nCounter Core Facility
For custom projects, probes for a Codeset are designed by nanostring bioinformaticians, on the basis of RefSeq ID’s. This format is available for 48 or 96 samples, or a multiple of 96 samples.
An nCounter Codeset contains:
1. Positive controls: these include a series of 10 RNA spiked in the Codeset and are used for internal QC and calibration.
2. Negative controls: a series of 7 probes against alien sequences that are used for QC purposes and for generation of background values.
Similar to RT PCR, probes for normalization genes must be included in the Codeset. These must be selected based on prior knowledge.
Data analysis by the nCounter Core Facility includes background correction, normalization and fold-change calculation.