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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:4450767
Gene symbol: Lhx9
Gene name: LIM homeobox protein 9
Probe: UI-M-CG0p-beo-c-08-0-UI.s1
Probe preparation: Antisense labelled with digoxigenin RNA
Visualized with: Alkaline phosphatase
Results
Specimen 3i: embryonic day 12.5 (more )
Note: Double labeled: blue - Lhx9 and Olig2 (assay MGI:4452076); brown - Arx (assay MGI:4452072).
Structure Level Pattern Image Note
TS20: thalamus Present Regionally restricted 3i Expression is present in the prethalamus.
Specimen 5c: postnatal day 6 (more )
Note: Double labeled: blue - Lhx9; brown - Lhx6 (assay MGI:4452075).
Structure Level Pattern Image Note
TS28: hypothalamus Present Regionally restricted 5c Expression is present in a subset of cells in the lateral hypothalamus.
Specimen 6i: embryonic day 12.5 (more )
Note: Double labeled: blue - Lhx9; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: hypothalamus Present Regionally restricted 6i Expression is present in the ventral hypothalamus and the intrahypothalamic diagonal.
TS20: thalamus Present Regionally restricted 6i Expression is present in the anterior prethalamus.
Specimen 6j: embryonic day 12.5; Shhtm2Amc/Shhtm2Amc, Tg(Nkx2-1-cre)2Sand/0 (more )
Note: Conditional mutant. Double labeled: blue - Lhx9; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: thalamus Present Regionally restricted 6j Expression in the anterior prethalamus is expanded anteriorly in the mutant relative to wild type.
TS20: hypothalamus Absent 6j There is no expresssion in the ventral hypothalamus or the intrahypothalamic diagonal.
Specimen Lhx9 - 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 Strong Non-Uniform LHX9(D)+SHH(F)-E11.5-coronal , LHX9(D)+SHH(F)-E11.5-sagittal Staining is strong in the MZ of the dorsal thalamus & prethalamus & weak in the anterior ID. Staining is either absent or ubiquitous in the MZ of the dorsal & ventral POAs, PVH, VMH & ARH nuclei, AVH, posterior ID, premam, mam & supramam zones & TT.
TS19: diencephalon lateral wall ventricular layer Ambiguous LHX9(D)+SHH(F)-E11.5-sagittal , LHX9(D)+SHH(F)-E11.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus, the prethalamus, dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH, the anterior and posterior IDs, the premam, mam and supramam zones and the TT.
TS19: telencephalon mantle layer Strong Non-Uniform LHX9(D)+SHH(F)-E11.5-sagittal , LHX9(D)+SHH(F)-E11.5-coronal There is strong staining in the mantle zone of the ganglionic eminences. Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone and cortical plate of the cerebral cortex.
TS19: telencephalon ventricular layer Ambiguous LHX9(D)+SHH(F)-E11.5-sagittal , LHX9(D)+SHH(F)-E11.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex and the ganglionic eminences.
Specimen Lhx9 - 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 LHX9(D)+SHH(F)-E12.5-sagittal , LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-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 LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-sagittal , LHX9(D)+SHH(F)-E12.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS20: cortical plate Ambiguous LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-coronal , LHX9(D)+SHH(F)-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 Ambiguous LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-coronal , LHX9(D)+SHH(F)-E12.5-sagittal Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS20: diencephalon ventricular layer Ambiguous LHX9(D)+SHH(F)-E12.5-sagittal , LHX9(D)+SHH(F)-E12.5-coronal , LHX9(D)+SHH(F)-E12.5-sagittal-2 Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones and the TT.
TS20: ganglionic eminence Strong Non-Uniform LHX9(D)+SHH(F)-E12.5-coronal , LHX9(D)+SHH(F)-E12.5-sagittal , LHX9(D)+SHH(F)-E12.5-sagittal-2 There is strong staining in the mantle zone of the ganglionic eminences. Staining is either absent or ubiquitous in the ventricular zone of the ganglionic eminences.
