Brian Beliveau
Research:
My research group is focused on building robust and scalable enabling technologies to study the organization of chromosomes in 3D space, the interactions they participate in at the inter- and intra-chromosomal level, and the associated RNAs and proteins that occupy functionally relevant sites. The motivation for this work is to better understand the mechanisms by which the organization and composition of genomic intervals relevant for health and disease impact the essential DNA transactions of transcription, replication, and repair. We also are committed to building ecosystems supported by open-source software, low-cost hardware, and extensive documentation to democratize the adoption of advanced single cell and spatial approaches in order to facilitate their application in a broad range of research settings.
Selected Publications:
Liu, Y.*, McGann, C.D.*, Krebs, M., Perkins Jr., T.A., Fields, R., Camplisson, C.K., Nwizugbo, D.Z., Hsu, C., Avanessian, S.C., Tsue, A.F., Kania, E.E., Shechner, D.M., Beliveau, B.J.†, Schweppe, D.K.† DNA O-MAP uncovers the molecular neighborhoods associated with specific genomic loci. eLife https://elifesciences.org/reviewed-preprints/102489 (2024). [*Co-first authors] [†Co-corresponding authors]
Attar, S., Browning, V.E.*, Krebs, M.*, Liu, Y., Nichols, E.K., Tsue, A.F., Shechner, D.M., Shendure, J., Lieberman, J.A., Schweppe, D.K., Akilesh, S.†, Beliveau, B.J.† Efficient and highly amplified imaging of nucleic acid targets in cellular and histopathological samples with pSABER. Nature Methods https://doi.org/10.1038/s41592-024-02512-2 (2024). [*Equal author contribution] [†Co-corresponding authors]
Aguilar, R., Camplisson, C.K., Lin, Q., Miga, K.H., Noble, W.S.†, Beliveau, B.J.† Tigerfish designs oligonucleotide-based in situ hybridization probes targeting intervals of highly repetitive DNA at the scale of genomes. Nature Communications 15, 1027 (2024). [†Co-corresponding authors]
Hershberg, E.A.*, Camplisson, C.K.*, Close, J.L., Attar, S., Chern, R., Liu, Y., Akilesh, S., Nicovich, P.R., Beliveau, B.J. PaintSHOP enables the interactive design of transcriptome- and genome-scale oligonucleotide FISH experiments. Nature Methods 18, 937–944 (2021). [*Equal author contribution]
Kishi, J.Y.*, Lapan, S.W.*, Beliveau, B.J.*,†, West, E.R.*, Zhu, A., Sasaki, H.M., Saka, S.K., Wang, Y., Cepko, C.L.†, Yin, P.† SABER amplifies FISH: enhanced multiplexed imaging of RNA and DNA in cells and tissues. Nature Methods 16, 533–544 (2019). [*Equal author contribution] [†Co-corresponding authors]