Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis

seqFISH study of sagittal sections of mouse embryos at 8-10 somite stage. An additional round of hybridisation to capture cell membrane is performed to accurately segment cell boundaries.

Lohoff T, Ghazanfar S, Missarova A, Koulena N, Pierson N, Griffiths JA, Bardot ES, Eng CHL, Tyser RCV, Argelaguet R, Guibentif C, Srinivas S, Briscoe J, Simons BD, Hadjantonakis AK, Göttgens B, Reik W, Nichols J, Cai L, Marioni JC

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