Lastly, we generated dRNA-seq data using the latest SQK-RNA004 sequencing kit released at the end of 2023 and found that although the overall read accuracy increased, the systematic errors remain largely identical compared to the previous kits.As the first systematic investigation of dRNA-seq ...
Despite the potential importance of TE-G transcripts in plant developmental traits and environmental responses, limitations of short-read RNA sequencing and a lack of bioinformatic pipelines have hindered the detection and comprehensive analyses of these transcripts in plants. The recent development of lon...
To improve the representation of the above ncRNAs, while maintaining the ability to sequence the poly(A) transcriptome, we developed the Non-coding Enriched RNA Direct sequencing approach called NERD-seq. In this modified approach (summarized in Fig.1B), we first separate PNK-treated total RNA ...
Direct RNA Sequencing KitOxford Nanopore TechnologiesSQK-RNA002 Deposited data Sequencing fromTresenrider et al. (2021)NCBIGEO:GSE140177 Experimental models: organisms/strains Species: S. cerevisiae Strain: SK1 Sex: MATa/MATalpha Genotype: pCUP1-IME1::NAT/pCUP1-IME1::NAT pCUP1-IME4::NAT/...
the Nanopore Direct RNA Sequencing kit Oxford Nanopore Technologies Cat # SQK-RNA002 E. coli polyA polymerase New England Biolabs Cat #M0276S QX200 ddPCR EvaGreen Supermix Bio-Rad Cat # 1864034 SuperscriptIII ThermoFisher Cat # 18080051 SuperscriptIV ThermoFisher Cat # 18090010 ddPCR Supermix fo...
2.2. Library Preparation and Sequencing Nanopore direct RNA sequencing: Direct RNA libraries were prepared according to the manufacturer's instructions (SQK-RNA002, Oxford Nanopore Technologies, Oxford, UK) and loaded onto R9.4.1 SpotON flow cells, then sequenced on the PromethION device for 72 ...
(described in Thermo Fisher’s RLM RACE protocol). The library was prepared following the direct RNA sequencing protocol from ONT for MinION (SQK-RNA002 ONT, Oxford, UK). Since CHV-1 is an RNA virus with a double strand replicative form, before beginning the protocol, all samples were ...
1D ligation library prep kit Oxford Nanopore Technologies Cat# SQK-LSK109 PromethION flow cell Oxford Nanopore Technologies Cat# FLO-PRO002 Infinium Global Screening Array-24 (GSA) v3.0 kit Illumina Cat# 20030770 Expand long range dNTPack kit Roche Cat# 04 829 034 001 TRIzol RNA isolation reag...