GenePaint Gene Annotation with ImAnno

The website GenePaint provides thousands of the In Situ Hybridization images. These images correspond to the 24 sagittal sections at embryonic day 14.5.

The goal of GenePaint Gene Annotation with ImAnno is to annotate sets of genes provided by GenePaint.

Three projects were launched : eye, teeth and ear

Eye

The tissue types which have been annotated are :

1. Neural Retina Inner neuroblastic layer
2. Neural Retina Outer neuroblastic layer
3. Lens Central cells
4. Lens Anterior epithelium
5. Corneal Mesothelium
6. Corneal Epithelium
7. Epithelia Palpebral folds
8. Epithelia Conjunctival/perioptic epithelium
9. Mesenchyme Eyelid
10. Mesenchyme Scleral
11. Mesenchyme Condensed perioptic mes. including ocular muscles
12. Mesenchyme Loose perioptic mes. including orbital bone
13. Mesenchyme Retrolenticular
14. Mesenchyme Hyaloid plexi
15. Non-ocular head tissues Surface epithelium
16. Non-ocular head tissues Mesenchyme
17. Non-ocular head tissues Muscles
18. Non-ocular head tissues Bone
19. Non-ocular head tissues Vasculatur
20. Other body regions Central nervous system
21. Other body regions Other body regions

Foreach tissue type you have to select between

• NA
• Negative
• Weak
• Strong

and you can add zero or more keyword

• patchy
• spotted
• regionalized
• dev nerves

Teeth

1. General expression pattern
2. Oral epithelium
3. Molar Gubernaculum
4. Molar Epithelial Compartment Enamel organ
5. Molar Epithelial Compartment Enamel organ Outer enamel epithelium
6. Molar Epithelial Compartment Enamel organ Stellate reticulum
7. Molar Epithelial Compartment Enamel organ Inner enamel epithelium Future cusp area
8. Molar Epithelial Compartment Enamel organ Inner enamel epithelium Epithelial loop area
9. Molar Epithelial Compartment Enamel organ Enamel knot
10. Molar Mesenchymal compartment Dental sac
11. Molar Mesenchymal compartment Dental Papilla
12. Molar Mesenchymal compartment Dental Papilla Core
13. Molar Mesenchymal compartment Dental Papilla Future cusp area
14. Molar Mesenchymal compartment Dental Papilla Cervical area
15. Molar Mesenchymal compartment Alveolar bone
16. Incisor Gubernaculum
17. Incisor Epithelial Compartment Enamel organ
18. Incisor Epithelial Compartment Enamel organ Outer enamel epithelium
19. Incisor Epithelial Compartment Enamel organ Stellate reticulum
20. Incisor Epithelial Compartment Enamel organ Stratum Intermedium
21. Incisor Epithelial Compartment Enamel organ Inner enamel epithelium Anterior area
22. Incisor Epithelial Compartment Enamel organ Inner enamel epithelium Epithelial loop area
23. Incisor Epithelial Compartment Enamel organ Enamel knot
24. Incisor Mesenchymal compartment Dental sac
25. Incisor Mesenchymal compartment Dental Papilla
26. Incisor Mesenchymal compartment Dental Papilla Core
27. Incisor Mesenchymal compartment Dental Papilla Anterior area
28. Incisor Mesenchymal compartment Dental Papilla Cervical area
29. Incisor Mesenchymal compartment Alveolar bone
30. Non-dental head tissues Meckel cartilage
31. Non-dental head tissues Tongue
32. Non-dental head tissues Palate Epithelium
33. Non-dental head tissues Palate Medial epithelial seam
34. Non-dental head tissues Palate Mesenchyme
35. Non-dental head tissues Salivary glands
36. Non-dental head tissues Nasal
37. Other body regions
38. EurExpress

Ear (including other tissues from the sensory system)

1. External acoustic meatus
2. Middle ear ossicles
3. Middle ear tympanic membrane
4. Middle ear mesenchyme
5. Otic capsule
6. Inner ear mesenchyme
7. Stato-acoustic ganglion
8. Inner spiral sulcus
9. Kolliker
10. Stria vascularis
11. Outer spiral sulcus
12. Sacculus sensory region
13. Sacculus other cells
14. Utriculus sensory region
15. Utriculus other cells
16. Crista sensory region
17. Crista other cells
18. Semi-circular canals
19. Endolymphatic duct and sac
20. Choroide plexus 4th ventricule
21. Hindbrain
22. Sensory retina
23. Olfactory organ
24. Cartilage primordium of ribs
25. Follicles of vibrissae