Data for Embryo-scale epithelial buckling forms a propagating furrow that initiates gastrulation

This is the data and code corresponding to Embryo-scale epithelial buckling forms a propagating furrow that initiates gastrulation, Nature Comms. 13:3348.

Code

The file Surface_Evolver_script.txt is ... the Surface Evolver script, use with Ken Brakke's Surface Evolver

Data sources

The figure panels are based on the datafiles listed below, visualised either with Ken Brakke's Surface Evolver or with gnuplot 5. When the datafiles listed do not contain the primary data, they contain a commented last line which is the command line for the software datamerge to generate it from other datafiles found in the Data_sources subdirectory.

Figure 1

Fig. 1c : data provided in data_for_Fig_1g.tsv

Fig. 1f : visualisation from Surface Evolver file Young100dixPoisson000Step013.dmp

Fig. 1g : myosin_profile_us_only.pdf generated with gnuplot script myosin_profile.plot

Figure 2

Fig. 2a : strain_profile_100_0_time_013.pdf generated with gnuplot script strain_profile.plot

Fig. 2b : visualisation from Surface Evolver file Young100dixPoisson000Step013.dmp

Fig. 2c : stress_profile_100_0_time_013.pdf gnuplot script stress_profile.plot

Fig. 2d : visualisation from Surface Evolver file Young100dixPoisson000Step063.dmp

Figure 3

Fig. 3a : myosin_area.pdf generated with gnuplot script area_AP_DV_paper.plot

Fig. 3b : area_stripes_t=-1.pdf generated with gnuplot script area_AP_DV_paper.plot

Fig. 3c : only_AP_stripes_t=-1.pdf generated with gnuplot script area_AP_DV_paper.plot

Fig. 3d : only_DV_stripes_t=-1.pdf generated with gnuplot script area_AP_DV_paper.plot

Fig. 3e : visualisation from Surface Evolver file Young100dixPoisson000Step013.dmp Young100dixPoisson000Step063.dmp Young100dixPoisson000Step163.dmp Young100dixPoisson000Step213.dmp

Figure 4

Fig. 4a : visualisation from Surface Evolver file Young100dixPoisson000Step213.dmp

Fig. 4b : furrow_propagation.pdf generated with gnuplot script furrow_propagation.plot

Fig. 4c : rate_of_furrowing_t=3.pdf generated with gnuplot script furrow_propagation.plot

Fig. 4f : curvature.pdf generated with gnuplot script curvature.plot

Figure 5

Fig. 5a : visualisation from Surface Evolver file Young100dixPoisson000Step013.dmp Young100dixPoisson000Step063.dmp Young100dixPoisson000Step113.dmp Young100dixPoisson000Step163.dmp Young100dixPoisson000Step213.dmp

Fig. 5b : visualisation from Surface Evolver file Young100dixPoisson000Step013.dmp Young100dixPoisson000Step140.dmp

Fig. 5d : stress_laserablations_profile_100_0_time_063.pdf generated with gnuplot script stress_profile_for_laser_ablations.plot

Fig. 5e : laser_ablation_recoil.pdf generated with gnuplot script laser_ablation_recoil.plot

Supp Figure 1

Fig. S1a : time_profile_FINI_100_0.pdf generated with gnuplot script time_profile_stress.plot

Fig. S1b : visualisation from Surface Evolver file Young100dixPoisson000Step013.dmp

Fig. S1d : visualisation from Surface Evolver file Young100dixPoisson000Step063.dmp

Fig. S1e : strain_profile_100_0_time_063.pdf gnuplot script strain_profile.plot

Fig. S1f : stress_profile_100_0_time_063.pdf gnuplot script stress_profile.plot

Supp Figure 1

Fig. S2a : area_stripes_time_evolution.pdf generated with gnuplot script area_AP_DV_paper.plot

Fig. S2b : area_stripes_time_evolution_SPIM.pdf generated with gnuplot script area_AP_DV_paper.plot

Supp Figure 3

Fig. S3a : visualisation from Surface Evolver file Young100dixPoisson000Step213.dmp

Fig. S3c : AP_binned_strain.pdf generated with gnuplot script AP_binned_strain.plot

Fig. S3d : furrow_propagation_experimental.pdf generated with gnuplot script plot_furrow.plot

Fig. S3e : curvature_DV_indiv.pdf generated with gnuplot script curvature.plot

Fig. S3f : depth_Gastrulation_ordi_Wild_Type_STITCHED_100_0.pdf generated with gnuplot script depth.plot