The DOI matches its Crossref record; 64 of the 64 references it cites were found in a registry or an index.
Functional interpretation of single cell similarity maps
Open accessAbstract
We present Vision , a tool for annotating the sources of variation in single cell RNA-seq data in an automated and scalable manner. Vision operates directly on the manifold of cell-cell similarity and employs a flexible annotation approach that can operate either with or without preconceived stratification of the cells into groups or along a continuum. We demonstrate the utility of Vision in several case studies and show that it can derive important sources of cellular variation and link them to experimental meta-data even with relatively homogeneous sets of cells. Vision produces an interactive, low latency and feature rich web-based report that can be easily shared among researchers, thus facilitating data dissemination and collaboration.
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Robust enumeration of cell subsets from tissue expression profiles
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SCANPY: large-scale single-cell gene expression data analysis
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Cited by
A Python library for probabilistic analysis of single-cell omics data
Gayoso, A., Lopez, R., Xing, G., Boyeau, P., Valiollah Pour Amiri, V., Hong, J., Wu, K., Jayasuriya, M., Mehlman, E., Langevin, M., et al. (2022) · Nature Biotechnology · doi:10.1038/s41587-021-01206-w · Cited by 789
Self-citationObesity Shapes Metabolism in the Tumor Microenvironment to Suppress Anti-Tumor Immunity
Ringel, A. E., Drijvers, J. M., Baker, G. J., Catozzi, A., García-Cañaveras, J. C., Gassaway, B. M., Miller, B. C., Juneja, V. R., Nguyen, T. H., Joshi, S., et al. (2020) · Cell · doi:10.1016/j.cell.2020.11.009 · Cited by 780
Xu, C., Lopez, R., Mehlman, E., Regier, J., Jordan, M. I., & Yosef, N. (2021) · Molecular Systems Biology · doi:10.15252/msb.20209620 · Cited by 691
“The first is ab initio labeling of cells based on marker genes or gene signatures (DeTo-maso & Yosef, 2016; Butler et al , 2018; DeTomaso et al , 2019).”
Self-citationJoint probabilistic modeling of single-cell multi-omic data with totalVI
Gayoso, A., Steier, Z., Lopez, R., Regier, J., Nazor, K. L., Streets, A., & Yosef, N. (2021) · Nature Methods · doi:10.1038/s41592-020-01050-x · Cited by 592
Self-citationMetabolic modeling of single Th17 cells reveals regulators of autoimmunity
Wagner, A., Wang, C., Fessler, J., DeTomaso, D., Avila-Pacheco, J., Kaminski, J., Zaghouani, S., Christian, E., Thakore, P., Schellhaass, B., et al. (2021) · Cell · doi:10.1016/j.cell.2021.05.045 · Cited by 524
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Metadata
- Authors
- DeTomaso, D., Jones, M. G., Subramaniam, M., Ashuach, T., Ye, C. J., & Yosef, N.
- Venue
- Nature Communications
- Published
- 2019-09-26
- Volume
- 10
- Issue
- 1
- Pages
- 4376-4376
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W2976681669
- Cited by
- 264
- References
- 64
- FWCI
- 8.31
- Type
- journal article
- Language
- en
- Open access
- gold
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