Protocols:nanoCAGEscan: Difference between revisions
From FANTOM5_SSTAR
(Created page with "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 Illumin...") |
No edit summary |
||
| (One intermediate revision by the same user not shown) | |||
| Line 1: | Line 1: | ||
CAGEscan libraries are prepared using the nanoCAGE protocol | CAGEscan libraries are prepared using the nanoCAGE protocol [[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: | Post processing steps include: | ||
| Line 5: | Line 5: | ||
*alignment of the CAGE reads with the genome | *alignment of the CAGE reads with the genome | ||
*5'-end based aggregation of CAGE tags | *5'-end based aggregation of CAGE tags | ||
These steps above are same as the ones for the HeliScope protocol. | |||
Latest revision as of 13:02, 31 August 2012
CAGEscan libraries are prepared using the nanoCAGE protocol 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
These steps above are same as the ones for the HeliScope protocol.
