Extended Data Fig. 8: Detrending procedure and Lomb–Scargle analysis of replicates, as well as measurements of elongation and differentiation front speed in small panel screening, and upon BGJ389 and PD17 treatment.
From: Single-cell and spatial transcriptomics reveal somitogenesis in gastruloids
Replicates subjected to detrending and Lomb–Scargle analysis are from Fig. 2. a, Black line, measured intensity of the Lfng signal along the white dashed line in Fig. 2c; blue line, trend (Methods) of this signal and periodogram of the Lfng oscillations in Fig. 2d, as determined by Lomb–Scargle decomposition. b, As in a, but then for the 13 DMSO-control LfngT2AVenus gastruloid replicates shown in Extended Data Fig. 7c, d. c, Cyclical component of the scaled intensity of the LfngT2AVenus oscillations relative to the trend line shown in b. A.U., arbitrary units. d, Periodogram of the Lfng oscillations in c, as determined by Lomb–Scargle decomposition (Methods). Gastruloids used for this experiment were embedded in 100% Matrigel at 96 h, and subsequently imaged for at least 17 h. e, f, Speed of posterior gastruloid elongation (VPSM) and speed of posteriorly moving differentiation front (VDIFF) (see explanation in Extended Data Fig. 9a) in LfngT2AVenus gastruloids treated with DMSO (control) or with various inhibitors (Supplementary Videos 3, 5). Points refer to replicates; n = 14, 3, 3, 3, 1, 2 and 3 (from left to right) and 9, 3, 6 and 6 (from left to right) replicates for e and f, respectively. Kymographs of replicates are shown in Extended Data Fig. 7. In the box plots, centre line is median; box limits are the 1st and 3rd quartiles; and whiskers denote the range.
