About   Help   FAQ
Gene Expression Data
Assay Details
Assay
Reference: J:157819 Shimogori T, et al., A genomic atlas of mouse hypothalamic development. Nat Neurosci. 2010;13(6):767-75
Assay type: RNA in situ
MGI Accession ID: MGI:4450783
Gene symbol: Foxd1
Gene name: forkhead box D1
Probe: UI-M-CG0p-bgl-h-05-0-UI.s1
Probe preparation: Antisense labelled with digoxigenin RNA
Visualized with: Alkaline phosphatase
Results
Specimen 2c: embryonic day 12.5 (more )
Note: Double labeled: blue - Foxd1; brown - Foxg1 (assay MGI:4452068).
Structure Level Pattern Image Note
TS20: diencephalon Present Regionally restricted 2c Expression is present in the anterior diencephalon, in progenitors of the prethalamus and anterior hypothalamus.
TS20: hypothalamus Present Regionally restricted 2c Expression is present in the anterior diencephalon, in progenitors of the prethalamus and anterior hypothalamus.
TS20: thalamus Present 2c Expression is present in the anterior diencephalon, in progenitors of the prethalamus and anterior hypothalamus.
Specimen 2d: embryonic day 12.5 (more )
Note: Double labeled: blue - Foxd1; brown - Foxg1 (assay MGI:4452068).
Structure Level Pattern Image Note
TS20: diencephalon Present Regionally restricted 2d Expression is present in the anterior diencephalon, in progenitors of the prethalamus and anterior hypothalamus.
TS20: hypothalamus Present Regionally restricted 2d Expression is present in the anterior diencephalon, in progenitors of the prethalamus and anterior hypothalamus.
TS20: thalamus Present 2d Expression is present in the anterior diencephalon, in progenitors of the prethalamus and anterior hypothalamus.
Specimen S9f: embryonic day 11.5 (more )
Note: Double labeled: blue - Foxd1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS19: diencephalon Strong Regionally restricted S9_f Expression is present in progenitor cells in the anterior diencephalon.
Specimen S9g: embryonic day 12.5 (more )
Note: Double labeled: blue - Foxd1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: diencephalon Present Regionally restricted S9_g Expression is present in progenitor cells in the anterior diencephalon.
Specimen S9h: embryonic day 14.5 (more )
Note: Double labeled: blue - Foxd1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS22: thalamus Present Regionally restricted S9_h Expression is confined to a limited zone in the prethalamus.
Specimen S9i: embryonic day 16.5 (more )
Note: Double labeled: blue - Foxd1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS24: thalamus Present Regionally restricted S9_i Expression is confined to a limited zone in the prethalamus.
Specimen Foxd1 - E11.5: embryonic day 11.5 (more )
Note: Specimen was 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 Very strong Non-Uniform Foxd1-Shh E11.5-sagittal-2 , Foxd1-Shh E11.5-sagittal There is very strong staining in the MZ of the dorsal & ventral POAs. Staining is either absent or ubiquitous in the MZ of the dorsal thalamus, prethalamus, the PVH, VMH & ARH nuclei, the AVH, anterior & posterior IDs, premam, mam & supramam zones & TT.
TS19: diencephalon lateral wall ventricular layer Very strong Non-Uniform Foxd1-Shh E11.5-sagittal-2 , Foxd1-Shh E11.5-sagittal There is very strong staining in the VZ of the prethalamus, dorsal & ventral POAs, PVH nucleus, AVH, anterior & posterior IDs, premam zone & TT. Staining is either absent or ubiquitous in the VZ of dorsal thalamus, VMH & ARH nuclei & mam & supramam zones.
TS19: telencephalon mantle layer Ambiguous Foxd1-Shh E11.5-sagittal-2 , Foxd1-Shh E11.5-sagittal 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 Foxd1-Shh E11.5-sagittal-2 , Foxd1-Shh E11.5-sagittal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex and the ganglionic eminences.
Specimen Foxd1 - E12.5: embryonic day 12.5 (more )
Note: Specimen was 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
TS20: cerebral cortex intermediate zone Ambiguous Foxd1-Shh E12.5-sagittal , Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-coronal Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS20: cerebral cortex ventricular layer Ambiguous Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS20: cortical plate Ambiguous Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-sagittal Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS20: diencephalon mantle layer Very strong Non-Uniform Foxd1-Shh E12.5-sagittal , Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal-2 There is very strong staining in the mantle zone of the TT. Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones.
