matlab v8.0 software  (MathWorks Inc)

Journal: Nature Communications

Article Title: Identification of a neural crest stem cell niche by Spatial Genomic Analysis

doi: 10.1038/s41467-017-01561-w

Figure Lengend Snippet: Reproducibility of subclusters between different embryos. a Violin plots show modality and gene expression levels for the 35 genes used in the study. Plots are based on Gaussian kernel density estimation and MatLab (R2015a v8.0) default settings for ksdensity command. b The five clusters (see heat map in Fig. with pooled data from five samples) form reproducible spatial patterns in the dorsal neural tube. Spatial mapping of the pooled clusters into two additional embryo sections reproduce the pattern seen in Fig. . c The early migratory neural crest population (shown in green in Fig. ) consists of three separate subpopulations (NC mig 1–3) with spatially distinct locations. All populations express the epidermal marker Krt19 , whereas the cells that emigrated first and have thus migrated the furthest express pluripotency markers and high levels of the neuroectodermal gene Pax6 . The following populations (NC mig 2–3) have high Msx2 expression. For the subcluster reproducibility analysis, five samples from three different embryos were compared and three representatives were chosen for the images ( n = 5). Scale bar, 10 μm

Article Snippet: Plots are based on Gaussian kernel density estimation and MatLab (R2015a v8.0) default settings for ksdensity command. b The five clusters (see heat map in Fig. with pooled data from five samples) form reproducible spatial patterns in the dorsal neural tube.

Techniques: Gene Expression, Marker, Expressing