Published in Nat Rev Mol Cell Biol on May 01, 2005
Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol (2011) 53.86
Alternative isoform regulation in human tissue transcriptomes. Nature (2008) 52.76
Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat Methods (2010) 10.13
Expansion of the eukaryotic proteome by alternative splicing. Nature (2010) 8.84
Regulation of alternative splicing by histone modifications. Science (2010) 7.98
Detection of splice junctions from paired-end RNA-seq data by SpliceMap. Nucleic Acids Res (2010) 6.95
Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. RNA (2008) 6.29
A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons. Genes Dev (2007) 5.83
CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing. Nature (2011) 5.50
RNA processing and its regulation: global insights into biological networks. Nat Rev Genet (2010) 5.34
ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing. Mol Cell (2009) 5.03
Reprogramming cellular behavior with RNA controllers responsive to endogenous proteins. Science (2010) 4.78
Ultraconserved elements are associated with homeostatic control of splicing regulators by alternative splicing and nonsense-mediated decay. Genes Dev (2007) 4.75
Evolutionary dynamics of gene and isoform regulation in Mammalian tissues. Science (2012) 4.52
Spliceosome structure and function. Cold Spring Harb Perspect Biol (2011) 4.01
General and specific functions of exonic splicing silencers in splicing control. Mol Cell (2006) 3.76
Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome. Genome Res (2010) 3.34
A postnatal switch of CELF and MBNL proteins reprograms alternative splicing in the developing heart. Proc Natl Acad Sci U S A (2008) 3.33
Comprehensive splice-site analysis using comparative genomics. Nucleic Acids Res (2006) 3.30
Crossregulation and functional redundancy between the splicing regulator PTB and its paralogs nPTB and ROD1. Mol Cell (2007) 3.22
Noisy splicing drives mRNA isoform diversity in human cells. PLoS Genet (2010) 3.19
Regulation of CD45 alternative splicing by heterogeneous ribonucleoprotein, hnRNPLL. Science (2008) 3.17
Alternative splicing at the intersection of biological timing, development, and stress responses. Plant Cell (2013) 2.63
Discovery and analysis of evolutionarily conserved intronic splicing regulatory elements. PLoS Genet (2007) 2.60
FIRMA: a method for detection of alternative splicing from exon array data. Bioinformatics (2008) 2.49
The RNA-binding protein Sam68 modulates the alternative splicing of Bcl-x. J Cell Biol (2007) 2.39
Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis. Nucleic Acids Res (2011) 2.26
Regulation of multiple core spliceosomal proteins by alternative splicing-coupled nonsense-mediated mRNA decay. Mol Cell Biol (2008) 2.25
Intragenic rearrangement and altered RNA splicing of the androgen receptor in a cell-based model of prostate cancer progression. Cancer Res (2011) 2.25
Position-dependent alternative splicing activity revealed by global profiling of alternative splicing events regulated by PTB. Nat Struct Mol Biol (2010) 2.19
A day in the life of the spliceosome. Nat Rev Mol Cell Biol (2014) 2.18
Expression of pro- and anti-angiogenic isoforms of VEGF is differentially regulated by splicing and growth factors. J Cell Sci (2008) 2.09
Polypyrimidine tract binding protein blocks the 5' splice site-dependent assembly of U2AF and the prespliceosomal E complex. Mol Cell (2005) 2.05
Function of alternative splicing. Gene (2012) 2.00
Global analysis of alternative splicing differences between humans and chimpanzees. Genes Dev (2007) 2.00
Splice site strength-dependent activity and genetic buffering by poly-G runs. Nat Struct Mol Biol (2009) 1.99
RBM20, a gene for hereditary cardiomyopathy, regulates titin splicing. Nat Med (2012) 1.97