TS20: diencephalon ventricular layer Strong Non-Uniform Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-sagittal There is strong staining in the ventricular zone of the premam zone. Staining is either absent or ubiquitous in the ventricular zone of the mam and supramam zones and the TT.
TS20: ganglionic eminence Ambiguous Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-sagittal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS20: hypothalamus mantle layer Ambiguous Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal 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 Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-coronal , Foxd1-Shh E12.5-sagittal There is very strong staining in the ventricular zone of the PVH nucleus, the AVH and anterior and posterior IDs. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs and VMH and ARH nuclei.
TS20: thalamus mantle layer Ambiguous Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-sagittal , Foxd1-Shh E12.5-coronal Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS20: thalamus ventricular layer Very strong Non-Uniform Foxd1-Shh E12.5-sagittal-2 , Foxd1-Shh E12.5-sagittal , Foxd1-Shh E12.5-coronal There is very strong staining in the ventricular zone of the prethalamus. Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus.
Specimen Foxd1 - E14.5: embryonic day 14.5 (more )
Note: Specimen was 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
TS22: cerebral cortex intermediate zone Ambiguous Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-coronal-2 , Foxd1-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 Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-coronal-2 , Foxd1-Shh E14.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS22: cortical plate Ambiguous Foxd1-Shh E14.5-coronal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-coronal-2 Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS22: diencephalon mantle layer Ambiguous Foxd1-Shh E14.5-coronal , Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-coronal-2 Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS22: diencephalon ventricular layer Weak Non-Uniform Foxd1-Shh E14.5-coronal-2 , Foxd1-Shh E14.5-coronal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-sagittal There is weak staining in the ventricular zone of the premam zone. Staining is either absent or ubiquitous in the ventricular zone of the mam and supramam zones and the TT.
TS22: ganglionic eminence Ambiguous Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-coronal-2 , Foxd1-Shh E14.5-coronal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS22: hypothalamus mantle layer Ambiguous Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-coronal-2 , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-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.
TS22: hypothalamus ventricular layer Weak Non-Uniform Foxd1-Shh E14.5-coronal , Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-coronal-2 There is weak staining in the ventricular zone of the PVH nucleus, the AVH and anterior and posterior IDs. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs and VMH and ARH nuclei.
TS22: thalamus mantle layer Ambiguous Foxd1-Shh E14.5-coronal , Foxd1-Shh E14.5-sagittal-2 , Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-coronal-2 Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS22: thalamus ventricular layer Strong Non-Uniform Foxd1-Shh E14.5-coronal , Foxd1-Shh E14.5-sagittal , Foxd1-Shh E14.5-coronal-2 , Foxd1-Shh E14.5-sagittal-2 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.
Specimen Foxd1 - E16.5: embryonic day 16.5 (more )
Note: Specimen was 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
TS24: cerebral cortex intermediate zone Ambiguous Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-sagittal Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS24: cerebral cortex ventricular layer Ambiguous Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS24: cortical plate Ambiguous Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-sagittal Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS24: diencephalon mantle layer Ambiguous Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-sagittal-2 Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones.
TS24: diencephalon ventricular layer Ambiguous Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-coronal-2 Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones.
TS24: ganglionic eminence Ambiguous Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-coronal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS24: hypothalamus mantle layer Ambiguous Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-coronal Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, SCH, DMH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: hypothalamus ventricular layer Moderate Non-Uniform Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-coronal-2 There is moderate staining in the ventricular zone of the PVH and DMH nuclei, the AVH and the DAH. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the SCH, VMH and ARH nuclei and the PH.
TS24: thalamus mantle layer Ambiguous Foxd1-Shh E16.5-coronal-2 , Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-sagittal Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS24: thalamus ventricular layer Moderate Non-Uniform Foxd1-Shh E16.5-coronal , Foxd1-Shh E16.5-sagittal , Foxd1-Shh E16.5-sagittal-2 , Foxd1-Shh E16.5-coronal-2 There is moderate staining in the ventricular zone of the prethalamus. Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus.
Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources
Funding Information
Warranty Disclaimer, Privacy Notice, Licensing, & Copyright
Send questions and comments to User Support. 		last database update
11/19/2024
MGI 6.24 		The Jackson Laboratory