EMAGE mouse gene expression spatial database

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EMAGE:9519

Neurod1 neurogenic differentiation 1 ( MGI:1339708)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_019467. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_019467_01	euxassay_019467_02	euxassay_019467_03	euxassay_019467_04

euxassay_019467_05	euxassay_019467_06	euxassay_019467_07	euxassay_019467_08	euxassay_019467_09

euxassay_019467_10	euxassay_019467_11	euxassay_019467_12	euxassay_019467_13	euxassay_019467_14

euxassay_019467_15	euxassay_019467_16	euxassay_019467_17	euxassay_019467_18	euxassay_019467_19

euxassay_019467_20	euxassay_019467_21	euxassay_019467_22	euxassay_019467_23	euxassay_019467_24

View assay images:
Expression pattern clarity:
Find spatially similar wholemount expression patterns:

Expression Pattern Description

Spatial Annotation:

Annotation colour key:

	strong
	moderate
	weak
	possible
	not detected

wholemount mapping

Download individual expression domains:

9519_wholemount_strong.wlz

9519_wholemount_moderate.wlz

9519_wholemount_weak.wlz

9519_wholemount_possible.wlz

9519_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:9519_all_domains.zip

Find spatially similar wholemount expression patterns:

EMAGE spatially similar wholemount patterns

Morphological match to the template:

Text Annotation:

Structure

Level

Pattern

Notes

pancreas

strong

regional

strong expression: see section 15 16 17 moderate expression: see section 10 11 18

pituitary gland

strong

regional

strong expression: see section 11 13 14 15 16 moderate expression: see section 12 17

pineal primordium

strong

regional

strong expression: see section 11

hypothalamus mantle layer

strong

regional

strong expression: see section 10 11 14 moderate expression: see section 08 09 15 16

diencephalon lateral wall mantle layer

strong

regional

strong expression: see section 10 11 13 14 moderate expression: see section 12 15 16 weak expression: see section 17

cerebral cortex mantle layer

strong

regional

strong expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24

telencephalon mantle layer

strong

regional

strong expression: see section 01 02 03 04 05 06 08 19 20 22 23

olfactory cortex mantle layer

strong

regional

strong expression: see section 09 10 11 15 16 17 18

medulla oblongata alar plate mantle layer

strong

regional

strong expression: see section 08 09 15 16 17 18

medulla oblongata basal plate mantle layer

strong

regional

strong expression: see section 07 08 09 10 11 16 17 18

medulla oblongata basal plate marginal layer

strong

regional

strong expression: see section 15

medulla oblongata basal plate ventricular layer

strong

regional

strong expression: see section 08

rest of cerebellum mantle layer

strong

regional

strong expression: see section 13

rest of cerebellum marginal layer

strong

regional

strong expression: see section 02 03 04 05 07 08 09 10 14 15 16 17 18 19 20 21 22 moderate expression: see section 06 11

rest of cerebellum ventricular layer

strong

regional

strong expression: see section 04 05 07 08 17 18 19 20 21 moderate expression: see section 06

pons mantle layer

moderate

regional

moderate expression: see section 06 07 08 09 10 11 14 15 16 17 18 19

pons ventricular layer

strong

regional

strong expression: see section 05 moderate expression: see section 06 07 08 09 10 11 16 17 18 19

midbrain ventricular layer

strong

regional

strong expression: see section 05 06 07 08 09 10 11 12 13 14 15 16 17 18

glossopharyngeal ix ganglion

strong

spotted

strong expression: see section 07 08 19 moderate expression: see section 20

trigeminal v ganglion

strong

spotted

strong expression: see section 03 04 05 06 07 08 09 19 20 21 22 23 moderate expression: see section 17 18

vagus x ganglion

moderate

spotted

moderate expression: see section 18

vestibulocochlear viii ganglion

moderate

spotted

moderate expression: see section 18

dorsal grey horn

strong

regional

strong expression: see section 11 12 13 14 15 16

ventral grey horn

strong

regional

strong expression: see section 12 13 14 15

dorsal root ganglion

strong

spotted

strong expression: see section 08 09 10 11 15 16 moderate expression: see section 17 18 19

