Difference between revisions of "Process page mock-ups"
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− | + | [http://www.wormbase.org/wiki/index.php/Caltech_documentation 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 division in male] | |
− | + | *[Cell division in hermaphrodite] | |
− | + | *[Asymmetric cell division] | |
− | |||
− | |||
− | |||
− | * | ||
− | * | ||
− | * | ||
− | + | ==[[Cell death]]== | |
− | " | + | {| |
+ | |-valign="top" | ||
+ | | | ||
+ | *[Programmed cell death: Developmental] | ||
+ | *[Programmed cell death: Germ line] | ||
+ | *[Necrosis] | ||
+ | | | ||
+ | *[Autophagy] | ||
+ | *[Cell death in hermaphrodite] | ||
+ | |} | ||
− | + | ==[[Axis formation]]== | |
− | " | + | {| |
+ | |-valign="top" | ||
+ | | | ||
+ | *[Asymmetric cell division] | ||
+ | *[Establishing polarity: A/P axis] | ||
+ | *[Establishing polarity: D/V axis] | ||
+ | *[Establishing polarity; L/R Axis] | ||
+ | | | ||
+ | *[Maintaining polarity] | ||
+ | |} | ||
− | + | ==[[Cell migration]]== | |
− | *[[ | + | {| |
+ | |-valign="top" | ||
+ | | | ||
+ | *[Neuronal migration] | ||
+ | *[Sex Myoblast positioning] | ||
+ | *[DTC migration] | ||
+ | *[LC migration] | ||
+ | |} | ||
− | + | ==[[Cell specification and differentiation]]== | |
− | + | {| | |
− | [ | + | |-valign="top" |
− | *[ | + | | |
− | + | *[P11/P12 specification] | |
− | + | *[Embryonic blastomere specification] | |
− | + | *[Cell differentiation in hermaphrodite] | |
− | + | *[Cell differentiation in male] | |
+ | |} | ||
− | + | ==[[Sex determination]]== | |
− | + | *[Dosage compensation] | |
− | * | ||
− | + | ==[[Tissue morphogenesis]]== | |
+ | *[Embryonic mesendoderm development] | ||
+ | *[Muscle morphogenesis] | ||
− | + | ==[[Organ development]]== | |
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Pharynx development] | ||
+ | *[Gonad development] | ||
+ | *[Duct development] | ||
+ | *[Muscle development] | ||
+ | |} | ||
+ | ==[[Vulval development]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[[Generation of VPC's]] | ||
+ | *[Vulval Precursor Patterning] | ||
+ | *[Generation of the adult] | ||
+ | *[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] | ||
+ | |} | ||
− | ---- | + | ==[[Germ line development]]== |
+ | |||
+ | ==[[Spermatogenesis]]== | ||
+ | |||
+ | ==[[Oogenesis]]== | ||
+ | |||
+ | ==[[L1 development]]== | ||
+ | *[L1 arrest] | ||
+ | |||
+ | ==[[Molting]]== | ||
+ | |||
+ | ==[[Male-specific development]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Hook Equivalence Group development] | ||
+ | *[Spicule development] | ||
+ | *[Male muscle development] | ||
+ | |} | ||
+ | |||
+ | ==[[Dauer formation/arrest]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Regulation of dauer arrest] | ||
+ | *[Dauer morphological changes] | ||
+ | *[Dauer metabolism] | ||
+ | *[Neuronal processes in dauer arrest] | ||
+ | | | ||
+ | *[Steroids/hormones] | ||
+ | *[Quiescence] | ||
+ | *[Exit from dauer stage] | ||
+ | |} | ||
+ | |||
+ | ==[[Neuronal regeneration]]== | ||
+ | |||
+ | ==[[Chemosensation]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Chemotaxis] | ||
+ | *[Oxygen sensing] | ||
+ | *[Mating] | ||
+ | *[Integrating signals] | ||
+ | |} | ||