Alternative splicing in plants--coming of age. Trends Plant Sci (2012) 1.93
Sequence conservation, relative isoform frequencies, and nonsense-mediated decay in evolutionarily conserved alternative splicing. Proc Natl Acad Sci U S A (2005) 1.93
Polypyrimidine tract binding protein controls the transition from exon definition to an intron defined spliceosome. Nat Struct Mol Biol (2008) 1.91
Dynamic regulation of alternative splicing by silencers that modulate 5' splice site competition. Cell (2008) 1.91
Defective splicing, disease and therapy: searching for master checkpoints in exon definition. Nucleic Acids Res (2006) 1.89
An inducible change in Fox-1/A2BP1 splicing modulates the alternative splicing of downstream neuronal target exons. Genes Dev (2009) 1.88
Modulating role of RNA structure in alternative splicing of a critical exon in the spinal muscular atrophy genes. Nucleic Acids Res (2006) 1.84
The emerging role of splicing factors in cancer. EMBO Rep (2008) 1.83
A cell-based screen for splicing regulators identifies hnRNP LL as a distinct signal-induced repressor of CD45 variable exon 4. RNA (2008) 1.82
Functional coordination of alternative splicing in the mammalian central nervous system. Genome Biol (2007) 1.80
FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis. Cell Res (2014) 1.80
Multiple and specific mRNA processing targets for the major human hnRNP proteins. Mol Cell Biol (2008) 1.78
Global analysis of mRNA splicing. RNA (2007) 1.77
Context-dependent regulatory mechanism of the splicing factor hnRNP L. Mol Cell (2010) 1.74
An integrative analysis of colon cancer identifies an essential function for PRPF6 in tumor growth. Genes Dev (2014) 1.73
The expanding transcriptome: the genome as the 'Book of Sand'. EMBO J (2006) 1.73
Alternative splicing of RNA triplets is often regulated and accelerates proteome evolution. PLoS Biol (2012) 1.71
Inference of splicing regulatory activities by sequence neighborhood analysis. PLoS Genet (2006) 1.71
The Fox-1 family and SUP-12 coordinately regulate tissue-specific alternative splicing in vivo. Mol Cell Biol (2007) 1.67
Fox-1 family of RNA-binding proteins. Cell Mol Life Sci (2009) 1.67
Common SNPs in HMGCR in micronesians and whites associated with LDL-cholesterol levels affect alternative splicing of exon13. Arterioscler Thromb Vasc Biol (2008) 1.63
Combinatorial control of signal-induced exon repression by hnRNP L and PSF. Mol Cell Biol (2007) 1.62
Intronic alternative splicing regulators identified by comparative genomics in nematodes. PLoS Comput Biol (2006) 1.59
A simple physical model predicts small exon length variations. PLoS Genet (2006) 1.59
A comprehensive computational characterization of conserved mammalian intronic sequences reveals conserved motifs associated with constitutive and alternative splicing. Genome Res (2007) 1.58
Global analysis of allele-specific expression in Arabidopsis thaliana. Genetics (2009) 1.58
The epithelial splicing factors ESRP1 and ESRP2 positively and negatively regulate diverse types of alternative splicing events. RNA Biol (2009) 1.57
RNA sequencing of cancer reveals novel splicing alterations. Sci Rep (2013) 1.57
A class of human exons with predicted distant branch points revealed by analysis of AG dinucleotide exclusion zones. Genome Biol (2006) 1.56
Evolution of an expanded sex-determining locus in Volvox. Science (2010) 1.55
Coevolutionary networks of splicing cis-regulatory elements. Proc Natl Acad Sci U S A (2007) 1.54
TGF-β drives epithelial-mesenchymal transition through δEF1-mediated downregulation of ESRP. Oncogene (2011) 1.53
Genome-wide analysis of alternative pre-mRNA splicing and RNA-binding specificities of the Drosophila hnRNP A/B family members. Mol Cell (2009) 1.52
Alternative splicing of the cyclin D1 proto-oncogene is regulated by the RNA-binding protein Sam68. Cancer Res (2009) 1.52
