sharing flowcell/lanes

[cascoamarillo]

Hi all,

One basic question; is it possible to share one flowcell (7 diferent lanes + control) for HiSeq with paired-end library samples (6 lanes) and one sample of small RNA library (1 lane) which doen't require paired-end rxn?

I guess that maybe the small RNA library needs to be run as a paired-end; could this to be done with the small RNA adapters used in this thread and the HiSeq platform:

http://seqanswers.com/forums/showthread.php?t=198

Small RNA oligonucleotide sequences

RT Primer
5' CAAGCAGAAGACGGCATACGA

5' RNA Adapter
5' GUUCAGAGUUCUACAGUCCGACGAUC

3' RNA Adapter
5' P-UCGUAUGCCGUCUUCUGCUUGUidT

Small RNA PCR Primer 1
5' CAAGCAGAAGACGGCATACGA

Small RNA PCR Primer 2
5' AATGATACGGCGACCACCGACAGGTTCAGAGTTCTACAGTCCGA

Small RNA Sequencing Primer
5' CGACAGGTTCAGAGTTCTACAGTCCGACGATC

[cascoamarillo]

Ok, this is what I found:

Apparently, the adapters for original small RNA library are for single read (SR). The new TruSeq adapters are for paired end read (PE). So there is two types of flow cells (I didn't know that; I thought the difference was based on the chemistry) SE and PE; where SR adapter library can form cluster on SR flow cell ONLY, and PE adapter library can form cluster on both SR or PE flow cell.

But I don't really understand why SR library is not able to be clustered on a PE flow cell, the PE flow cell should have the same imbobilised oligos in the surface, shouldn't it?

Thanks.