ARRAY ANNOTATIONS FILE (APPLICABLE TO BOTH CONDENSED AND UNCONDENSED DATA SETS)

• Array Annotations

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Clone Annotations

Uncondensed Clone Annotations File

Uncondensed Annotations File in MS Excel format

• The layout of this tab separated file

Annotation File Organization
CloneID	string
Annotated Name	string
Refseq Number	string

Condensed Clone Annotations File

Condensed Annotations File in MS Excel format

• The layout of this tab separated file

Annotation File Organization
CloneID	string
Annotated Name	string
Refseq Hit	string

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CONDENSED DATA

CONDENSED TIME SERIES DATA FILES

• Condensed LPS Time Course Data (Time Series A)
• Condensed TCDD Time Course(Time Series B)
• Condensed TCDD Time Course(Time Series C)
• Condensed TCDD Time Course(Time Series D)
• Condensed Estrogen Time Course

Condensed Data File Organization

• First column is the cloneid column
• Subsequent columns are array columns w/ values for each respective cloneid(row) x arrayid(col) value being the condensed final ratio value
• These files contain only the annotated clones, ie. any clone that has not been verified is left out.

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UNCONDENSED DATA

UNCONDENSED DATA FILES

1. Don't be fooled by the ".csv" extension, these files are tab separated.
2. The table below delineates the organization of a data file.
3. Each line of tab separated values represents data for an individual clone, so basically transpose the table below and take off the data type line and you've a line in the file.
4. My guess is that you may be concerned only w/ the final ratio value.

• LPS Time Course Data (Time Series A)
• TCDD Time Course(Time Series B)
• TCDD Time Course(Time Series C)
• TCDD Time Course(Time Series D)
• Estrogen Time Course

Data File Organization
arrayid	integer
cloneid	integer
spot1cy3	float
spot1cy5	float
spot2cy3	float
spot2cy5	float
spot3cy3	float
spot3cy5	float
spot4cy3	float
spot4cy5	float
spot5cy3	float
spot5cy5	float
spot6cy3	float
spot6cy5	float
revspot1cy3	float
revspot1cy5	float
revspot2cy3	float
revspot2cy5	float
revspot3cy3	float
revspot3cy5	float
revspot4cy3	float
revspot4cy5	float
revspot5cy3	float
revspot5cy5	float
revspot6cy3	float
revspot6cy5	float
trimmean	float
revtrimmean	float
finalratio	float