ntr: normal / enhanced rate of homologous chromosome pairing

pombase / fypo

Fission Yeast Phenotype Ontology

Creative Commons Attribution 4.0 International

14 stars 6 forks source link

ntr: normal / enhanced rate of homologous chromosome pairing #1302

Closed fypoadmin closed 9 years ago

fypoadmin commented 10 years ago

for

PMID:22582262 fig 1c rec12

Original comment by: ValWood

fypoadmin commented 10 years ago

summary: ntr: normal rate of homooogus chromosome pairing --> ntr: normal / enhanced rate of homolgous chromosome pairing
Description has changed:

Diff:


--- old
+++ new
@@ -1,4 +1,3 @@
-
 for 

 PMID:22582262 fig 1c rec12

Original comment by: ValWood

fypoadmin commented 10 years ago

and enhanced fig 4D

Original comment by: ValWood

fypoadmin commented 10 years ago

Just double-checking -- I'm using 'rate' to mean how fast/slowly something happens. Does that work for this phenotype?

And for the second term, what does "enhanced" mean? No existing terms have "enhanced" in the name, tho a few have related synonyms. Faster will be "increased rate"; greater extent would be "increased" (i.e. increased occurrence).

(I'll also open a ticket to make the 'rate' term defs clearer.)

Original comment by: mah11

fypoadmin commented 10 years ago

Yep it is rate. The pairing happens slower in the mutants.

In the enhanced one, the pairing happens sooner than it happens in the WT so I guess increased rate will also work.

Original comment by: ValWood

fypoadmin commented 10 years ago

ok, thanks. next FYPO editing frenzy will probably be Weds or Thurs.

Original comment by: mah11

fypoadmin commented 10 years ago

summary: ntr: normal / enhanced rate of homolgous chromosome pairing --> ntr: normal / enhanced rate of homologous chromosome pairing

Original comment by: ValWood

fypoadmin commented 10 years ago

For all of the chromosome pairing terms this is locus specific.

So for all of these terms, delayed, abnormal, normal, increased we need the region specific term "at early pairing regions"

enhanced rate of homologous chromosome pairing at ( new SO term requested:cis-acting homologous chromosome pairing region)

etc

Original comment by: ValWood

fypoadmin commented 10 years ago

notes from 2014-01-21 curator meeting (for posterity)

What's actually happening: in wild type, chromosomes pair up earlier at the sme2 locus (and telomeres) than elsewhere, and then the rest of the chromosomes catch up. Timing of pairing at sme2 is normal in some mutants, and in others it's earlier or later than in wt.

For fig. 3B and 3C, I'd call the red and purple lines delayed pairing; fig 3D red and green look both delayed and decreased. For fig 4D I'd say increased.

Original comment by: mah11

fypoadmin commented 10 years ago

labels: --> new ontology term
status: open --> closed-accepted
assigned_to: Midori Harris

Original comment by: mah11

fypoadmin commented 10 years ago

normal homologous chromosome pairing FYPO:0003050 normal homologous chromosome pairing at cis-acting homologous chromosome pairing region FYPO:0003051 abnormal homologous chromosome pairing at cis-acting homologous chromosome pairing region FYPO:0003052 increased homologous chromosome pairing at cis-acting homologous chromosome pairing region FYPO:0003053 decreased homologous chromosome pairing at cis-acting homologous chromosome pairing region FYPO:0003054 delayed homologous chromosome pairing at cis-acting homologous chromosome pairing region FYPO:0003055

Original comment by: mah11