From 1d4fc3d23294fb42d611b4eaf0fbede0d2a0568f Mon Sep 17 00:00:00 2001 From: Charles Plessy Date: Mon, 16 Apr 2018 14:22:04 +0900 Subject: [PATCH] RRL --- biblio/27940562.mdwn | 2 +- tags/template_switching.mdwn | 17 +++++++++++++++++ 2 files changed, 18 insertions(+), 1 deletion(-) diff --git a/biblio/27940562.mdwn b/biblio/27940562.mdwn index 716c3e99..d853c3d5 100644 --- a/biblio/27940562.mdwn +++ b/biblio/27940562.mdwn @@ -1,5 +1,5 @@ [[!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 diff --git a/tags/template_switching.mdwn b/tags/template_switching.mdwn index 0e6b0d8f..5712f8ee 100644 --- a/tags/template_switching.mdwn +++ b/tags/template_switching.mdwn @@ -16,4 +16,21 @@ switching non-capped molecules by increasing dNTPs to 2 mM and Mg2+ 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]] -- 2.47.3