Ultraconserved elements are associated with homeostatic control of splicing regulators by alternative splicing and nonsense-mediated decay.

PubWeight™: 4.75‹?› | Rank: Top 1%

🔗 View Article (PMC 1820944)

Published in Genes Dev on March 15, 2007

Authors

Julie Z Ni1, Leslie Grate, John Paul Donohue, Christine Preston, Naomi Nobida, Georgeann O'Brien, Lily Shiue, Tyson A Clark, John E Blume, Manuel Ares

Author Affiliations

1: Center for Molecular Biology of RNA and Department of Molecular, Cell, and Developmental Biology, University of California at Santa Cruz, Santa Cruz, California 95064, USA.

Articles citing this

(truncated to the top 100)

Frequent pathway mutations of splicing machinery in myelodysplasia. Nature (2011) 11.44

The MicroRNA miR-124 promotes neuronal differentiation by triggering brain-specific alternative pre-mRNA splicing. Mol Cell (2007) 7.99

Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. RNA (2008) 6.29

Transposable elements and the evolution of regulatory networks. Nat Rev Genet (2008) 6.11

A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons. Genes Dev (2007) 5.83

RNA processing and its regulation: global insights into biological networks. Nat Rev Genet (2010) 5.34

Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts. Genome Res (2008) 3.33

Functional consequences of developmentally regulated alternative splicing. Nat Rev Genet (2011) 3.27

Upf1 phosphorylation triggers translational repression during nonsense-mediated mRNA decay. Cell (2008) 3.26

Crossregulation and functional redundancy between the splicing regulator PTB and its paralogs nPTB and ROD1. Mol Cell (2007) 3.22

Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy. Nat Struct Mol Biol (2010) 3.07

The multiple lives of NMD factors: balancing roles in gene and genome regulation. Nat Rev Genet (2008) 3.00

TDP-43 regulates its mRNA levels through a negative feedback loop. EMBO J (2010) 2.90

Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins. Cell Rep (2012) 2.76

The immediate early gene arc/arg3.1: regulation, mechanisms, and function. J Neurosci (2008) 2.73

Complexity of the alternative splicing landscape in plants. Plant Cell (2013) 2.62

Organizing principles of mammalian nonsense-mediated mRNA decay. Annu Rev Genet (2013) 2.55

Diverse roles of hnRNP L in mammalian mRNA processing: a combined microarray and RNAi analysis. RNA (2007) 2.48

The Arc of synaptic memory. Exp Brain Res (2009) 2.30

Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis. Nucleic Acids Res (2011) 2.26

NMD is essential for hematopoietic stem and progenitor cells and for eliminating by-products of programmed DNA rearrangements. Genes Dev (2008) 2.26

Regulation of multiple core spliceosomal proteins by alternative splicing-coupled nonsense-mediated mRNA decay. Mol Cell Biol (2008) 2.25

Dynamic integration of splicing within gene regulatory pathways. Cell (2013) 2.25

Context-dependent control of alternative splicing by RNA-binding proteins. Nat Rev Genet (2014) 2.17

RNA-RNA interactions enable specific targeting of noncoding RNAs to nascent Pre-mRNAs and chromatin sites. Cell (2014) 2.13

Global analysis of alternative splicing differences between humans and chimpanzees. Genes Dev (2007) 2.00

Alternative splicing in plants--coming of age. Trends Plant Sci (2012) 1.93

The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes. Genome Biol (2012) 1.82

Global impact of RNA polymerase II elongation inhibition on alternative splicing regulation. Genome Res (2010) 1.80

Muscleblind-like 2-mediated alternative splicing in the developing brain and dysregulation in myotonic dystrophy. Neuron (2012) 1.78

SF2/ASF autoregulation involves multiple layers of post-transcriptional and translational control. Nat Struct Mol Biol (2010) 1.78

Global analysis of mRNA splicing. RNA (2007) 1.77

Widespread impact of nonsense-mediated mRNA decay on the yeast intronome. Mol Cell (2008) 1.72

How cells get the message: dynamic assembly and function of mRNA-protein complexes. Nat Rev Genet (2013) 1.67