+ | ==[[Mechanosensation]]== | ||
+ | |||
+ | ==[[Synaptic transmission]]== | ||
+ | |||
+ | ==[[Behavioral plasticity]]== | ||
+ | *[Habituation] | ||
+ | *[Adaptation] | ||
+ | |||
+ | ==[[Locomotion]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Pirouettes] | ||
+ | *[Foraging] | ||
+ | *[Taxis] | ||
+ | |} | ||
+ | |||
+ | ==[[Feeding]]== | ||
+ | |||
+ | *[Pharyngeal pumping] | ||
+ | *[Foraging] | ||
+ | |||
+ | ==[[Defecation]]== | ||
+ | *[Defecation cycle] | ||
+ | |||
+ | ==[[Ovulation]]== | ||
+ | *[Egg-laying] | ||
+ | *[Egg-laying cycle]] | ||
+ | |||
+ | ==[[Male Mating]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Mate-Finding] | ||
+ | *[Response to contact] | ||
+ | *[Turning] | ||
+ | *[Vulval Location] | ||
+ | | | ||
+ | *[Spicule protraction] | ||
+ | *[Sperm Transfer] | ||
+ | *[Spicule retraction] | ||
+ | |} | ||
+ | |||
+ | ==[[Sleep]]== | ||
+ | |||
+ | ==[[Pathogen Response]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Innate Immune Response] | ||
+ | *[Pathogen Avoidance] | ||
+ | |} | ||
+ | ==[[Behavior]]== | ||
+ | {| | ||
+ | |-valign="top" | ||
+ | | | ||
+ | *[Locomotion] | ||
+ | *[Pathogen Avoidance] | ||
+ | *[Foraging] | ||
+ | *[Feeding] | ||
+ | *[Defecation] | ||
+ | | | ||
+ | *[Egg laying] | ||
+ | *[Dauer larva formation] | ||
+ | *[Male mating] | ||
+ | *[Social behavior] | ||
+ | *[Learning and memory] | ||
+ | | | ||
+ | *[Sensory response to touch] | ||
+ | *[Sensory response to smell] | ||
+ | *[Sensory response to taste] | ||
+ | *[Sensory response to temperature] | ||
+ | |} | ||
+ | |||
+ | [[Category:Process page]] |
Latest revision as of 20:52, 24 September 2010
Contents
- 1 Notes for process pages
- 2 Processes in C. elegans
- 2.1 Cell division
- 2.2 Cell death
- 2.3 Axis formation
- 2.4 Cell migration
- 2.5 Cell specification and differentiation
- 2.6 Sex determination
- 2.7 Tissue morphogenesis
- 2.8 Organ development
- 2.9 Vulval development
- 2.10 Germ line development
- 2.11 Spermatogenesis
- 2.12 Oogenesis
- 2.13 L1 development
- 2.14 Molting
- 2.15 Male-specific development
- 2.16 Dauer formation/arrest
- 2.17 Neuronal regeneration
- 2.18 Chemosensation
- 2.19 Mechanosensation
- 2.20 Synaptic transmission
- 2.21 Behavioral plasticity
- 2.22 Locomotion
- 2.23 Feeding
- 2.24 Defecation
- 2.25 Ovulation
- 2.26 Male Mating
- 2.27 Sleep
- 2.28 Pathogen Response
- 2.29 Behavior
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 division in male]
- [Cell division in hermaphrodite]
- [Asymmetric cell division]
Cell death
|
|
Axis formation
|
|
Cell migration
|
Cell specification and differentiation
|
Sex determination
- [Dosage compensation]
Tissue morphogenesis
- [Embryonic mesendoderm development]
- [Muscle morphogenesis]
Organ development
|
Vulval development
|
|
|
Germ line development
Spermatogenesis
Oogenesis
L1 development
- [L1 arrest]
Molting
Male-specific development
|
Dauer formation/arrest
|
|
Neuronal regeneration
Chemosensation
|
Mechanosensation
Synaptic transmission
Behavioral plasticity
- [Habituation]
- [Adaptation]
Locomotion
|
Feeding
- [Pharyngeal pumping]
- [Foraging]
Defecation
- [Defecation cycle]
Ovulation
- [Egg-laying]
- [Egg-laying cycle]]
Male Mating
|
|
Sleep
Pathogen Response
|
Behavior
|
|
|