Publications

While you can find a full list of our publications on PubMed (https://www.ncbi.nlm.nih.gov/myncbi/tiffany.amariuta.1/bibliography/public/), this page has selected publications for the lab.

Estimating the cis-heritability of gene expression from single cell RNA-sequencing

Xu, Z., Massarat, A., Rumker, L., Gymrek, M., Raychaudhuri, S., Zhou, W., Amariuta, T. Estimating the cis-heritability of gene expression using single cell expression profiles controls false positive rate of eGene detection. bioRxiv (2025). https://www.biorxiv.org/content/10.1101/2025.02.24.639892v1. https://doi.org/10.1101/2025.02.24.639892.

Detecting disease-critical genes in underrepresented populations

Akamatsu, K., Golzari, S., Amariuta, T. Powerful mapping of cis-genetic effects on gene expression across diverse populations reveals novel disease-critical genes. medRxiv (2024). https://www.medrxiv.org/content/10.1101/2024.09.25.24314410v1. https://doi.org/10.1101/2024.09.25.24314410.

Inferring causal cell types in diseases and complex traits

Amariuta T., Siewert-Rocks, K., Price, A.L. Modeling tissue co-regulation estimates tissue-specific contributions to disease. Nature Genetics. 55, 1503-1511 (2023). https://www.nature.com/articles/s41588-023-01474-z. https://doi.org/10.1038/s41588-023-01474-z.

Trans-ancestry portability of genetic association data

Amariuta, T.*, Ishigaki, K.*, Sugishita, H., Ohta, T., Koido, M., Dey, K. K., Matsuda, K., Murakami, Y., Price, A. L., Kawakami, E., Terao, C. & Raychaudhuri, S. Improving the trans-ancestry portability of polygenic risk scores by prioritizing variants in predicted cell-type-specific regulatory elements. Nature Genetics. 52, 1346–1354 (2020). https://www.nature.com/articles/s41588-020-00740-8. https://doi.org/10.1038/s41588-020-00740-8. *These authors contributed equally to this work

Cell-type-specific enhancer predictions

Amariuta, T., Luo, Y., Gazal, S., Davenport, E. E., van de Geijn, B., Ishigaki, K., Westra, H.-J., Teslovich, N., Okada, Y., Yamamoto, K., RACI Consortium, GARNET Consortium, Price, A. L., Raychaudhuri, S. IMPACT: Genomic annotation of cell-state-specific regulatory elements inferred from the epigenome of bound transcription factors. American Journal of Human Genetics. 104, 879–895 (2019). https://www.cell.com/ajhg/fulltext/S0002-9297(19)30108-9. https://doi.org/10.1016/j.ajhg.2019.03.012.

Note

You can also interact with IMPACT in the University of California, Santa Cruz (UCSC) Genome Browser!

Navigate over to the Genome Browser page of our lab website for more information.

Review article on advances in rheumatoid arthritis genetics

Amariuta, T., Luo, Y., Knevel, R., Okada, Y., Raychaudhuri, S. Advances in genetics toward identifying and profiling pathogenic cell states of rheumatoid arthritis. Immunological Reviews (2019). https://onlinelibrary.wiley.com/doi/10.1111/imr.12827. https://doi.org/10.1111/imr.12827.