neural retina

strong

regional

strong expression: see section 01 02 03 04 23 24

nasal cavity olfactory epithelium

strong

regional

strong expression: see section 08 09 10 11 12 14 15 16 17 18 19

vomeronasal organ

strong

regional

strong expression: see section 12 13 16

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T55119
Entity Detected:	Neurod1, neurogenic differentiation 1 ( MGI:1339708)
Sequence:	sense strand is shown >T55119 AGCTGGACAGATGAGTGTCTCAGTTCTCAGGACGAGGAACACGAGGCAGACAAGAAAGAGGACGAGCTTG AAGCCATGAATGCAGAGGAGGACTCTCTGAGAAACGGGGGAGAGGAGGAGGAGGAAGATGAGGATCTAGA GGAAGAGGAGGAAGAAGAAGAGGAGGAGGAGGATCAAAAGCCCAAGAGACGGGGTCCCAAAAAGAAAAAG ATGACCAAGGCGCGCCTAGAACGTTTTAAATTAAGGCGCATGAAGGCCAACGCCCGCGAGCGGAACCGCA TGCACGGGCTGAACGCGGCGCTGGACAACCTGCGCAAGGTGGTACCTTGCTACTCCAAGACCCAGAAACT GTCTAAAATAGAGACACTGCGCTTGGCCAAGAACTACATCTGGGCTCTGTCAGAGATCCTGCGCTCAGGC AAAAGCCCTGATCTGGTCTCCTTCGTACAGACGCTCTGCAAAGGTTTGTCCCAGCCCACTACCAATTTGG TCGCCGGCTGCCTGCAGCTCAACCCTCGGACTTTCTTGCCTGAGCAGAACCCGGACATGCCCCCGCATCT GCCAACCGCCAGCGCTTCCTTCCCGGTGCATCCCTACTCCTACCAGTCCCCTGGACTGCCCAGCCCGCCC TACGGCACCATGGACAGCTCCCACGTCTTCCACGTCAAGCCGCCGCCACACGCCTACAGCGCAGCTCTGG AGCCCTTCTTTGAAAGCCCCCTAACTGACTGCACCAGCCCTTCCTTTGACGGACCCCTCAGCCCGCCGCT CAGCATCAATGGCAACTTCTCTTTCAAACACGAACCATCCGCCGAGTTTGAAAAAAATTATGCCTTTACC ATGCACTACCCTGCAGCGACGCTGGCAGGGCCCCAAAGCCACGGATCAATCTTCTCTTCCGGTGCCGCTG CCCCTCGCTGCGAGATCCCCATAGACAACATTATGTCTTTCGATAGCCATTCGCATCATGAGCGAGTCAT GAGTGCCCAGCTTAATGCCATCTTTCACGATTAG
Notes:	The probe template was PCR amplified from E14.5 mouse embryo cDNA using gene specific primers. Forward Primer - name:unspecified, sequence:AGCTGGACAGATGAGTGTCTC; Reverse Primer - name:unspecified, sequence:CTAATCGTGAAAGATGGCATT. The reverse primer contains a 5' extension containing an unspecified RNA polymerase binding site (this extension is not shown in the primer sequence listed here). Anti-sense probe was transcribed from the PCR amplified template using unspecified polymerase.
Chemistry:	RNA
Strand:	antisense
Label:	digoxigenin

Specimen

Organism:	mouse
Strain:	NMRI
Age:	14.5 dpc
Theiler Stage:	TS23
Mutations:	none (wild-type)
Preparation:	section

Procedures

Fixation:	none
Embedding:	cryosection (OCT)
Staining procedure:	alkaline phosphatase + NBT/BCIP

General Information

Authors:	Dr. Graciana Diez-Roux, Prof. Gregor Eichele, Prof. Richard Baldock, Dr. Duncan Davidson, Prof. Stylianos Antonarakis, Dr. Marie Laure Yaspo, Prof. Salvador Martinez Perez, Dr. Pascal Dolle, Dr. David Tannahill, Prof. Pier Paolo Di Fiore, Mr. Stefan Kruse, Mr. Paolo Sarmientos, Dr. Uwe Radelof, Prof. Andrea Ballabio.
Principal investigator:	Professor Andrea Ballabio, Fondazione Telethon, TIGEM Instituto di Genetica e Medicina, Via Pietro Castellino 111 80131, Napoli, Italy 80131
Submitted by:	EMAGE EDITOR, Institute of Genetics and Molecular Medicine, Western General Hospital, Crewe Road, Edinburgh, UK EH4 2XU
Experiment type:	screen
References:	[ doi:10.1371/journal.pbio.1000582] [ PMID:21267068] Diez-Roux G, Banfi S, Sultan M, Geffers L, Anand S, Rozado D, et al 2011 A High-Resolution Anatomical Atlas of the Transcriptome in the Mouse Embryo PLoS Biol (9)
Links:	EMAGE:9518 same embryo
	EurExpress:euxassay_019467 same experiment
	MGI:4826672 same experiment
	Ensembl same gene
	Allen Brain Atlas same gene
	BioGPS same gene
	International Mouse Knockout Project Status same gene
	GEISHA Chicken ISH Database same gene
	EMBL-EBI Gene Expression Atlas same gene
	BrainStars same gene
	ViBrism same gene
Data Source