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The Drosophila embryo at single-cell transcriptome resolution
Published version of a preprint
Abstract
3D gene expression blueprint of the fly: When looking at populations of cells, features such as cell heterogeneity and localization are masked. However, single-cell sequencing reveals cellular heterogeneity and rare cell types. At the onset of gastrulation, the fly embryo consists of about 6000 cells with distinct gene expression profiles. Karaiskos et al. developed an algorithm to generate an interactive three-dimensional (3D) “virtual embryo,” with the expression of more than 8000 genes per cell measured for most cells (see the Perspective by Stadler and Eisen). The virtual embryo offers insights into developmental mechanisms—from local expression of regulators such as transcription factors and long noncoding RNAs to spatial modulation of signaling pathways. Science , this issue p. 194 ; see also p. 172
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“On the other hand, developmental studies often make use of single-cell sequencing (31) and/or spatial expression profiles such as those based on in situ hybridization (32), allowing construction of higher-resolution transcriptomic maps that resolve cellular heterogeneity.”
From Behavior-related gene regulatory networks: A new level of organization in the brain (2020) · cites this paper as [31]
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Cited by
Comprehensive Integration of Single-Cell Data
Stuart, T., Butler, A., Hoffman, P., Hafemeister, C., Papalexi, E., Mauck, W. M., Hao, Y., Stoeckius, M., Smibert, P., & Satija, R. (2019) · Cell · doi:10.1016/j.cell.2019.05.031 · Cited by 15,453
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Metadata
- Authors
- Karaiskos, N., Wahle, P., Alles, J., Boltengagen, A., Ayoub, S., Kipar, C., Kocks, C., Rajewsky, N., & Zinzen, R. P.
- Affiliations
- Systems Biology of Gene Regulatory Elements, Berlin Institute for Medical Systems Biology (BIMSB), Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC), 13125 Berlin, Germany.
- Systems Biology of Neural Tissue Differentiation, BIMSB, MDC, 13125 Berlin, Germany.
- ORCID
- Venue
- Science
- Published
- 2017-10-13
- Volume
- 358
- Issue
- 6360
- Pages
- 194-199
- ISSN
- 0036-8075
- 1095-9203
- Cited by
- 428
- References
- 13
- Language
- en
- Funders
- DFG (award341230, RA 838/8-1)
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