Oligoarray comparative genomic hybridisation-mediated mapping of suppressors of an essential receptor tyrosine kinase generated in a deletion-biased mutagenesis screen
Data table header descriptions
ID
PROBE_DESIGN_ID
This a unique, composite key consisting of the DESIGN ID, ROW NUM and COL NUM.
CONTAINER
NimbleGen arrays are divided into containers. One method of using containers is to divide the array into quadrants with reference marks. Will be used as ‘GENE EXPR OPTION’ for PAIR and CALLS reports.
DESIGN_NOTE
A comment field suitable for placing information necessary for data analysis, for instance if you want to analyze sets of probes and/or genes together that don’t separate out using SEQ ID, PROBE ID, SELECTION CRITERIA, CONTAINER, or other information.
SELECTION_CRITERIA
Generally contains information about how a probe was selected. For rank selection, contains rank, uniqueness, and frequency. For older designs, will contain a criteria category.
SEQ_ID
The NimbleGen sequence identifier. Used to group the probe pairs together for determing gene expression summary values.
SEQUENCE
The DNA sequence synthesized on the array. Always shown 5’ to 3’.
MISMATCH
The mismatch index of the PROBE SEQUENCE. This will be 0 (for the perfect match probe), 1 for the first mismatch, 2 for the next, etc.
MATCH_INDEX
Integer number that ties probe pairs together. Using the combination of MATCH INDEX and MISMATCH you can retrieve and distinguish the members of the probe pair.
FEATURE_ID
Unsigned Integer that uniquely identifies a feature. A feature is the set of probes on the array that are to be considered as one entity. A 4:9 array will have 4 probes with the same FEATURE ID.
ROW_NUM
The Y or row coordinate of the feature in the CONTAINER.
COL_NUM
The X or column coordinate of the feature in the CONTAINER.
PROBE_CLASS
Designates probe purpose.
POSITION
Position of the PROBE SEQUENCE in the sequence/region of interest, starting from the left/5’ end.
DESIGN_ID
This is the NimbleGen identifier for the design.
X
The X or column coordinate of the feature in the design.
Y
The Y or row coordinate of the feature in the design.