Alternative Splicing of RNA Triplets Is Often Regulated and Accelerates Proteome Evolution

Strict 3' splice site sequence requirements for U2 snRNP recruitment after U2AF binding underlie a genetic defect leading to autoimmune disease

(2011) A. Corrionero et al.   RNA

Sequence features involved in the mechanism of 3' splice junction wobbling

(2010) Kuo-Wang Tsai et al.   BMC MOLECULAR BIOLOGY

The Drosophila melanogaster transcriptome by paired-end RNA sequencing

(2010) B. Daines et al.   GENOME RESEARCH

The developmental transcriptome of Drosophila melanogaster

(2010) Brenton R. Graveley et al.   NATURE

Analysis and design of RNA sequencing experiments for identifying isoform regulation

(2010) Yarden Katz et al.   NATURE METHODS

Ensembl 2011

(2010) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: update 2011

(2010) P. A. Fujita et al.   NUCLEIC ACIDS RESEARCH

Binding Site Turnover Produces Pervasive Quantitative Changes in Transcription Factor Binding between Closely Related Drosophila Species

(2010) Robert K. Bradley et al.   PLOS BIOLOGY

Alternative Splicing at a NAGNAG Acceptor Site as a Novel Phenotype Modifier

(2010) Alexandre Hinzpeter et al.   PLoS Genetics

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

RNA and Disease

(2009) Thomas A. Cooper et al.   CELL

Splice site strength–dependent activity and genetic buffering by poly-G runs

(2009) Xinshu Xiao et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Accurate prediction of NAGNAG alternative splicing

(2009) Rileen Sinha et al.   NUCLEIC ACIDS RESEARCH

Transcriptome analysis by strand-specific sequencing of complementary DNA

(2009) Dmitri Parkhomchuk et al.   NUCLEIC ACIDS RESEARCH

Fast Statistical Alignment

(2009) Robert K. Bradley et al.   PLoS Computational Biology

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Selection against tandem splice sites affecting structured protein regions

(2008) Michael Hiller et al.   BMC EVOLUTIONARY BIOLOGY

Alternative splicing at NAGNAG acceptors in Arabidopsis thaliana SR and SR-related protein-coding genes

(2008) Stefanie Schindler et al.   BMC GENOMICS

Two wobble-splicing events affect ING4 protein subnuclear localization and degradation

(2008) K TSAI et al.   EXPERIMENTAL CELL RESEARCH

Alternative Splicing at NAGNAG Acceptor Sites Shares Common Properties in Land Plants and Mammals

(2008) K. Iida et al.   MOLECULAR BIOLOGY AND EVOLUTION

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

Pyruvate kinase M2 is a phosphotyrosine-binding protein

(2008) Heather R. Christofk et al.   NATURE

Assessing the fraction of short-distance tandem splice sites under purifying selection

(2008) M. Hiller et al.   RNA