Observation of dually decoded regions of the human genome using ribosome profiling data. Genome Res (2012) 1.50
The search for alternative splicing regulators: new approaches offer a path to a splicing code. Genes Dev (2008) 1.50
A catalytically silent FAAH-1 variant drives anandamide transport in neurons. Nat Neurosci (2011) 1.50
Depolarization and CaM kinase IV modulate NMDA receptor splicing through two essential RNA elements. PLoS Biol (2007) 1.49
Tissue-specific splicing factor gene expression signatures. Nucleic Acids Res (2008) 1.49
Rbfox proteins regulate alternative mRNA splicing through evolutionarily conserved RNA bridges. Nat Struct Mol Biol (2013) 1.49
The splicing regulator Rbfox2 is required for both cerebellar development and mature motor function. Genes Dev (2012) 1.48
Sequence features responsible for intron retention in human. BMC Genomics (2007) 1.47
Transcriptome analyses of the human retina identify unprecedented transcript diversity and 3.5 Mb of novel transcribed sequence via significant alternative splicing and novel genes. BMC Genomics (2013) 1.46
Genome-wide analysis of alternative splicing in Caenorhabditis elegans. Genome Res (2010) 1.46
Nonsense-mediated RNA decay regulation by cellular stress: implications for tumorigenesis. Mol Cancer Res (2010) 1.44
A systematic analysis of intronic sequences downstream of 5' splice sites reveals a widespread role for U-rich motifs and TIA1/TIAL1 proteins in alternative splicing regulation. Genome Res (2008) 1.44
Exon silencing by UAGG motifs in response to neuronal excitation. PLoS Biol (2007) 1.43
Novel splicing factor RBM25 modulates Bcl-x pre-mRNA 5' splice site selection. Mol Cell Biol (2008) 1.41
Auto- and cross-regulation of the hnRNP L proteins by alternative splicing. Mol Cell Biol (2009) 1.41
Role for Fox-1/Fox-2 in mediating the neuronal pathway of calcitonin/calcitonin gene-related peptide alternative RNA processing. Mol Cell Biol (2006) 1.41
STAR family RNA-binding protein ASD-2 regulates developmental switching of mutually exclusive alternative splicing in vivo. Genes Dev (2008) 1.41
The roles of PARP1 in gene control and cell differentiation. Curr Opin Genet Dev (2010) 1.40
SRp20 is a proto-oncogene critical for cell proliferation and tumor induction and maintenance. Int J Biol Sci (2010) 1.40
DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements. Nat Genet (2013) 1.40
Factors Affecting the Radiosensitivity of Hexaploid Wheat to -Irradiation: Radiosensitivity of Hexaploid Wheat (Triticum aestivum L.). PLoS One (2016) 1.39
Sam68 regulates a set of alternatively spliced exons during neurogenesis. Mol Cell Biol (2008) 1.38
Mouse mammary tumor virus encodes a self-regulatory RNA export protein and is a complex retrovirus. J Virol (2005) 1.36
Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules. Nat Struct Mol Biol (2012) 1.36
Cross-kingdom patterns of alternative splicing and splice recognition. Genome Biol (2008) 1.36
A regulator of Dscam mutually exclusive splicing fidelity. Nat Struct Mol Biol (2007) 1.35
Exon expression profiling reveals stimulus-mediated exon use in neural cells. Genome Biol (2007) 1.35
Alternative splicing and biological heterogeneity in prostate cancer. Nat Rev Urol (2009) 1.33
Autoregulation of polypyrimidine tract binding protein by alternative splicing leading to nonsense-mediated decay. Mol Cell (2004) 4.13
ASD: the Alternative Splicing Database. Nucleic Acids Res (2004) 3.26
Crossregulation and functional redundancy between the splicing regulator PTB and its paralogs nPTB and ROD1. Mol Cell (2007) 3.22
Alternative splicing resulting in nonsense-mediated mRNA decay: what is the meaning of nonsense? Trends Biochem Sci (2008) 2.64
Conservation of human alternative splice events in mouse. Nucleic Acids Res (2003) 2.35
