Difference between revisions of "Annotation Conf. Call 2015-10-27"

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(Annotation Consistency Exercise)
(Annotation Consistency Exercise)
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'''Choice of paper-motivation''': discussing the use of IGI as evidence code.  
 
'''Choice of paper-motivation''': discussing the use of IGI as evidence code.  
 
When should we use IGI?
 
When should we use IGI?
:Indented line - mutation in gene A is rescued by a mutation in gene B
+
:- mutation in gene A is rescued by a mutation in gene B  
:Indented line - mutation in gene A is rescued by over-expression in gene  
+
:- mutation in gene A is rescued by over-expression in gene  
 
In this paper, how do we capture
 
In this paper, how do we capture
:Indented line - the repression of transcriptional activation activity of tbx5a by kctd10?
+
:- the repression of transcriptional activation activity of tbx5a by kctd10?
:Indented line - the information about HAS2
+
:- the information about has2
  
 
'''Summary of the paper''' (PMID:24430697)
 
'''Summary of the paper''' (PMID:24430697)
 
- mutants in kctd10 show heart defects (heart looping, atrioventricular canal development)
 
- mutants in kctd10 show heart defects (heart looping, atrioventricular canal development)
 
Note: phenotypes determined by  
 
Note: phenotypes determined by  
:Indented line - analysis of heart morphology
+
:- analysis of heart morphology
:Indented line - gene expression analysis of genes known to be expressed in specific part of the heart).
+
:- gene expression analysis of genes known to be expressed in specific part of the heart).
 
[Fig 1, 2, 3]
 
[Fig 1, 2, 3]
  
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- in vitro experiments [Fig5]:  
 
- in vitro experiments [Fig5]:  
:Indented line - luciferase reporter assay
+
:- luciferase reporter assay
kctd10 inhibits tbx5 transcriptional activity
+
:kctd10 inhibits tbx5 transcriptional activity
:Indented line - Co-IP ; Pull down assay:  
+
:- Co-IP ; Pull down assay:  
tbx5a and kctd10 physically interact with each other.
+
:tbx5a and kctd10 physically interact with each other.
  
 
==Minutes==
 
==Minutes==
  
 
[[Category:Annotation Working Group]]
 
[[Category:Annotation Working Group]]

Revision as of 16:16, 26 October 2015

Meeting URL: https://bluejeans.com/993661940

Agenda

Annotation Consistency Exercise

Annotation consistency paper picked by ZFIN- PMID:24430697

Choice of paper-motivation: discussing the use of IGI as evidence code. When should we use IGI?

- mutation in gene A is rescued by a mutation in gene B
- mutation in gene A is rescued by over-expression in gene

In this paper, how do we capture

- the repression of transcriptional activation activity of tbx5a by kctd10?
- the information about has2

Summary of the paper (PMID:24430697) - mutants in kctd10 show heart defects (heart looping, atrioventricular canal development) Note: phenotypes determined by

- analysis of heart morphology
- gene expression analysis of genes known to be expressed in specific part of the heart).

[Fig 1, 2, 3]

- downregulation of tbx5a or has 2 (using MO) rescue kctd10 mutant heart phenotypes. [Fig 4]

- in vitro experiments [Fig5]:

- luciferase reporter assay
kctd10 inhibits tbx5 transcriptional activity
- Co-IP ; Pull down assay:
tbx5a and kctd10 physically interact with each other.

Minutes