Protocols:nanoCAGEscan
From FANTOM5_SSTAR
CAGEscan libraries are prepared using the nanoCAGE protocol, version 1.4 (OP-SOLEXA-nanoCAGE-Direct-v1.4), and sequenced paired-end according to standard procedures on Illumina Genome Analyzer IIx OP-Illumina-sequencing-PairedEnd-v3.0.
Post processing steps include:
- rRNA dust on ribosomal DNA repeating unit
- alignment of the CAGE reads with the genome
- 5'-end based aggregation of CAGE tags
