Year: 2020
Type: article
Abstract: Dimensionality reduction is often used to visualize complex expression profiling data. Here, we use the Uniform Manifold Approximation and Projection (UMAP) method on published transcript profiles of 1484 single gene deletions of Saccharomyces cerevisiae. Proximity in low-dimensional UMAP space identifies groups of genes that correspond to protein complexes and pathways, and finds novel protein interactions, even within well-characterized complexes. This approach is more sensitive than previous methods and should be broadly useful as additional transcriptome datasets become available for other organisms.
Source: Nature Communications
Institution: University of Washington
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $5,380
Funders: U.S. Department of Health and Human Services, National Institutes of Health, Ignatian Center for Jesuit Education, Santa Clara University, National Heart, Lung, and Blood Institute, National Human Genome Research Institute, National Institute of General Medical Sciences, National Institute of Diabetes and Digestive and Kidney Diseases, Eunice Kennedy Shriver National Institute of Child Health and Human Development
Awards: G1566140461, A yeast model of complex disease genetics, Pulmonary Macrophage Transplantation for Pulmonary Alveolar Proteinosis, G2006176778, Niche signals in HSC genesis, Charting the regulatory topography of the cell differentiation landscape with single-cell RNA-Seq., Comprehensive Biology: Exploiting the Yeast Genome, G493349912, G8396927496, Technology to understand genetic variant effects in context, Toward a mechanistic understanding of genetic interactions
OpenAlex ID: W3014040695