ModENCODE TilingArray

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Revision as of 21:29, 19 January 2011 by Raymond (talk | contribs) (→‎Modeling)
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This is a documentation about how to handle Affymetrix Tiling Array data, esp. from ModEncode.

Tiling Array Related ACeDB Models

?Microarray - WormBase_Model:Microarray: information about a microarray chip.

Existing object - ?Microarray : Affymetrix_C.elegans_Tiling_Array_1.0R

?Microarray_experiment - WormBase_Model:Microarray_experiment: description of an experiment performed using a microarray.
?Condition - WormBase_Model:Condition: description of an experimental sample used by an microarray experiment.
?Microarray_results - WormBase_Model:Microarray_results: description of direct results for a 'spot' (TAR?) on a microarray from all experiments involving this spot.

Use Microarray_results to model TAR; what is the Sequence_info for a TAR?

#Microarray_data Result	A_vs_B_log_ratio	UNIQUE	Float
                 A_vs_B_SD	UNIQUE	Float
                 Frequency	UNIQUE	Float
                 Number_of_experiments	UNIQUE	Int
                 Range_within_paper	UNIQUE	Float	UNIQUE	Float
                 Confidence	Confidence_level	UNIQUE	Float
                 P_value	UNIQUE	Float
                 Presence      UNIQUE  PA
                                       PS
                                       NP
                 Expression_cluster	?Expression_cluster	XREF	Microarray_results
                 Remark	Text	#Evidence