Virtual EmbryoVirtual Embryo
Stages/TS9/Spatial/imputed_e6_5

Imputed · E6.5

Spateo Stereo-seq · mouse · stage TS9 · 4,444 cells · 39 genes

Imputed — not measured

Cells from a single-cell atlas were placed into the eMouseAtlas anatomical mesh for TS9 by canonical organ mapping. The cell-type-to-organ assignment is what was imputed; position within an organ is random, so organ-level structure is meaningful and sub-organ texture is not.

Expression from
Imputed — eMouseAtlas mesh + TOME scRNA-seq
Anatomy from
EMA9
Identified by bounding-box proportions, which match to 9.4%. The mesh sets the frame; it is not a registration of these cells to that specimen.

Dated E6.5 by the source data, which assigns it to TS9. Cards are placed by Theiler stage, so this can sit under a stage page whose representative day differs.

Coordinates are in the stage mesh's own units and are not comparable across Theiler stages — TS19 measures about five times TS20 despite being the earlier stage.

Dataset
Species
mouse
Organ / tissue
whole embryo
Technology
imputed
Timepoint
E6.5
Viewing stage
TS9
Cells
4,444
Genes
39
Default colour
cell_type
Spatial key
spatial
Source
Imputed — eMouseAtlas mesh + TOME scRNA-seq
Stage-matched EMA samples (TS9)

Anatomical references at the same Theiler stage. Not spatially registered to this dataset — provided as a cross-reference.