CodeLink UniSet Rat I is designed for expression monitoring of a broad range of rat genes derived from NCBI and clustered to generate consensus sequences. Identifying patterns of differential mRNA expression over a large set of genes is an excellent method to identify targets, characterize action mechanisms, and make initial predictions of global drug effects. Well-annotated mRNA or coding sequences were chosen from the entire UniGene set to ensure usefulness to a large range of researchers in basic research, biotechnology, and drug development applications. Each sequence was carefully screened to reduce gene redundancy and to design high-quality specific probes.
CodeLink users can submit data to GEO by exporting tab-delimited text files from the CodeLink software. The "Feature_id" header will need to be renamed to "ID_REF", and the "Normalized_intensity" header to "VALUE" before uploading the exported tables.
In addition, users are encouraged to include additional raw data columns in their data uploads. These additional columns do not need to be renamed.
Classification of diet modified gene signatures at the colon cancer initiation and progression stages
Data table header descriptions
ID
LOGICAL_ROW
The logical row position of the spot.
LOGICAL_COL
The logical column position of the spot.
PROBE_NAME
The unique probe identifier. Each Probe Name is specific for a given oligonucleotide probe and is the primary identifier.
PROBE_TYPE
A classifier indicating the functional role of the oligonucleotide probe.
PUB_PROBE_TARGETS
A classifier describing the oligonucleotide probe to target relationship. SINGLE - the oligo uniquely targets a single transcript in the public domain. MULTIPLE - the oligo targets more than one transcript in the public domain. DUPLICATE - more than one oligo exists on the bioarray that target the same transcript.
SPOT_ID
An identifier for oligonucleotide probes that do not have a corresponding public reference.
GB_ACC
The NCBI GenBank accession number assigned to the target sequence.
GI
The NCBI GI number assigned to the target sequence.
GB_LIST
A comma delimited list of NCBI GenBank accession numbers for probes having more than one target transcript.
GI_LIST
A comma delimited list of NCBI GI numbers for probes having more than one target transcript.
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