EMAGE mouse gene expression spatial database

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EMAGE:18186

Tnfsf4 tumor necrosis factor (ligand) superfamily, member 4 ( MGI:104511)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_011980. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_011980_01	euxassay_011980_02	euxassay_011980_03	euxassay_011980_04

euxassay_011980_05	euxassay_011980_06	euxassay_011980_07	euxassay_011980_08	euxassay_011980_09

euxassay_011980_10	euxassay_011980_11	euxassay_011980_12	euxassay_011980_13	euxassay_011980_14

euxassay_011980_15	euxassay_011980_16	euxassay_011980_17	euxassay_011980_18	euxassay_011980_19

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:

18186_wholemount_strong.wlz

18186_wholemount_moderate.wlz

18186_wholemount_weak.wlz

18186_wholemount_possible.wlz

18186_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:18186_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

rib

moderate

homogeneous

moderate expression: see section 01 02 03 04 05 weak expression: see section 06 07 08 09 11 12 13 14 15 16 17 18 19

radius

moderate

homogeneous

moderate expression: see section 01 02

humerus

moderate

homogeneous

moderate expression: see section 01 02 03 04 16 17 18

fibula

moderate

homogeneous

moderate expression: see section 01 02 03 04

tibia

moderate

homogeneous

moderate expression: see section 01 02 03 04

femur

moderate

homogeneous

moderate expression: see section 01 02 03 04 05 06 13 14

otic capsule

weak

homogeneous

weak expression: see section 05 06 07 12 13

naris

moderate

homogeneous

moderate expression: see section 10 11 12 13

nasal septum

moderate

homogeneous

moderate expression: see section 11

viscerocranium

moderate

homogeneous

Expression in the turbinate bone.

meckel's cartilage

moderate

homogeneous

moderate expression: see section 03 04 05 06 08 09 10 11 12 13 14 15 16

axial skeleton

moderate

regional

moderate expression: see section 05 06 07 08 09 10 11 12 13

basioccipital bone

moderate

homogeneous

moderate expression: see section 01 02 03 04 14 15 weak expression: see section 16

basisphenoid bone

moderate

homogeneous

moderate expression: see section 07 08 09 10 11 12

temporal bone petrous part

moderate

homogeneous

moderate expression: see section 01 02 03 04 weak expression: see section 16 17 18

vault of skull

moderate

homogeneous

moderate expression: see section 01

orbito-sphenoid

moderate

homogeneous

moderate expression: see section 01 02 03 04 05 06 07 weak expression: see section 16

clavicle

moderate

homogeneous

moderate expression: see section 05 06

scapula

moderate

homogeneous

moderate expression: see section 01 02 03 04 16 17

pelvic girdle skeleton

moderate

homogeneous

moderate expression: see section 07 12 13

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T37160
Entity Detected:	Tnfsf4, tumor necrosis factor (ligand) superfamily, member 4 ( MGI:104511)
Sequence:	sense strand is shown >T37160 CCTGGATGAGAATCTGGAAAACGGATCAAGGCCAAGATTCAAGTGGAAGAAGACGCTAAGGCTGGTGGTC TCTGGGATCAAGGGAGCAGGGATGCTTCTGTGCTTCATCTATGTCTGCCTGCAACTCTCTTCCTCTCCGG CAAAGGACCCTCCAATCCAAAGACTCAGAGGAGCAGTTACCAGATGTGAGGATGGGCAACTATTCATCAG CTCATACAAGAATGAGTATCAAACTATGGAGGTGCAGAACAATTCGGTTGTCATCAAGTGTGATGGGCTT TATATCATCTACCTGAAGGGCTCCTTTTTCCAGGAGGTCAAGATTGACCTTCATTTCCGGGAGGATCATA ATCCCATCTCTATTCCAATGCTGAACGATGGTCGAAGGATTGTCTTCACTGTGGTGGCCTCTTTGGCTTT CAAAGATAAAGTTTACCTGACTGTAAATGCTCCTGATACTCTCTGCGAACACCTCCAGATAAATGATGGG GAGCTGATTGTTGTCCAGCTAACGCCTGGATACTGTGCTCCTGAAGGATCTTACCACAGCACTGTGAACC AAGTACCACTGTGAATTCCACTCTGAGGGTGGACGGGACACAGGTTCTTTCTCGAGAGAGATGAGTGCAT CCTGCT
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from wild type C57BL/6J mouse whole brain cDNA), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 98764. Forward Primer - name:098764_F_cDNA_Tnfsf4, sequence:CCTGGATGAGAATCTGGAAAAC; Reverse Primer - name:098764_N_SP6_cDNA_Tnfsf4, sequence:AGCAGGATGCACTCATCTCTC. The reverse primer contains a 5' extension containing an Sp6 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 Sp6 polymerase.
Chemistry:	RNA
Strand:	antisense
Label:	digoxigenin

Specimen

Organism:	mouse
Strain:	C57BL/6
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:18188 same embryo
	EMAGE:18189 same embryo
	EMAGE:18190 same embryo
	EMAGE:18187 same embryo
	EurExpress:euxassay_011980 same experiment
	MGI:4828848 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