TS20: hypothalamus mantle layer Moderate Non-Uniform LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-coronal , LHX9(D)+SHH(F)-E12.5-sagittal There is moderate staining in the mantle zone of the anterior ID. 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 posterior ID.
TS20: hypothalamus ventricular layer Ambiguous LHX9(D)+SHH(F)-E12.5-sagittal , LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS20: thalamus mantle layer Strong LHX9(D)+SHH(F)-E12.5-sagittal , LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-coronal There is strong staining in the mantle zone of the dorsal thalamus and prethalamus.
TS20: thalamus ventricular layer Ambiguous LHX9(D)+SHH(F)-E12.5-coronal , LHX9(D)+SHH(F)-E12.5-sagittal-2 , LHX9(D)+SHH(F)-E12.5-sagittal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
Specimen Lhx9 - 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 LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-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 LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS22: cortical plate Ambiguous LHX9(D)+SHH(F)-E14.5-coronal , LHX9(D)+SHH(F)-E14.5-sagittal Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS22: diencephalon mantle layer Ambiguous LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS22: diencephalon ventricular layer Ambiguous LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones and the TT.
TS22: ganglionic eminence Strong Non-Uniform LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal There is strong staining in the mantle zone of the ganglionic eminences. Staining is either absent or ubiquitous in the ventricular zone of the ganglionic eminences.
TS22: hypothalamus mantle layer Strong Non-Uniform LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal There is strong staining in the mantle zone of the anterior ID and weak staining in the dorsal and ventral POAs. Staining is either absent or ubiquitous in the mantle zone of the PVH, VMH and ARH nuclei, the AVH and posterior ID.
TS22: hypothalamus ventricular layer Ambiguous LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS22: thalamus mantle layer Strong LHX9(D)+SHH(F)-E14.5-coronal , LHX9(D)+SHH(F)-E14.5-sagittal There is strong staining in the mantle zone of the dorsal thalamus and prethalamus.
TS22: thalamus ventricular layer Ambiguous LHX9(D)+SHH(F)-E14.5-sagittal , LHX9(D)+SHH(F)-E14.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
Specimen Lhx9 - 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 LHX9(D)+SHH(F)-E16.5-sagittal , LHX9(D)+SHH(F)-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 LHX9(D)+SHH(F)-E16.5-coronal , LHX9(D)+SHH(F)-E16.5-sagittal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS24: cortical plate Ambiguous LHX9(D)+SHH(F)-E16.5-sagittal , LHX9(D)+SHH(F)-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 Ambiguous LHX9(D)+SHH(F)-E16.5-sagittal , LHX9(D)+SHH(F)-E16.5-coronal Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones.
TS24: diencephalon ventricular layer Ambiguous LHX9(D)+SHH(F)-E16.5-coronal , LHX9(D)+SHH(F)-E16.5-sagittal Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones.
TS24: ganglionic eminence Ambiguous LHX9(D)+SHH(F)-E16.5-sagittal , LHX9(D)+SHH(F)-E16.5-coronal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS24: hypothalamus mantle layer Strong Non-Uniform LHX9(D)+SHH(F)-E16.5-sagittal , LHX9(D)+SHH(F)-E16.5-coronal There is strong staining in the mantle zone of the DMH nucleus. Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, SCH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: hypothalamus ventricular layer Ambiguous LHX9(D)+SHH(F)-E16.5-coronal , LHX9(D)+SHH(F)-E16.5-sagittal Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, SCH, DMH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: thalamus mantle layer Strong Non-Uniform LHX9(D)+SHH(F)-E16.5-coronal , LHX9(D)+SHH(F)-E16.5-sagittal There is strong staining in the mantle zone of the dorsal thalamus. Staining is either absent or ubiquitous in the mantle zone of the prethalamus.
TS24: thalamus ventricular layer Ambiguous LHX9(D)+SHH(F)-E16.5-sagittal , LHX9(D)+SHH(F)-E16.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
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