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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:4450888
Gene symbol: Sim1
Gene name: single-minded family bHLH transcription factor 1
Probe: Sim1 probe8
Probe preparation: Antisense labelled with digoxigenin RNA
Visualized with: Alkaline phosphatase
Results
Specimen 3l: embryonic day 12.5 (more )
Note: Double labeled: blue - Sim1; brown - Arx (assay MGI:4452072).
Structure Level Pattern Image Note
TS20: diencephalon Present Regionally restricted 3l , 3l inset Expression is present in a domain residing between the prethalamus and optic recess and stradling the border of telencephalon and diencephalon.
Specimen 6e: embryonic day 12.5 (more )
Note: Double labeled: blue - Sim1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: diencephalon Present Regionally restricted 6e Expression is present in the mammillary neuroepithelium.
TS20: hypothalamus Present Regionally restricted 6e Expression is present in the paraventricular nucleus.
Specimen 6f: embryonic day 12.5; Shhtm2Amc/Shhtm2Amc, Tg(Nkx2-1-cre)2Sand/0 (more )
Note: Conditional mutant. Double labeled: blue - Sim1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: diencephalon Present Regionally restricted 6f Expression is present in the mammillary neuroepithelium.
TS20: hypothalamus Absent 6f There is no expression in the paraventricular nucleus.
Specimen S4cc: embryonic day 11.5 (more )
Note: Double labeled: blue - Sim1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS19: diencephalon Present Regionally restricted S4_cc Expression is present in the paraventricular hypothalamic neuroepithelium.
Specimen S4dd: embryonic day 12.5 (more )
Note: Double labeled: blue - Sim1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: hypothalamus Present Regionally restricted S4_dd Expression is present in the paraventricular hypothalamic neuroepithelium.
Specimen S4ee: embryonic day 14.5 (more )
Note: Double labeled: blue - Sim1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS22: hypothalamus Present Regionally restricted S4_ee Expression is present in the paraventricular hypothalamic neuroepithelium.
Specimen S4ff: embryonic day 16.5 (more )
Note: Double labeled: blue - Sim1; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS24: hypothalamus Present Regionally restricted S4_ff Expression is present in the paraventricular hypothalamic neuroepithelium.
Specimen Sim1 - 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 sim1(D)+SHH(F)-E11.5-SAGITTAL , sim1(D)+SHH(F)-E11.5-coronal Staining is strong in the MZ of the dorsal thalamus, prethalamus, dorsal POA, PVH nucleus, AVH & mam zone. Staining is either absent or ubiquitous in the MZ of the ventral POA, anterior & posterior ID, VMH & ARH nuclei, premam & supramam zones & TT.
TS19: diencephalon lateral wall ventricular layer Ambiguous sim1(D)+SHH(F)-E11.5-coronal , sim1(D)+SHH(F)-E11.5-SAGITTAL 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 Ambiguous sim1(D)+SHH(F)-E11.5-coronal , sim1(D)+SHH(F)-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 sim1(D)+SHH(F)-E11.5-coronal , sim1(D)+SHH(F)-E11.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex and the ganglionic eminences.
Specimen Sim1 - 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 sim1(D)+SHH(F)-E12.5-coronal , sim1(D)+SHH(F)-E12.5-SAGITTAL Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS20: cerebral cortex ventricular layer Ambiguous sim1(D)+SHH(F)-E12.5-SAGITTAL , sim1(D)+SHH(F)-E12.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS20: cortical plate Ambiguous sim1(D)+SHH(F)-E12.5-coronal , sim1(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 Strong Non-Uniform sim1(D)+SHH(F)-E12.5-SAGITTAL , sim1(D)+SHH(F)-E12.5-coronal There is strong staining in the mantle zone of the mam zone. Staining is either absent or ubiquitous in the mantle zone of the premam and supramam zones and the TT.
TS20: diencephalon ventricular layer Ambiguous sim1(D)+SHH(F)-E12.5-coronal , sim1(D)+SHH(F)-E12.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones and the TT.
TS20: ganglionic eminence Ambiguous sim1(D)+SHH(F)-E12.5-SAGITTAL , sim1(D)+SHH(F)-E12.5-coronal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS20: hypothalamus mantle layer Strong Non-Uniform sim1(D)+SHH(F)-E12.5-coronal , sim1(D)+SHH(F)-E12.5-SAGITTAL There is strong staining in the mantle zone of the dorsal POA, PVH nucleus and the AVH. Staining is either absent or ubiquitous in the mantle zone of the ventral POA, the VMH and ARH nuclei and anterior and posterior IDs.
TS20: hypothalamus ventricular layer Ambiguous sim1(D)+SHH(F)-E12.5-SAGITTAL , sim1(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 sim1(D)+SHH(F)-E12.5-SAGITTAL , sim1(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 sim1(D)+SHH(F)-E12.5-SAGITTAL , sim1(D)+SHH(F)-E12.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
Specimen Sim1 - 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 sim1(D)+SHH(F)-E14.5-SAGITTAL Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS22: cerebral cortex ventricular layer Ambiguous sim1(D)+SHH(F)-E14.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS22: cortical plate Ambiguous sim1(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 Strong Non-Uniform sim1(D)+SHH(F)-E14.5-SAGITTAL There is strong staining in the mantle zone of the mam zone. Staining is either absent or ubiquitous in the mantle zone of the premam and supramam zones and the TT.
TS22: diencephalon ventricular layer Ambiguous sim1(D)+SHH(F)-E14.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones and the TT.
TS22: ganglionic eminence Ambiguous sim1(D)+SHH(F)-E14.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS22: hypothalamus mantle layer Strong Non-Uniform sim1(D)+SHH(F)-E14.5-SAGITTAL There is strong staining in the mantle zone of the dorsal POA, PVH nucleus and the AVH. Staining is either absent or ubiquitous in the mantle zone of the ventral POA, the VMH and ARH nuclei and anterior and posterior IDs.
TS22: hypothalamus ventricular layer Ambiguous sim1(D)+SHH(F)-E14.5-SAGITTAL 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 sim1(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 sim1(D)+SHH(F)-E14.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
Specimen Sim1 - 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 sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-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 sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-E16.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS24: cortical plate Ambiguous sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-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 sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-E16.5-SAGITTAL Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones.
TS24: diencephalon ventricular layer Ambiguous sim1(D)+SHH(F)-E16.5-SAGITTAL , sim1(D)+SHH(F)-E16.5-coronal Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones.
TS24: ganglionic eminence Ambiguous sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-E16.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS24: hypothalamus mantle layer Strong Non-Uniform sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-E16.5-SAGITTAL There is strong staining in the mantle zone of the dorsal POA, the PVH nucleus, the AVH and the PH. Staining is either absent or ubiquitous in the mantle zone of the ventral POA, the DAH and the SCH, DMH, VMH and ARH nuclei.
TS24: hypothalamus ventricular layer Ambiguous sim1(D)+SHH(F)-E16.5-SAGITTAL , sim1(D)+SHH(F)-E16.5-coronal 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 Ambiguous sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-E16.5-SAGITTAL Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS24: thalamus ventricular layer Ambiguous sim1(D)+SHH(F)-E16.5-coronal , sim1(D)+SHH(F)-E16.5-SAGITTAL Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
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Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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