Difference between revisions of "Process page mock-ups"

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|-valign="top"  
 
|-valign="top"  
 
|
 
|
−
* [Programmed cell death: Developmental]
+
*[Programmed cell death: Developmental]
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* [Programmed cell death: Germ line]
+
*[Programmed cell death: Germ line]
 
|
 
|
−
* [Necrosis]
+
*[Necrosis]
−
* [Autophagy]
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*[Autophagy]
 
|}
 
|}
  
−
==[[Autophagy]]==
 
  
−
==[[Dauer arrest]]==
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==[[Dauer formation/arrest]]==
 
{|
 
{|
 
|-valign="top"
 
|-valign="top"
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*[Quiescence]
 
*[Quiescence]
 
*[Exit from dauer stage]
 
*[Exit from dauer stage]
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|}
 
 
|}
 
|}
  
−
==[[L1 arrest]]==
+
==[[L1 development]]==
 +
*[L1 arrest]
  
−
==[[Embryonic blastomere specification]]==
+
==[[Tissue morphogenesis]]==
 +
*[Embryonic mesendoderm development]
  
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==[[Embryonic mesendoderm development]]==
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==[[Organ development]]==
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{|
−
==[[Pharynx development]]==
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|-valign="top"
−
 
+
|
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==[[Gonad development]]==
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*[Pharynx development]
 +
*[Gonad development]
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*[Duct development]
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*[Muscle development]
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|}
  
 
==[[Germ line development]]==
 
==[[Germ line development]]==
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|-valign="top"
 
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*[Generation of VPC's]
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*[[Generation of VPC's]]
 
*[Vulval Precursor Patterning]
 
*[Vulval Precursor Patterning]
 
*[Generation of the adult]
 
*[Generation of the adult]
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*[Morphogenesis of the vulva]
 
*[Morphogenesis of the vulva]
 
*[Generation of the anchor cell: AC/UV decision]
 
*[Generation of the anchor cell: AC/UV decision]
 +
|
 
*[Uterine patterning: pi cell induction]
 
*[Uterine patterning: pi cell induction]
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|
 
 
*[Uterine patterning: uv1 induction]
 
*[Uterine patterning: uv1 induction]
 
*[Patterning of adult cell types: 1° lineage]
 
*[Patterning of adult cell types: 1° lineage]
 +
|
 
*[Patterning of adult cell types: Polarity of 2° lineage]
 
*[Patterning of adult cell types: Polarity of 2° lineage]
 
|}
 
|}
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==[[P11/P12 specification]]==
 
−
 
−
==[[duct development]]==
 
  
 
==[[Cell migration]]==
 
==[[Cell migration]]==
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*[DTC migration]
 
*[DTC migration]
 
*[LC migration]
 
*[LC migration]
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|}
 
|}
  
 
==[[Neuronal regeneration]]==
 
==[[Neuronal regeneration]]==
−
 
−
==[[Neuronal migration]]==
 
  
 
==[[Molting]]==
 
==[[Molting]]==
  
 
==[[Cell specification]]==
 
==[[Cell specification]]==
 +
{|
 +
|-valign="top"
 +
|
 +
*[P11/P12 specification]
 +
*[Embryonic blastomere specification]
 +
|}
  
 
==[[Axis formation]]==
 
==[[Axis formation]]==
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==[[Synaptic transmission]]==
 
==[[Synaptic transmission]]==
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==[[muscle structure]]==
 
−
 
−
 
  
 
==[[Behavioral plasticity]]==
 
==[[Behavioral plasticity]]==
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*[Response to contact]
 
*[Response to contact]
 
*[Turning]
 
*[Turning]
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|
 
*[Vulval Location]
 
*[Vulval Location]
 
*[Spicule protraction]
 
*[Spicule protraction]
 
*[Sperm Transfer]
 
*[Sperm Transfer]
 +
|
 
*[Spicule retraction]
 
*[Spicule retraction]
 
|}
 
|}

Revision as of 20:49, 23 July 2009

back to Caltech SOPs

Notes for process pages

  • Pathway databases
    • BioCyc: Peter Karp, SRI, PathoLogic tools,
    • KEGG:
    • C. elegans specific db, Armand Leroi's, NMR-based metabolomic data using MetaShark for assigning enzyme classification
    • WikiPathways: Alex Pico, Gladstone, GenMAPP Pathway Markup Language (GPML), PathVisio
    • Reactome: Peter D'Eustachio, Lisa Matthews
    • NEMAPATH: Makedonka Mitreva, nematode.net, nonelegans
  • Visualization software
    • Cytoscape
    • GenMAPP
    • PathVisio

Processes in C. elegans

Cell division

Cell death

  • [Programmed cell death: Developmental]
  • [Programmed cell death: Germ line]
  • [Necrosis]
  • [Autophagy]


Dauer formation/arrest

  • [Regulation of dauer arrest]
  • [Dauer morphological changes]
  • [Dauer metabolism]
  • [Neuronal processes in dauer arrest]
  • [Steroids/hormones]
  • [Quiescence]
  • [Exit from dauer stage]

L1 development

  • [L1 arrest]

Tissue morphogenesis

  • [Embryonic mesendoderm development]

Organ development

  • [Pharynx development]
  • [Gonad development]
  • [Duct development]
  • [Muscle development]

Germ line development

Spermatogenesis

Oogenesis

Sex determination

Dosage compensation

Male-specific development

  • [Hook Equivalence Group development]
  • [Spicule development]
  • [Male muscle development]


Vulval development

  • [Anchor cell invasion]
  • [Morphogenesis of the vulva]
  • [Generation of the anchor cell: AC/UV decision]
  • [Uterine patterning: pi cell induction]
  • [Uterine patterning: uv1 induction]
  • [Patterning of adult cell types: 1° lineage]
  • [Patterning of adult cell types: Polarity of 2° lineage]

Cell migration

  • [Neuronal migration]
  • [Sex Myoblast positioning]
  • [DTC migration]
  • [LC migration]

Neuronal regeneration

Molting

Cell specification

  • [P11/P12 specification]
  • [Embryonic blastomere specification]

Axis formation

  • [Asymmetric cell division]
  • [Establishing polarity: A/P axis]
  • [Establishing polarity: D/V axis]
  • [Establishing polarity; L/R Axis]
  • [Maintaining polarity]

Chemosensation

  • [Chemotaxis]
  • [Oxygen sensing]
  • [Mating]
  • [Integrating signals]

Mechanosensation

Synaptic transmission

Behavioral plasticity

Locomotion

  • [Pirouettes]
  • [Foraging]
  • [Taxis]

Feeding (Pharyngeal pumping)

Defecation

Ovulation

Egg-laying

Male Mating

  • [Mate-Finding]
  • [Response to contact]
  • [Turning]
  • [Vulval Location]
  • [Spicule protraction]
  • [Sperm Transfer]
  • [Spicule retraction]

Sleep

Pathogen Response

  • [Innate Immune Response]
  • [Pathogen Avoidance]
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