Probe:	UI-M-BH3-aws-f-06-0-UI.s1
Probe preparation:	Antisense labelled with digoxigenin RNA
Visualized with:	Alkaline phosphatase
Assay notes:	These specimens were also hybridized with a fluorescein-labeled Shh probe (MGI:2110655; detected with TBT/BCIP). The results are reported in Supp. Table 4, whose legend includes a key to the abbreviations used and more fully details the regions examined.

Structure	Level	Pattern	Image	Note
TS19: diencephalon lateral wall mantle layer	Ambiguous		Dlk1-shh E11.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus, prethalamus, dorsal and ventral POAs, the PVH nucleus and the AVH.
TS19: diencephalon lateral wall ventricular layer	Moderate	Non-Uniform	Dlk1-shh E11.5-coronal	There is moderate staining in the ventricular zone of the prethalamus and moderate, scattered staining in the dorsal POA, the PVH nucleus and the AVH. Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and ventral POA.
TS19: telencephalon mantle layer	Ambiguous		Dlk1-shh E11.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone and cortical plate of the cerebral cortex and in the mantle zone of the ganglionic eminences.
TS19: telencephalon ventricular layer	Ambiguous		Dlk1-shh E11.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex and the ganglionic eminences.

Structure	Level	Pattern	Image	Note
TS20: cerebral cortex intermediate zone	Moderate	Scattered	Dlk1-shh E12.5-coronal	There is moderate, scattered staining in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS20: cerebral cortex ventricular layer	Ambiguous		Dlk1-shh E12.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS20: cortical plate	Moderate	Scattered	Dlk1-shh E12.5-coronal	There is moderate, scattered staining in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS20: diencephalon mantle layer	Ambiguous		Dlk1-shh E12.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS20: diencephalon ventricular layer	Very strong	Non-Uniform	Dlk1-shh E12.5-coronal	There is very strong staining in the ventricular zone of the premam and mam zones and the TT. Staining is either absent or ubiquitous in the ventricular zone of the supramam zone.
TS20: ganglionic eminence	Ambiguous		Dlk1-shh E12.5-coronal	Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS20: hypothalamus mantle layer	Ambiguous		Dlk1-shh E12.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS20: hypothalamus ventricular layer	Very strong	Non-Uniform	Dlk1-shh E12.5-coronal	There is very strong staining in the VZ of the PVH, VMH and ARH nuclei and the anterior and posterior IDs and moderate, scattered staining in the AVH. Staining is either absent or ubiquitous in the VZ of the dorsal and ventral POAs.
TS20: thalamus mantle layer	Ambiguous		Dlk1-shh E12.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS20: thalamus ventricular layer	Moderate	Non-Uniform	Dlk1-shh E12.5-coronal	There is moderate staining in the ventricular zone of the prethalamus and weak staining in the dorsal thalamus.

Structure	Level	Pattern	Image	Note
TS22: cerebral cortex intermediate zone	Ambiguous		Dlk1-shh E14.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS22: cerebral cortex ventricular layer	Ambiguous		Dlk1-shh E14.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS22: cortical plate	Ambiguous		Dlk1-shh E14.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS22: diencephalon mantle layer	Very strong	Non-Uniform	Dlk1-shh E14.5-coronal	There is very strong staining in the mantle zone of the premam and mam zones and the TT. Staining is either absent or ubiquitous in the mantle zone of the supramam zone.
TS22: diencephalon ventricular layer	Very strong	Non-Uniform	Dlk1-shh E14.5-coronal	There is very strong staining in the ventricular zone of the premam and mam zones. Staining is either absent or ubiquitous in the ventricular zone of the TT and supramam zone.
TS22: ganglionic eminence	Ambiguous		Dlk1-shh E14.5-coronal	Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS22: hypothalamus mantle layer	Very strong	Non-Uniform	Dlk1-shh E14.5-coronal	There is very strong staining in the MZ of the PVH nucleus and the AVH and moderate, scattered staining in the dorsal and ventral POAs. Staining is either absent or ubiquitous in the MZ of the anterior and posterior IDs and the VMH and ARH nuclei.
TS22: hypothalamus ventricular layer	Very strong	Non-Uniform	Dlk1-shh E14.5-coronal	There is very strong staining in the ventricular zone of the anterior and posterior IDs and ARH nucleus. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH and VMH nuclei and the AVH.
TS22: thalamus mantle layer	Ambiguous		Dlk1-shh E14.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS22: thalamus ventricular layer	Strong	Non-Uniform	Dlk1-shh E14.5-coronal	There is strong staining in the ventricular zone of the prethalamus. Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus.

Structure	Level	Pattern	Image	Note
TS24: cerebral cortex intermediate zone	Ambiguous		Dlk1-shh E16.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS24: cerebral cortex ventricular layer	Ambiguous		Dlk1-shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS24: cortical plate	Ambiguous		Dlk1-shh E16.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS24: diencephalon mantle layer	Very strong	Non-Uniform	Dlk1-shh E16.5-coronal	There is very strong staining in the mantle zone of the premam and mam zones. Staining is either absent or ubiquitous in the mantle zone of the supramam zone.
TS24: diencephalon ventricular layer	Very strong	Non-Uniform	Dlk1-shh E16.5-coronal	There is very strong staining in the ventricular zone of the premam and mam zones. Staining is either absent or ubiquitous in the ventricular zone of the supramam zone.
TS24: ganglionic eminence	Ambiguous		Dlk1-shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS24: hypothalamus mantle layer	Very strong	Non-Uniform	Dlk1-shh E16.5-coronal	There is very strong staining in the MZ of the PVH, SCH & ARH nuclei, strong staining in the dorsal POA & the AVH & moderate staining in the ventral POA & DMH nucleus. Staining is either absent or ubiquitous in the MZ of the DAH, VMH nucleus & the PH.
TS24: hypothalamus ventricular layer	Very strong	Non-Uniform	Dlk1-shh E16.5-coronal	There is very strong staining in the ventricular zone of the DMH, VMH and ARH nuclei. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH nucleus, the AVH, the DAH, the SCH nucleus and the PH.
TS24: thalamus mantle layer	Strong	Non-Uniform	Dlk1-shh E16.5-coronal	There is strong staining in the mantle zone of the dorsal thalamus and moderate staining in the prethalamus.
TS24: thalamus ventricular layer	Ambiguous		Dlk1-shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.