Difference between revisions of "Phenotype2GO Analysis"
From WormBaseWiki
Jump to navigationJump to search| Line 7: | Line 7: | ||
! Gene Name !! Phenotype2GO Annotation !! Evidence Code !! Experiment !! Reference !! Manual GO Annotation !! Evidence Code !! Comment !! Recommend Keep Phenotype2GO Annotation? || Class of P2GO | ! Gene Name !! Phenotype2GO Annotation !! Evidence Code !! Experiment !! Reference !! Manual GO Annotation !! Evidence Code !! Comment !! Recommend Keep Phenotype2GO Annotation? || Class of P2GO | ||
|- | |- | ||
| − | | hsf-1 || locomotion (GO:0040011) || IMP || RNAi in rrf-3 || 6395, Simmer et al., 2003 || Nothing related to locomotion || || Reflects role in regulating protein homeostasis? || No || Possible downstream effect | + | | hsf-1 || locomotion (GO:0040011) || IMP || RNAi in rrf-3 || 6395, Simmer et al., 2003, others || Nothing related to locomotion || || Reflects role in regulating protein homeostasis? || No || Possible downstream effect |
|- | |- | ||
| met-1 || locomotion (GO:0040011) || IMP || RNAi || 26635, Gottschalk, et al., 2005 || no manual GO annotation || || role of met-1 not clear from this paper, but as a histone methyltransferase probably related to gene expression; contrast physiological process vs developmental process || No || Possible downstream effect | | met-1 || locomotion (GO:0040011) || IMP || RNAi || 26635, Gottschalk, et al., 2005 || no manual GO annotation || || role of met-1 not clear from this paper, but as a histone methyltransferase probably related to gene expression; contrast physiological process vs developmental process || No || Possible downstream effect | ||
|- | |- | ||
| + | | sax-3 || locomotion (GO:0040011) || IMP || RNAi || 5654, Kamath et al., 2003 || | ||
| smg-8 || locomotion (GO:0040011) || IMP || RNAi || 37111 || nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184) || IGI || smg-8 encodes a novel protein; manual annotation still needs to be added; affect on locomotion apparently a result of unc-54 transcript stabilization || No || Phenotype used as output for more general cellular process; incorrect evidence code | | smg-8 || locomotion (GO:0040011) || IMP || RNAi || 37111 || nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184) || IGI || smg-8 encodes a novel protein; manual annotation still needs to be added; affect on locomotion apparently a result of unc-54 transcript stabilization || No || Phenotype used as output for more general cellular process; incorrect evidence code | ||
|- | |- | ||
Revision as of 21:58, 7 March 2013
Named Genes with Phenotype2GO-Based Annotations
| Gene Name | Phenotype2GO Annotation | Evidence Code | Experiment | Reference | Manual GO Annotation | Evidence Code | Comment | Recommend Keep Phenotype2GO Annotation? | Class of P2GO | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| hsf-1 | locomotion (GO:0040011) | IMP | RNAi in rrf-3 | 6395, Simmer et al., 2003, others | Nothing related to locomotion | Reflects role in regulating protein homeostasis? | No | Possible downstream effect | |||||||
| met-1 | locomotion (GO:0040011) | IMP | RNAi | 26635, Gottschalk, et al., 2005 | no manual GO annotation | role of met-1 not clear from this paper, but as a histone methyltransferase probably related to gene expression; contrast physiological process vs developmental process | No | Possible downstream effect | |||||||
| sax-3 | locomotion (GO:0040011) | IMP | RNAi | 5654, Kamath et al., 2003 | smg-8 | locomotion (GO:0040011) | IMP | RNAi | 37111 | nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184) | IGI | smg-8 encodes a novel protein; manual annotation still needs to be added; affect on locomotion apparently a result of unc-54 transcript stabilization | No | Phenotype used as output for more general cellular process; incorrect evidence code | |
| mes-4 | determination of adult lifespan (GO:0008430) | IMP | RNAi | 33449 | no GO annotation here? expt about germline fates | ||||||||||
| gld-3 | apoptosis (obsolete) | IMP | RNAi | 38381 | maybe a germ cell development annotation? | IMP | |||||||||
| fem-3 | embryonic development ending in birth or egg hatching (GO:0009792) | IMP | RNAi | 5599 | large-scale screen | small-scale experiment supports this but is not yet annotated (35459) |
