I completed my PhD with Dan Jarosz in the Department of Chemical and Systems Biology at Stanford University working on prion epigenetic switches. I then moved to the Vienna BioCenter, where since 2020 I have been working to understand the evolution of complex chromatin regulation, first as an EMBO Postdoctoral Fellow and then an FWF ESPRIT Senior Postdoctoral Fellow in the lab of Frédéric Berger at the GMI.
Where I’ve been
I’m dissecting how the nucleosome has embedded itself in essentially every genomic function at single-residue resolution. Using deep mutational scanning, high-throughput genomics, and artificial intelligence, I’m mapping the nucleosome’s role in processes from gene regulation to genome maintenance to understand how it evolved its diverse array of functions through vanishingly small sequence changes. Understanding these mechanisms at scale will not only allow us to derive the first principles of nucleosome function, but also provide critical insights needed to tackle genomic dysfunction driven by their mutation in disease.
What I’m up to
Nucleosomes as regulatory hubs
Protein–protein interactions with the nucleosome remain an underexplored axis of genomic regulation, despite evidence that these contacts precisely control DNA accessibility, chromatin remodeling, and recruitment of transcriptional machinery. Our recent study (Harvey et al., Cell Reports, 2025) shows that transient, multivalent interfaces between regulatory factors and core histone surfaces can gate distinct regulatory outcomes. By probing these dynamic, nucleosome-centered interactions rather than treating the histone core as a passive substrate, we uncovered effects driven by interaction geometry, residence time, and cooperative binding—parameters that help explain context-dependent gene expression and suggest new avenues for targeted epigenomic intervention.
Funding
Chromatin’s role in adaptation
Understanding the role of the nucleosome in shaping adaptation requires moving beyond the long-standing recognition that nucleosomes are essential for stress responses to uncover the specific mechanisms by which they do so. Our pre-print documents how dynamic nucleosome positioning and histone-DNA interactions modulate accessibility of regulatory elements during stress, influencing transcriptional programs that drive adaptive phenotypes. Although the nucleosome’s importance has been appreciated for decades, the precise ways it coordinates chromatin remodeling, transcription factor binding, and epigenetic memory under fluctuating environments have remained elusive; our work clarifies these links by combining high-resolution nucleosome mapping with functional assays to show how nucleosome dynamics scaffold rapid yet directed gene expression changes that underpin adaptation. What began as a passion project has evolved into a systematic effort—grounded in careful measurement and intentional design—to reveal the mechanistic roles of the nucleosome in enabling organisms to sense, respond, and remember stress.
Funding
Contact
Electronic Mail: zachary (dot) harvey (at) gmi (dot) oeaw (dot) ac (dot) at
Vintage Mail: Gregor Mendel Institute GmbH
Vienna BioCenter
Dr.-Bohr-Gasse 3
1030 Vienna
Austria