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Fig. 4 Creation of 3D reconstructions using the Amira 4.1.1® software (Mercury Computer System, Inc., Chelmsford, MA, USA).

The 3D reconstitution was done using the Amira 3D v4.1.1 Imaging program.

Surface renderings were created using the Amira "Isosurface" module with a threshold chosen just above the noise floor.

Reconstructions were segmented using the Amira module "LabelField" to maximize vessel visibility and aid in image interpretation.

The cropping was done manually using the Amira VolumeEdit module, the Hoxd13 gene expression pattern was used as a guide and 2 different methods were used.

The mapping of the 3D gene expression data and the GFP fate maps to the reference models was performed using the Amira 4.1 software from Mercury Computer Systems.

Using the Amira Voltex feature, we determined that the threshold at which we no longer observed background signal was 50 on the 8 bits greyscale.

These union domains were calculated using the Amira arithmetic module from every domain from all grafting experiments for a specific digit at a specific stage.

Denoised 3-D reconstructions were manually segmented using the Amira software package (Mercury Computer System, Inc). on a Wacom Cintiq 21UX display.

Deconvolution was performed using Richardson-Lucy iterations and movies were made using the Amira software (FEI).

The analysis of body fat mass was performed using the Amira software (Visage Imaging GmbH).