The Singapore Nanopore Expression (SG-NEx) project is an international collaboration to generate reference transcriptomes and a comprehensive benchmark data set for long read Nanopore RNA-Seq. Transcriptome profiling is done using PCR-cDNA sequencing (PCR-cDNA), amplification-free cDNA sequencing (direct cDNA), direct sequencing of native RNA (direct RNA), and short read RNA-Seq. The SG-NEx core data includes 5 of the most commonly used cell lines and it is extended with additional cell lines and samples that cover a broad range of human tissues. All core samples are sequenced with at least 3 high quality replicates. For a subset of samples spike-in RNAs are used and matched m6A profiling data is available.
Datasets will be updated periodically as additional data are generated.
The Genome Institute of Singapore (https://www.a-star.edu.sg/gis)
See all datasets managed by The Genome Institute of Singapore (https://www.a-star.edu.sg/gis).
The Singapore Nanopore Expression Data Set was accessed on
DATE from https://registry.opendata.aws/sgnex. In addition, please cite Chen et al. A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines. bioRxiv (2021). doi: https://doi.org/10.1101/2021.04.21.440736 when referencing the SG-NEx data in publications.
aws s3 ls --no-sign-request s3://sg-nex-data/