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We began analyzing https://www.nature.com/articles/ncomms11706, but it redirected us to https://www.nature.com/articles/ncomms11706. The analysis below is for the second page.

Title[redir]:
A survey of the sorghum transcriptome using single-molecule long reads | Nature Communications
Description:
Alternative splicing and alternative polyadenylation (APA) of pre-mRNAs greatly contribute to transcriptome diversity, coding capacity of a genome and gene regulatory mechanisms in eukaryotes. Second-generation sequencing technologies have been extensively used to analyse transcriptomes. However, a major limitation of short-read data is that it is difficult to accurately predict full-length splice isoforms. Here we sequenced the sorghum transcriptome using Pacific Biosciences single-molecule real-time long-read isoform sequencing and developed a pipeline called TAPIS (Transcriptome Analysis Pipeline for Isoform Sequencing) to identify full-length splice isoforms and APA sites. Our analysis reveals transcriptome-wide full-length isoforms at an unprecedented scale with over 11,000 novel splice isoforms. Additionally, we uncover APA of ∼11,000 expressed genes and more than 2,100 novel genes. These results greatly enhance sorghum gene annotations and aid in studying gene regulation in this important bioenergy crop. The TAPIS pipeline will serve as a useful tool to analyse Iso-Seq data from any organism. Alternative splicing and alternative polyadenylation (APA) contribute to mRNA diversity but are difficult to assess using short read RNA-seq data. Here, the authors use single molecule long-read isoform sequencing and develop a computational pipeline to identify full-length splice isoforms and APA sites in sorghum.

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Keywords {🔍}

genes, reads, splice, article, isoseq, data, isoforms, google, scholar, sorghum, polya, cas, gene, alternative, analysis, splicing, sequencing, sites, apa, transcriptome, transcripts, events, site, supplementary, fulllength, genome, polyadenylation, plant, annotated, fig, plants, transcript, read, shown, nature, isoform, pipeline, found, pcr, length, cdna, size, detected, number, rna, cleavage, long, tapis, sequence, total,

Topics {✒️}

org/pub/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot nature portfolio /pacificbiosciences/cdna_primer/wiki/understanding-pacbio-transcriptome-data org/info/website/ftp/index term=%22sorghum+bicolor%22%5bporgn%3a__txid4558%5d privacy policy bio-fuel crops research serine/arginine-rich pre-mrnas9 plant research community advertising arabidopsis serine/arginine-rich proteins nl/cgi-bin/primer3plus/primer3plus nature biotechnol open source package single-molecule long-read survey broader scientific community 000 --library-type ff-firststrand nature nature 457 nature 508 environmental research shorter high-throughput sequencing 0/ reprints length-88 rna-seq libraries recent high-throughput studies large-scale rna-seq studies transcriptome-wide full-length isoforms middle africa single-molecule long reads research trigger nonsense-mediated decay long-terminal repeat retrotransposons long-terminal repeat transposons stress-regulated post-transcriptional splicing open boxes rna-seq analyses reveal pre-mrnas including auto short-read data obtained short-read illumina data illumina short-read data full-length transcriptome profiling molecular plant biology typical rna-seq experiment iso-seq protocol offer iso-seq protocol referenced high-throughput sequencing social media deep rna-seq datasets smrtbell template libraries

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      headline:A survey of the sorghum transcriptome using single-molecule long reads
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