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An
in situ hybridization method for detecting and specifically identifying
transcription of a multiplicity of different target sequences in a cell
is disclosed. The method includes assigning a different bar code to at
least five target sequences, with each target sequence containing at least
one predetermined subsequence. Each bar code contains at least one fluorochrome,
and at least one bar code comprises at least two different, spectrally
distinguishable fluorochromes. A probe set specific for each target sequence
is provided in the method. Each probe set contains a hybridization probe
complementary to each subsequence in the target sequence. Each probe is
labeled with a fluorochrome, and the fluorochromes in each probe set collectively
correspond to the bar code for the target sequence of that probe set.
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