Extended Data Fig. 3: SOX2-OFF and SOX2-ON adopt distinct identities in response to WNT signaling.
Measurement of relative mRNA expression by RT-PCR shows that expression of (a) the paraxial mesoderm marker (Tbx6), and (b) the somitic mesoderm marker (Meox1), is reduced in SOX2-OFF compared to CEpiLCs. (c) GO analysis reveals that genes specifically upregulated in SOX2-OFF compared to EpiLC and CEpiLC (from clustering in Fig. 2c) are enriched for biological processes indicative of an early/anterior streak identity. (d) Measurement of relative mRNA expression by RT-qPCR shows that induction of the paraxial mesoderm marker (Tbx6) is repressed in SOX2-ON cultured in FLC medium. (e) Measurement of relative mRNA expression by RT-qPCR shows that Sox1 is not induced in SOX2-ON cultured in FLC medium. (f) SOX2-ON re-express markers associated with pluripotency when cultured in FLC medium. Triplicate FPKM values for each gene are shown. In A, B, D, E each data point represents an individual biological replicate. Bars denote mean ± s.e.m. P values calculated for differences of mean expression by two-tailed Student’s t-test are shown. In A n = 14 for 96hr samples. In B n = 4 for paraxial mesoderm and SOX2-OFF. In D n = 14 for CEpiLC and n = 8 for SOX2-ON at 96hr. In E n = 12 for Spinal cord, n = 14 for paraxial mesoderm, and n = 8 for SOX2-ON at 96hr. Source numerical data are available in source data.