Nonsense-mediated mRNA decay: an intricate machinery that shapes transcriptomes. Nat Rev Mol Cell Biol (2015) 1.61

Regulation of alternative splicing by the core spliceosomal machinery. Genes Dev (2011) 1.60

Regulation of nonsense-mediated mRNA decay: implications for physiology and disease. Biochim Biophys Acta (2013) 1.59

Smg1 is required for embryogenesis and regulates diverse genes via alternative splicing coupled to nonsense-mediated mRNA decay. Proc Natl Acad Sci U S A (2010) 1.59

PSD-95 is post-transcriptionally repressed during early neural development by PTBP1 and PTBP2. Nat Neurosci (2012) 1.58

A high-throughput screening strategy identifies cardiotonic steroids as alternative splicing modulators. Proc Natl Acad Sci U S A (2008) 1.56

Sam68 regulates EMT through alternative splicing-activated nonsense-mediated mRNA decay of the SF2/ASF proto-oncogene. J Cell Biol (2010) 1.55

A splicing-independent function of SF2/ASF in microRNA processing. Mol Cell (2010) 1.55

Regulation of splicing by SR proteins and SR protein-specific kinases. Chromosoma (2013) 1.53

Identification of nuclear and cytoplasmic mRNA targets for the shuttling protein SF2/ASF. PLoS One (2008) 1.51

SRSF2 Mutations Contribute to Myelodysplasia by Mutant-Specific Effects on Exon Recognition. Cancer Cell (2015) 1.51

Splicing factor hnRNPH drives an oncogenic splicing switch in gliomas. EMBO J (2011) 1.49

Disrupted auto-regulation of the spliceosomal gene SNRPB causes cerebro-costo-mandibular syndrome. Nat Commun (2014) 1.46

Nutritional control of mRNA isoform expression during developmental arrest and recovery in C. elegans. Genome Res (2012) 1.46

Genome-wide identification of alternative splice forms down-regulated by nonsense-mediated mRNA decay in Drosophila. PLoS Genet (2009) 1.46

Loss of exon identity is a common mechanism of human inherited disease. Genome Res (2011) 1.44

Nonsense-mediated RNA decay regulation by cellular stress: implications for tumorigenesis. Mol Cancer Res (2010) 1.44

Alternative splicing and tumor progression. Curr Genomics (2008) 1.43

Misregulated RNA processing in amyotrophic lateral sclerosis. Brain Res (2012) 1.42

Inhibition of nonsense-mediated RNA decay by the tumor microenvironment promotes tumorigenesis. Mol Cell Biol (2011) 1.42

Alternative splicing regulation during C. elegans development: splicing factors as regulated targets. PLoS Genet (2008) 1.41

Auto- and cross-regulation of the hnRNP L proteins by alternative splicing. Mol Cell Biol (2009) 1.41

The significant other: splicing by the minor spliceosome. Wiley Interdiscip Rev RNA (2012) 1.40

Global analyses of UPF1 binding and function reveal expanded scope of nonsense-mediated mRNA decay. Genome Res (2013) 1.39

Cell-to-cell variability of alternative RNA splicing. Mol Syst Biol (2011) 1.38

High resolution transcriptome maps for wild-type and nonsense-mediated decay-defective Caenorhabditis elegans. Genome Biol (2009) 1.36

Autoregulation of Fox protein expression to produce dominant negative splicing factors. RNA (2009) 1.34

Mammalian tissues defective in nonsense-mediated mRNA decay display highly aberrant splicing patterns. Genome Biol (2012) 1.34

The role of AUF1 in regulated mRNA decay. Wiley Interdiscip Rev RNA (2011) 1.34

Autoregulation of TDP-43 mRNA levels involves interplay between transcription, splicing, and alternative polyA site selection. Genes Dev (2012) 1.33

Detained introns are a novel, widespread class of post-transcriptionally spliced introns. Genes Dev (2015) 1.31

Non-coding RNAs: a key to future personalized molecular therapy? Genome Med (2010) 1.29

