RRL

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 [[!meta title="A cost effective 5' selective single cell transcriptome profiling approach with improved UMI design."]]
-[[!tag Fluidigm sequence_tags fingerprint method transcriptome LNA single_cell]]
+[[!tag Fluidigm sequence_tags fingerprint method transcriptome LNA single_cell template_switching]]
 
 Nucleic Acids Res. 2016 Dec 9. pii: gkw1242. doi:10.1093/nar/gkw1242
 

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    switching non-capped molecules by increasing dNTPs to 2 mM and
    Mg<sup>2+</sup> to 9 mM.
 
+### Effect of chemical composition of the TS oligonucleotide
+
+Originally, the TSOs were all-RNA.  Since this is expensive to synthesise,
+TSOs where only the last 3 bases are RNA became popular.   LNA was also tested
+as a replacement for RNA.
+
+ - [Picelli et al (2013)|biblio/24056875] reported a higher performance for
+   RRL compared to RRR, when preparing Smart-seq2 libraries.
+
+ - [Harbers et al (2013)|biblio/24079827] used the nanoCAGE protocol to compare
+   TSOs ending in RRR, DDD, DDL, DLL or LLL, and reported that only the RRR
+   TSOs had good efficiency (less PCR cycles needed to amplify the cDNAs) and had
+   the lowest amount of strand invastion artefacts.
+
+ - [Arguel et al (2017)|biblio/27940562] reported similar performance for
+   RRR and RRL, using a 5′-focused method similar to nanoCAGE or STRT.
+
 [[!inline pages="tagged(template_switching)" limit=0]]