GenePaint Gene Annotation with ImAnno

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This page is now at http://lbgi.igbmc.fr/wikili/index.php/GenePaint_Gene_Annotation_with_ImAnno
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REST BECOMES OBSOLETE
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The website [http://genepaint.org/ GenePaint] provides thousands of the In Situ Hybridization images.
The website [http://genepaint.org/ GenePaint] provides thousands of the In Situ Hybridization images.
These images correspond to the 24 sagittal sections at embryonic day 14.5.
These images correspond to the 24 sagittal sections at embryonic day 14.5.
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The goal of GenePaint Gene Annotation with ImAnno is to annotate all genes provided by GenePaint
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The goal of GenePaint Gene Annotation with ImAnno is to annotate sets of genes provided by GenePaint.
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Three projects were launched : eye, teeth and ear
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==Eye==
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The tissue types which have been annotated are :
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# Neural Retina Inner neuroblastic layer
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# Neural Retina Outer neuroblastic layer
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# Lens Central cells
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# Lens Anterior epithelium
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# Corneal Mesothelium
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# Corneal Epithelium
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# Epithelia Palpebral folds
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# Epithelia Conjunctival/perioptic epithelium
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# Mesenchyme Eyelid
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# Mesenchyme Scleral
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# Mesenchyme Condensed perioptic mes. including ocular muscles
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# Mesenchyme Loose perioptic mes. including orbital bone
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# Mesenchyme Retrolenticular
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# Mesenchyme Hyaloid plexi
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# Non-ocular head tissues Surface epithelium
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# Non-ocular head tissues Mesenchyme
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# Non-ocular head tissues Muscles
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# Non-ocular head tissues Bone
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# Non-ocular head tissues Vasculatur
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# Other body regions Central nervous system
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# Other body regions Other body regions
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The tissue types which will be annotated are (may 30th 2006) :
 
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* Neural Retina Inner cell layer
 
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* Neural Retina Outer cell layer
 
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* Lens Central cells
 
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* Lens Anterior epithelium
 
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* Cornea Mesothelium
 
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* Cornea Surface epithelium
 
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* Non-corneal surface epithelia Palpebral folds
 
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* Non-corneal surface epithelia Conjunctival/perioptic epithelium
 
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* Mesenchyme Eyelid mesenchyme
 
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* Mesenchyme Scleral mesenchyme
 
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* Mesenchyme Condensed perioptic mes. (including prosp. ocular muscles)
 
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* Mesenchyme Loose perioptic mes. (including prosp. orbital bone )
 
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* Mesenchyme Retrolenticular mesenchyme
 
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* Mesenchyme Hyaloid plexi
 
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* Non-ocular head tissues Facial surface epithelium
 
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* Non-ocular head tissues Facial mesenchyme
 
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* Non-ocular head tissues Facial bone precursors
 
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* Non-ocular head tissues Blood vessels
 
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* Other body regions
 
Foreach tissue type you have to select between
Foreach tissue type you have to select between
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* regionalized
* regionalized
* dev nerves
* dev nerves
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==Teeth==
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# General expression pattern
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# Oral epithelium
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# Molar Gubernaculum
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# Molar Epithelial Compartment Enamel organ
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# Molar Epithelial Compartment Enamel organ Outer enamel epithelium
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# Molar Epithelial Compartment Enamel organ Stellate reticulum
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# Molar Epithelial Compartment Enamel organ Inner enamel epithelium Future cusp area
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# Molar Epithelial Compartment Enamel organ Inner enamel epithelium Epithelial loop area
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# Molar Epithelial Compartment Enamel organ Enamel knot
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# Molar Mesenchymal compartment Dental sac
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# Molar Mesenchymal compartment Dental Papilla
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# Molar Mesenchymal compartment Dental Papilla Core
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# Molar Mesenchymal compartment Dental Papilla Future cusp area
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# Molar Mesenchymal compartment Dental Papilla Cervical area
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# Molar Mesenchymal compartment Alveolar bone
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# Incisor Gubernaculum
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# Incisor Epithelial Compartment Enamel organ
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# Incisor Epithelial Compartment Enamel organ Outer enamel epithelium
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# Incisor Epithelial Compartment Enamel organ Stellate reticulum
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# Incisor Epithelial Compartment Enamel organ Stratum Intermedium
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# Incisor Epithelial Compartment Enamel organ Inner enamel epithelium Anterior area
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# Incisor Epithelial Compartment Enamel organ Inner enamel epithelium Epithelial loop area
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# Incisor Epithelial Compartment Enamel organ Enamel knot
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# Incisor Mesenchymal compartment Dental sac
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# Incisor Mesenchymal compartment Dental Papilla
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# Incisor Mesenchymal compartment Dental Papilla Core
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# Incisor Mesenchymal compartment Dental Papilla Anterior area
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# Incisor Mesenchymal compartment Dental Papilla Cervical area
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# Incisor Mesenchymal compartment Alveolar bone
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# Non-dental head tissues Meckel cartilage
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# Non-dental head tissues Tongue
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# Non-dental head tissues Palate Epithelium
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# Non-dental head tissues Palate Medial epithelial seam
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# Non-dental head tissues Palate Mesenchyme
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# Non-dental head tissues Salivary glands
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# Non-dental head tissues Nasal
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# Other body regions
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# EurExpress
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==Ear (including other tissues from the sensory system)==
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# External acoustic meatus
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# Middle ear ossicles
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# Middle ear tympanic membrane
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# Middle ear mesenchyme
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# Otic capsule
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# Inner ear mesenchyme
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# Stato-acoustic ganglion
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# Inner spiral sulcus
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# Kolliker
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# Stria vascularis
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# Outer spiral sulcus
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# Sacculus sensory region
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# Sacculus other cells
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# Utriculus sensory region
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# Utriculus other cells
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# Crista sensory region
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# Crista other cells
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# Semi-circular canals
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# Endolymphatic duct and sac
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# Choroide plexus 4th ventricule
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# Hindbrain
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# Sensory retina
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# Olfactory organ
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# Cartilage primordium of ribs
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# Follicles of vibrissae

Current revision

 This page is now at http://lbgi.igbmc.fr/wikili/index.php/GenePaint_Gene_Annotation_with_ImAnno

REST BECOMES OBSOLETE

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
Retrieved from "http://lbgi.fr/WikiGenoret/index.php/GenePaint_Gene_Annotation_with_ImAnno"
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