An online database for visualization and analysis of cell morphologies and gene expressions throughout Caenorhabditis elegans embryogenesis.
Preview
The stereotyped development of C. elegans with invariant cell lineage permits systematic and unambiguous analyses of genetic and cellular control of embryogenesis with exceptional spatial and temporal resolution. To enable systematic and quantitative analysis of (multi)cellular morphodynamics during embryogenesis, we develop a new segmentation method that has successfully recognized cell membrane fluorescence and reconstructed each cell's morphology since the 4-cell stage and up to the ~550-cell stage, when most embryonic cells complete their last round of division with defined fate. To facilitate access to our data by the community, we present CMOS (Cellular Morphology of C. elegans Embryo), an online database for visualization and analysis of cellular morphologies and gene expressions for all defined cells at ~1.5-minute interval from 4-cell to ~550-cell stage of C. elegans embryogenesis. Specifically, the database allows integrative access to the 3-dimensional (3D) cell shapes, precomputed cell volumes, surface areas, and contact areas, which are all integrated with the cell-resolved expression profiles of over 400 genes (mainly transcription factors and signaling molecules). It provides customizable access to cell-cell contact network integrated with cell-resolved gene expression profiles by query with a specific cell name, time point, or embryo sample. Interactive access to the quantitative genetic and cellular data with high resolutions is anticipated to substantially facilitate the study of molecular and morphogeneticcontrol during embryonic development.
Feature
8 embryo models based on 3D time-lapse cell images and constructed by CMap pipeline.
| Embryo sample | Time point range | Minutes |
|---|---|---|
| WT_Sample1 | 1 ~ 205 | 307.5 |
| WT_Sample2 | 1 ~ 205 | 307.5 |
| WT_Sample3 | 1 ~ 255 | 382.5 |
| WT_Sample4 | 1 ~ 195 | 292.5 |
| WT_Sample5 | 1 ~ 195 | 292.5 |
| WT_Sample6 | 1 ~ 185 | 277.5 |
| WT_Sample7 | 1 ~ 220 | 330.0 |
| WT_Sample8 | 1 ~ 195 | 292.5 |
Visualizing digital embryogenesis in high spatiotemporal resolution coupled with cell fate
Visualizing digital embryogenesis in high spatiotemporal resolution coupled with gene expression
Visualizing digital embryogenesis in high spatiotemporal resolution with focus on particular cells
Visualizing digital embryogenesis in high spatiotemporal resolution with focus on contacting cells
