[BioC] problem with rat database

[Alberto Goldoni]

Dear All,
i'm analyzing agilent microarrays with the "rgug4130a.db" database and
using the function:"topTable(fit2,number=500,adjust="BH")" i have
obtained 500 genes like these:

Row	Col	ProbeUID	ControlType	ProbeName	GeneName	SystematicName	Description	X.hda.str...ref.	X.ref.str...ref.	X.hda.str...ref.str.	AveExpr	F	P.Value	adj.P.Val
16096	79	38	15309	0	A_43_P10328	CB606456	CB606456	unknown
function	3.988290607	-0.951656306	4.939946913	10.29735936	36.77263264	0.000212298	0.641094595
8109	40	109	7609	0	A_42_P552092	203358_Rn	203358_Rn	Rat c-fos
mRNA.	5.670956889	4.413365374	1.257591514	13.47699544	33.20342601	0.000292278	0.641094595

but as you can see most genes like the first one  - CB606456 -  in the
DESCRPTION there is written "unknown function".

So i have performed a very simply search.
1) First in ENSAMBLE using the GeneName "CB606456" with the "Locations
of DnaAlignFeature" it gives to me the Genomic location(strand): chr
7:16261621-16262210
2) Then in the Rat Genome Database
(http://rgd.mcw.edu/tools/genes/genes_view.cgi?id=735058) i have found
that in this position there is one gene:

735058	GENE	Angptl4	angiopoietin-like 4	7	16261623	16267852

so the question is why in the "rgug4130a.db" database the R system
gives to me "unknown function" when using the genomic location in
ensamble and then in rgd it gives to me the Angptl4 gene!

and there is a function in order to do to R to perform this kind of
search automatically? (this why in my 500 genes there are 100 "unknow
function" genes and it will be interesting to have a function that
perform this kind of search automatically).


Best regards to all and to whom answer to me.

-- 
-----------------------------------------------------
Dr. Alberto Goldoni
Parma, Italy