Table 1 Datasets used for manual curation of P. falciparum lncRNA annotation
From: A manually curated annotation characterises genomic features of P. falciparum lncRNAs
Use | Dataset | Type | Reference | Accession |
|---|---|---|---|---|
Annotation | Pf nanopore 1 | Nanopore long read | This work | E-MTAB-11766 |
Pf nanopore 2 | Nanopore long read | Lee et al. [33] | Â | |
Contextual support | Pf short read | Illumina short read | This work | ERP104547 |
Pf transcription start site sequencing 1 | Illumina short read | Chappell et al. [31] | Â | |
Pf transcription start site sequencing 2 | Illumina short read | Kensche et al. [34] | Â | |
Pf transcription start site sequencing 3 | Illumina short read | Adjalley et al. [35] | Â | |
Pf ATAC-seq | Illumina short read | Ruiz et al. [36] | Â | |
Pf ncRNA calls | Illumina short read | Chappell et al. [31] | Â | |
Pf lncRNA annotation | Annotation | Broadbent et al. [21] | Â | |
Pf ncRNA annotation | Annotation | PlasmoDB [37] | Â | |
Comparative analysis | Pf lncRNA annotation | Annotation | Liao et al. [14] | Â |
Pf genes with antisense transcripts | Gene list | Siegel et al. [18] | Â | |
Pf ncRNA calls | Predicted transcripts | Chappell et al. [31] | Â | |
Pf lncRNA calls | Predicted transcripts | Yang et al. [32] | Â |