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Fig. 5 | Genome Biology

Fig. 5

From: BART-Seq: cost-effective massively parallelized targeted sequencing for genomics, transcriptomics, and single-cell analysis

Fig. 5

Cell populations emerging upon stimulation of the Wnt/β-catenin pathway at different stages of the cascade. a A 72-h time course differentiation experiment of hESCs that were treated by recombinant Wnt3a, CHIR99021 (CHIR), or with doxycycline (dox) to induce the expression of transgenic β-cateninΔN90. Single cells were sampled at 0, 24, and 72 h for rBART-Seq analysis. A total of 4324 cells from three biological replicates were analyzed in a single NextSeq Mid Output run. b Heatmaps of the 19 genes analyzed by rBART-Seq (72 h, left) and TPM values (transcripts per million) of the same genes analyzed by bulk RNA-Seq, based on two independent replicates per condition (right). c A heatmap of the pairwise gene correlations calculated based on single cells at 24 h from the three treatments (left) and two-dimensional representation (tSNE) of the single cells sampled at 0, 24, and 72 h from all treatments, based on the expression of 19 genes (right). Expression of selected genes underlying the tSNE plot is shown in the upper and lower panels. The corn plots were derived from the iTranscriptome database [36] representing the locations of expression of the genes in epiblast stage mouse embryos (E6.5-E7.5). d Heatmaps of the pairwise gene correlations at 24 h for each of the treatments separately. Data presented in this figure represent one of the replicates. Rest of the genes and data from another replicate are shown in Additional file 7: Figure S5. Count matrices of all three biological replicates are available as Additional file 6: Table S6

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