Comprehensive analysis of RNA-seq data reveals the complexity of the transcriptome in Brassica rapa

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Genome-Wide Landscape of Alternative Splicing Events in Brachypodium distachyon

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A perspective on mammalian upstream open reading frame function

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Unproductive alternative splicing and nonsense mRNAs: A widespread phenomenon among plant circadian clock genes

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Transcriptome survey reveals increased complexity of the alternative splicing landscape inArabidopsis

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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

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Predicting the Impact of Alternative Splicing on Plant MADS Domain Protein Function

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Splice variant of the SND1 transcription factor is a dominant negative of SND1 members and their regulation in Populus trichocarpa

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The genome of the mesopolyploid crop species Brassica rapa

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Functional consequences of developmentally regulated alternative splicing

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Extensive changes to alternative splicing patterns following allopolyploidy in natural and resynthesized polyploids

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Genome-wide analysis of alternative splicing in Chlamydomonas reinhardtii

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Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome

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Extensive Divergence in Alternative Splicing Patterns after Gene and Genome Duplication During the Evolutionary History of Arabidopsis

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The developmental transcriptome of Drosophila melanogaster

(2010) Brenton R. Graveley et al.   NATURE

Expansion of the eukaryotic proteome by alternative splicing

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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

The developmental dynamics of the maize leaf transcriptome

(2010) Pinghua Li et al.   NATURE GENETICS

RNA sequencing: advances, challenges and opportunities

(2010) Fatih Ozsolak et al.   NATURE REVIEWS GENETICS

Survey of the transcriptome of Aspergillus oryzae via massively parallel mRNA sequencing

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Sequence and structure of Brassica rapa chromosome A3

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Bias in Plant Gene Content Following Different Sorts of Duplication: Tandem, Whole-Genome, Segmental, or by Transposition

(2009) Michael Freeling   Annual Review of Plant Biology

TopHat: discovering splice junctions with RNA-Seq

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Genome-wide mapping of alternative splicing in Arabidopsis thaliana

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The first generation of a BAC-based physical map of Brassica rapa

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RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

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Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

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Genome-wide analysis of transcript isoform variation in humans

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Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

(2008) Qun Pan et al.   NATURE GENETICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Characterization and comparison of intron structure and alternative splicing between Medicago truncatula, Populus trichocarpa, Arabidopsis and rice

(2008) Jong-Min Baek et al.   PLANT MOLECULAR BIOLOGY

A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome

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