Annotation Conf. Call 2015-09-22: Difference between revisions
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Revision as of 09:05, 22 September 2015
Agenda
Annotation consistency exercise
Pombe paper
http://www.ncbi.nlm.nih.gov/pubmed/22959349
Annotation Summary
Gene | Qualifier | Term | ID | # of Annotations | Evidence Code Summary | 'With' field Summary | Extension Summary | Comments |
---|---|---|---|---|---|---|---|---|
Molecular Function Annotations | ||||||||
rap1 | protein binding | GO:0005515 | 2/3 | IPI | bqt4 | |||
bqt4 | protein binding | GO:0005515 | 2/3 | IPI | rap1 | |||
bqt1 | protein binding | GO:0005515 | 1/3 | IPI | bqt2, rap1 | Not sure if this is the correct representation, or if this should be a protein complex annotation. This is the Y3H data. | ||
bqt2 | protein binding | GO:0005515 | 1/3 | IPI | bqt1, rap1 | Not sure if this is the correct representation, or if this should be a protein complex annotation. This is the Y3H data. | ||
poz1 | protein binding | GO:0005515 | 1/3 | IPI | rap1 | |||
rap1 | protein binding | GO:0005515 | IPI | taz1 | ||||
rap1 | protein binding | GO:0005515 | 1/3 | IPI | bqt1, bqt2 | Not sure if this is the correct representation, or if this should be a protein complex annotation. This is the Y3H data. | ||
rap1 | protein binding | GO:0005515 | 1/3 | IPI | poz1 | |||
taz1 | protein binding | GO:0005515 | 1/3 | IPI | rap1 | |||
Biological Process Annotations | ||||||||
taz1 | mitotic telomere tethering at nuclear periphery | GO:0044820 | 2/3 | IGI-1, IMP-1 | bqt4 | during mitotic G2 phase (GO:0000085) | ||
bqt4 | mitotic telomere tethering at nuclear periphery | GO:0044820 | 3/3 | IGI-1, IMP-2 | taz1 | during mitotic G2 phase (GO:0000085) (2/3 included) | ||
rap1 | mitotic telomere tethering at nuclear periphery | GO:0044820 | 2/3 | IPI-1, IMP-2 | bqt4 | during mitotic G2 phase (GO:0000085) (2/3 included) | one curator did both IMP and IGI | |
cdc2 | negative regulation of mitotic telomere tethering at nuclear periphery | GO:1904537 | 1/3 | IGI | rap1 | during mitotic M phase (GO:0000087) | ||
cdc2 | negative regulation of protein binding | GO:0032091 | 1/3 | IMP | has_input-rap1|has_input-bqt4 | |||
cdc2 | protein serine/threonine kinase activity | GO:0004674 | 2/3 | IDA | has_input-rap1 | There is no direct evidence to show that phosphorylation of rap1 by cdc2 is what causes dissociation of the tethering. But the authors are suggesting that. | ||
nda3 | ?? | ?? | 1/3 | ?? | I wasn't sure if there was any GO annotation here wrt regulation of phosphorylation, or if the nda3 mutation was just being used to block the cell cycle at a particular point. | |||
cdc2 | peptidyl-serine phosphorylation | GO:0018105 | 2/3 | IGI-1, IMP-1 | rap1 | during mitotic M phase (GO:0000087) | would love to be able to specify the residues; I'm not always certain if this type of evidence also supports an annotation to the corresponding MF term. Also, I don't know if/what the appropriate way to capture an annotation extension would be for this, has_input(Rap1p)? | |
cdc2 | peptidyl-threonine phosphorylation | GO:0018107 | 2/3 | IGI-1, IMP-1 | rap1 | during mitotic M phase (GO:0000087) | would love to be able to specify the residues; I'm not always certain if this type of evidence also supports an annotation to the corresponding MF term. Also, I don't know if/what the appropriate way to capture an annotation extension would be for this, has_input(Rap1p)? | |
cdc2 | mitotic sister chromatid segregation | GO:0000070 | 1/3 | IC | GO:1904537???????? | |||
taz1 | protection from non-homologous end joining at telomere | GO:0031848 | 1/3 | IMP | ||||
taz1 | ?? | ?? | 1/3 | ?? | Not sure if the overexpression constructs are suficient evidence to annotate taz1 to GO:0044820, mitotic telomere tethering at nuclear periphery | |||
taz1 | ?? | ?? | 1/3 | ?? | Not sure if this observation [minichromosome loss] should lead to a 'regulation of mitotic sister chromatid segregation' type of annotation. | |||
Cellular Component Annotations | ||||||||
taz1 | nuclear chromosome, telomeric region | GO:0000784 | 2/3 | IDA | ||||
ish1 | nuclear envelope | GO:0005635 | 2/3 | IDA | ||||
atb2 | microtubule | GO:0005874 | 2/3 | IDA | ||||
bqt4 | nuclear envelope | GO:0005635 | 1/3 | IDA |