[go] Requirement for all 'unknown' annotations to use ND code

[Valerie Wood]

Sorry, I didn't explain that very well. Usually there will be no paper, 
so there is no experiment to record.




Valerie Wood wrote:

>
>
>
> I don't see how you can make an annotation to the root node using
> RCA/IC/IMP/ISS or IDA?
>
> The ND means the curator has looked at all the papers for this gene 
> (and for some databases checked the annotations to orthologs to see if 
> any sensible inferences can be made), and as of the data the 
> annotation was mane there is "no data".
>
> We  wouldn't be able to do this with any of the other evidence codes.
>
> Val
>
>
> Suzanna Lewis wrote:
>
>> After reading through this thread I see no strong reason for  
>> requiring ND as the evidence code for annotations to the root.
>>
>> In fact, I'm now wondering why we have ND at all. Seems to me that  
>> "no data" is a result. It is not the type of experiment that was  
>> done. Maybe the only accurate use of ND is when we don't even know  
>> what kind of experiment was carried out.
>>
>> -S
>>
>> On Sep 17, 2007, at 8:42 AM, Valerie Wood wrote:
>>
>>> So we don't all need to run the query......
>>>
>>>
>>> biological_process Dictybase ISS 1
>>> biological_process Dictybase ND 1313
>>> biological_process FB ND 1022
>>> biological_process GeneDB_Pfalciparum ND 702
>>> biological_process GeneDB_Spombe ND 1021
>>> biological_process GeneDB_Tbrucei ND 1087
>>> biological_process GeneDB_Tbrucei TAS 1
>>> biological_process GR_protein IC 11
>>> biological_process MGI IDA 1
>>> biological_process MGI IMP 2
>>> biological_process MGI ND 1382
>>> biological_process PseudoCAP IDA 13
>>> biological_process PseudoCAP ISS 2
>>> biological_process PseudoCAP RCA 26
>>> biological_process RGD IEA 1
>>> biological_process RGD ND 607
>>> biological_process SGD IMP 1
>>> biological_process SGD NAS 1
>>> biological_process SGD ND 1429
>>> biological_process SGD TAS 1
>>> biological_process TAIR ND 11086
>>> biological_process TAIR RCA 12
>>> biological_process TAIR TAS 3
>>> biological_process TIGR_CMR ND 19190
>>> biological_process TIGR_Tba1 ND 194
>>> biological_process UniProt IEA 6
>>> biological_process UniProt ND 966
>>> biological_process WB IMP 1326
>>> biological_process WB ND 2
>>> biological_process ZFIN ND 5269
>>> cellular_component Dictybase ISS 3
>>> cellular_component Dictybase ND 1551
>>> cellular_component FB ISS 1
>>> cellular_component FB ND 2058
>>> cellular_component GeneDB_Pfalciparum ND 288
>>> cellular_component GeneDB_Spombe ND 190
>>> cellular_component GeneDB_Tbrucei NAS 2
>>> cellular_component GeneDB_Tbrucei ND 1623
>>> cellular_component GeneDB_Tbrucei TAS 1
>>> cellular_component GR_protein TAS 8
>>> cellular_component MGI ND 1362
>>> cellular_component MGI TAS 1
>>> cellular_component PseudoCAP IDA 13
>>> cellular_component PseudoCAP ISS 2
>>> cellular_component RGD ND 718
>>> cellular_component SGD ND 972
>>> cellular_component SGD TAS 1
>>> cellular_component TAIR ND 9877
>>> cellular_component TAIR TAS 12
>>> cellular_component TIGR_CMR ND 14318
>>> cellular_component TIGR_Tba1 NAS 2
>>> cellular_component TIGR_Tba1 ND 184
>>> cellular_component UniProt ND 1278
>>> cellular_component WB ND 55
>>> cellular_component ZFIN ND 6283
>>> molecular_function Dictybase ND 1064
>>> molecular_function FB ND 1935
>>> molecular_function FB TAS 1
>>> molecular_function GeneDB_Lmajor IEA 57
>>> molecular_function GeneDB_Pfalciparum IEA 38
>>> molecular_function GeneDB_Pfalciparum ND 789
>>> molecular_function GeneDB_Spombe ND 1452
>>> molecular_function GeneDB_Tbrucei IEA 44
>>> molecular_function GeneDB_Tbrucei ND 977
>>> molecular_function GeneDB_Tbrucei TAS 7
>>> molecular_function GR_protein IEA 255
>>> molecular_function GR_protein RCA 15
>>> molecular_function MGI ND 1381
>>> molecular_function PseudoCAP IDA 13
>>> molecular_function PseudoCAP ISS 2
>>> molecular_function PseudoCAP RCA 46
>>> molecular_function RGD ND 701
>>> molecular_function SGD ISS 4
>>> molecular_function SGD NAS 1
>>> molecular_function SGD ND 2166
>>> molecular_function SGD TAS 19
>>> molecular_function TAIR NAS 3
>>> molecular_function TAIR ND 10095
>>> molecular_function TAIR RCA 403
>>> molecular_function TAIR TAS 72
>>> molecular_function TIGR_CMR ND 19337
>>> molecular_function TIGR_Tba1 ND 181
>>> molecular_function TIGR_Tba1 TAS 7
>>> molecular_function UniProt ND 1124
>>> molecular_function WB NAS 1
>>> molecular_function WB ND 51
>>> molecular_function WB TAS 2
>>> molecular_function ZFIN ND 4950
>>>
>>>
>>> -- 
>>> The Wellcome Trust Sanger Institute is operated by Genome Research  
>>> Limited, a charity registered in England with number 1021457 and a  
>>> company registered in England with number 2742969, whose registered  
>>> office is 215 Euston Road, London, NW1 2BE.
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-- 
 The Wellcome Trust Sanger Institute is operated by Genome Research 
 Limited, a charity registered in England with number 1021457 and a 
 company registered in England with number 2742969, whose registered 
 office is 215 Euston Road, London, NW1 2BE.