Novel modes of splicing repression by PTB. Trends Biochem Sci (2006) 2.27
Position-dependent alternative splicing activity revealed by global profiling of alternative splicing events regulated by PTB. Nat Struct Mol Biol (2010) 2.19
Alternative splicing: global insights. FEBS J (2010) 1.76
The PTB interacting protein raver1 regulates alpha-tropomyosin alternative splicing. EMBO J (2003) 1.68
The molecular basis for the lack of immunostimulatory activity of vertebrate DNA. J Immunol (2003) 1.67
Alternative splicing: combinatorial output from the genome. Curr Opin Chem Biol (2002) 1.61
A class of human exons with predicted distant branch points revealed by analysis of AG dinucleotide exclusion zones. Genome Biol (2006) 1.56
A peptide motif in Raver1 mediates splicing repression by interaction with the PTB RRM2 domain. Nat Struct Mol Biol (2006) 1.52
Antagonistic regulation of alpha-actinin alternative splicing by CELF proteins and polypyrimidine tract binding protein. RNA (2003) 1.47
Genome-wide association between branch point properties and alternative splicing. PLoS Comput Biol (2010) 1.24
A splicing repressor domain in polypyrimidine tract-binding protein. J Biol Chem (2005) 1.18
Regulated tissue-specific alternative splicing of enhanced green fluorescent protein transgenes conferred by alpha-tropomyosin regulatory elements in transgenic mice. J Biol Chem (2004) 1.17
Differential use of signal peptides and membrane domains is a common occurrence in the protein output of transcriptional units. PLoS Genet (2006) 1.12
Defining the roles and interactions of PTB. Biochem Soc Trans (2012) 1.10
A novel polypyrimidine tract-binding protein paralog expressed in smooth muscle cells. J Biol Chem (2003) 1.08
An apparent pseudo-exon acts both as an alternative exon that leads to nonsense-mediated decay and as a zero-length exon. Mol Cell Biol (2006) 1.07
Expression proteomics of UPF1 knockdown in HeLa cells reveals autoregulation of hnRNP A2/B1 mediated by alternative splicing resulting in nonsense-mediated mRNA decay. BMC Genomics (2010) 1.07
Stoichiometry of a regulatory splicing complex revealed by single-molecule analyses. EMBO J (2010) 1.05
Decoding muscle alternative splicing. Curr Opin Genet Dev (2011) 0.99
Tropomyosin exons as models for alternative splicing. Adv Exp Med Biol (2008) 0.99
Crystallographic analysis of polypyrimidine tract-binding protein-Raver1 interactions involved in regulation of alternative splicing. Structure (2011) 0.94
Expression of human nPTB is limited by extreme suboptimal codon content. PLoS One (2008) 0.92
A splicing silencer that regulates smooth muscle specific alternative splicing is active in multiple cell types. Nucleic Acids Res (2002) 0.92
Repression of alpha-actinin SM exon splicing by assisted binding of PTB to the polypyrimidine tract. RNA (2007) 0.91
A nonsense exon in the Tpm1 gene is silenced by hnRNP H and F. RNA (2008) 0.88
MBNL1 and PTB cooperate to repress splicing of Tpm1 exon 3. Nucleic Acids Res (2013) 0.88
Polypyrimidine tract binding protein regulates alternative splicing of an aberrant pseudoexon in NF1. FEBS J (2008) 0.83
Regulation of alternative pre-mRNA splicing. Methods Mol Biol (2014) 0.83
Visualization of alternative splicing in vivo. Methods (2005) 0.82
A pathway involving HDAC5, cFLIP and caspases regulates expression of the splicing regulator polypyrimidine tract binding protein in the heart. J Cell Sci (2013) 0.81
Diclofenac potassium liquid-filled soft gelatin capsules for the treatment of postbunionectomy pain. Curr Med Res Opin (2010) 0.81
Four exons of the serotonin receptor 4 gene are associated with multiple distant branch points. RNA (2010) 0.80
An assessment of the efficacy and safety of diclofenac potassium liquid-filled capsules in patients with various levels of baseline pain intensity. Curr Med Res Opin (2012) 0.80