants to target genes, identifying new autoimmune disease risk genes.

bioRxiv · Oct 19, 2022 · PreprintGenetics

Detailed Clinical and Functional Studies of New MTOR Variants in Smith-Kingsmore Syndrome Reveal Deficits of Circadian and Sleep Homeostasis

Andrew C. Liu, Yang Shen, Destino Roman, Hongzhi He, Carolyn R. Serbinski, Lindsey Aschbacher‐Smith, Katherine A. King, Jorge Luis Granadillo, Isabel López, Darcy A. Krueger, Thomas J. Dye, David F. Smith, John B. Hogenesch, Carlos Enrique Prada

This study identifies new MTOR variants in Smith-Kingsmore Syndrome, reveals circadian and sleep deficits, and shows rapamycin treatment can improve symptoms.

medRxiv · Feb 15, 2022 · PreprintGenetic & Genomic Medicine

A single-sample circadian biomarker that performs across populations and platforms

Gang Wu, Marc D. Ruben, Lauren J. Francey, David F. Smith, Joseph D. Sherrill, John E. Oblong, Kevin J. Mills, John B. Hogenesch

The paper develops a 12-gene circadian biomarker from epidermal samples that accurately estimates circadian phase across body sites, ages, sexes, and platforms.

Genome Medicine · Aug 21, 2020Peer-reviewedSystems Biology

Population level rhythms in human skin: implications for circadian medicine

Gang Wu, Marc D. Ruben, Robert E. Schmidt, Lauren J. Francey, David F. Smith, Ron C. Anafi, Jacob Hughey, Ryan A. Tasseff, Joseph D. Sherrill, John E. Oblong, Kevin J. Mills, John B. Hogenesch

The paper identifies robust circadian rhythms in human skin at the population level and develops single-sample biomarkers for circadian phase.

Proceedings of the National Academy of Sciences · Oct 30, 2018Peer-reviewedSystems Biology

A population-based human enCYCLOPedia for circadian medicine

Marc D. Ruben, Gang Wu, David F. Smith, Robert E. Schmidt, Lauren J. Francey, Ron C. Anafi, John B. Hogenesch

The paper identifies rhythmic gene expression across human tissues using computational methods and highlights implications for circadian medicine in cardiovascular disease.

bioRxiv · Apr 14, 2018 · PreprintBioinformatics