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Statistically significant dendrogram branches (*, p≤0.001) were determined with SigClust [18].
The resulting value of 88% cluster similarity was used to abridge dendrogram branches above this similarity value.
The variability between the brain regions (measured by the height of the dendrogram branches) is considerably larger than the variability within the regions.
The basal-B subtype (orange dendrogram branches) included non-tumorigenic lines (MCF10A, hTERT-HME1, 184A1) as well as several highly invasive lines exhibiting features of epithelial-mesenchymal transition (EMT) (MDA-MB231, MDA-MB436, MDA-MB157, Hs578t) [36].
The basal-A subtype (red dendrogram branches) contained many of the "HCC" lines established at UT Southwestern, including two known BRCA1 mutant lines (HCC1937, HCC3153) ([34], and this study).
One group, designated "luminal" (blue dendrogram branches), contained all the ER-positive cell lines (Fig. 2A), and was characterized by the expression of ERα-regulated genes (e.g. MYB, RET, EGR3, TFF1; Fig. 1H, and not shown) [24] [27], as well as genes associated with luminal epithelial differentiation (e.g. GATA3 and FOXA1, Fig. 1I) [28].
Similar(40)
FD then corresponds to the total dendrogram branch lengths connecting community members together.
The right dendrogram branch is not composed of one predominant subtype as was seen for the left cluster, and contained a mix of Luminal, HER2+, and Normal-like samples (Table 4).
The first criterion was the simple and obvious dendrogram branching pattern suggesting six groups.
The HER2+ intrinsic subtype (pink dendrogram branch in Figure 2B) was predominantly ER-negative (i.e. HER2+/ER-) as previously shown.
However, the primary dendrogram branch for 5FU-treated basal-like cell lines also included two early time points for DOX-treated ME16C.
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