ArticleNature communications2016
A survey of the sorghum transcriptome using single-molecule long reads.
Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 286 papers.
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Who cites it
286 citing papers in PubMed.
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- Full-length transcriptome atlas of porcine skeletal muscle reveals isoform-resolved genetic regulatory mechanisms for muscle growth.BMC genomics · 2026Article
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- TaPP2C-a5 fine-tunes wheat seed dormancy and germination with a Triticeae-specific, alternatively spliced transcript.Journal of advanced research · 2026Article
- A Comparative Analysis of Transcriptome-Wide Differential Gene Expression and Alternative Polyadenylation in the Ovaries of Meat Ducks and Laying Ducks.Animals : an open access journal from MDPI · 2026Article
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- Androgen induces 3'UTR shortening of de novo lipogenesis genes by alternative polyadenylation in prostate cancer cells.Science China. Life sciences · 2025Article
- Full-Length Transcriptome Analysis of Alternative Splicing and Polyadenylation in the Molecular Regulation of Labor Division inInternational journal of molecular sciences · 2025Article
- Integrating Full-Length and Second-Generation Transcriptomes to Elucidate the ApNPV-Induced Transcriptional Reprogramming inInsects · 2025Article
- In-depth single-cell transcriptomic exploration of the regenerative dynamics in stony coral.Communications biology · 2025Article
- Deciphering the genetic basis of sex differentiation in silver-lipped pearl oyster (Zoological research · 2025Article
- SSR markers development and their application in genetic diversity of burdock (Arctium lappa L.) germplasm.BMC plant biology · 2025Article
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- Integrated multi-omics analysis reveals the role of nitrogen application in seed storage protein metabolism and improvement of inferior grains in smooth bromegrass.Frontiers in plant science · 2025Article
- Full-length transcriptome sequencing and identification of skin colour-associated genes in red tilapia.Journal of genetics · 2025Article
- Transcriptome and WGCNA analysis revealed the molecular mechanism of drought resistance in new sugarcane varieties.Frontiers in plant science · 2025Article
226 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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.
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