~10 000 human genes (unique accession numbers)- one specific, prescreened 30-mer probe per gene, functionally validated. One set of housekeeping genes that may be used for baseline normalization. 68 bacterial control probes. 18 positive control probes to monitor cDNA and cRNA synthesis and array activity. 50 negative control probes to determine threshold and assess background. Six positive control bacterial spikes included in cDNA Synthesis Kit.
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.
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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