Antagonistic factors control the unproductive splicing of SC35 terminal intron. Nucleic Acids Res (2009) 1.28

NeuN/Rbfox3 nuclear and cytoplasmic isoforms differentially regulate alternative splicing and nonsense-mediated decay of Rbfox2. PLoS One (2011) 1.27

A computational approach for genome-wide mapping of splicing factor binding sites. Genome Biol (2009) 1.25

Proteins associated with the exon junction complex also control the alternative splicing of apoptotic regulators. Mol Cell Biol (2011) 1.24

An ultraconserved Hox-Pbx responsive element resides in the coding sequence of Hoxa2 and is active in rhombomere 4. Nucleic Acids Res (2008) 1.22

Neuronal regulation of pre-mRNA splicing by polypyrimidine tract binding proteins, PTBP1 and PTBP2. Crit Rev Biochem Mol Biol (2012) 1.20

Nonsense-mediated decay of alternative precursor mRNA splicing variants is a major determinant of the Arabidopsis steady state transcriptome. Plant Cell (2013) 1.19

Involvement of the nuclear cap-binding protein complex in alternative splicing in Arabidopsis thaliana. Nucleic Acids Res (2009) 1.19

Rbfox2 controls autoregulation in RNA-binding protein networks. Genes Dev (2014) 1.18

Entropy measures quantify global splicing disorders in cancer. PLoS Comput Biol (2008) 1.18

Identification of evolutionarily conserved exons as regulated targets for the splicing activator tra2β in development. PLoS Genet (2011) 1.17

Quaking and PTB control overlapping splicing regulatory networks during muscle cell differentiation. RNA (2013) 1.17

High-throughput quantification of splicing isoforms. RNA (2009) 1.16

Networking in a global world: establishing functional connections between neural splicing regulators and their target transcripts. RNA (2011) 1.14

Identification of hundreds of novel UPF1 target transcripts by direct determination of whole transcriptome stability. RNA Biol (2012) 1.13

A dynamic alternative splicing program regulates gene expression during terminal erythropoiesis. Nucleic Acids Res (2014) 1.13

Rescue of nonsense mutations by amlexanox in human cells. Orphanet J Rare Dis (2012) 1.13

Building robust transcriptomes with master splicing factors. Cell (2014) 1.12

Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mRNA decay. BMC Biol (2009) 1.11

Alternative pre-mRNA splicing in neurons: growing up and extending its reach. Trends Genet (2013) 1.09

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

Lariat sequencing in a unicellular yeast identifies regulated alternative splicing of exons that are evolutionarily conserved with humans. Proc Natl Acad Sci U S A (2013) 1.07

Global analysis reveals SRp20- and SRp75-specific mRNPs in cycling and neural cells. Nat Struct Mol Biol (2010) 1.05

The RNAissance family: SR proteins as multifaceted regulators of gene expression. Wiley Interdiscip Rev RNA (2014) 1.05

RBM4 down-regulates PTB and antagonizes its activity in muscle cell-specific alternative splicing. J Cell Biol (2011) 1.04

Widespread use of non-productive alternative splice sites in Saccharomyces cerevisiae. PLoS Genet (2014) 1.03

NOVA-dependent regulation of cryptic NMD exons controls synaptic protein levels after seizure. Elife (2013) 1.03

Exon identity crisis: disease-causing mutations that disrupt the splicing code. Genome Biol (2014) 1.02

The animal in the genome: comparative genomics and evolution. Philos Trans R Soc Lond B Biol Sci (2008) 1.02

Frac-seq reveals isoform-specific recruitment to polyribosomes. Genome Res (2013) 1.01

FUS regulates genes coding for RNA-binding proteins in neurons by binding to their highly conserved introns. RNA (2013) 1.01

Domestication of transposable elements into MicroRNA genes in plants. PLoS One (2011) 1.01

Transcription signatures encoded by ultraconserved genomic regions in human prostate cancer. Mol Cancer (2013) 1.01

Proofreading and spellchecking: a two-tier strategy for pre-mRNA splicing quality control. RNA (2011) 1.00

Articles cited by this

Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet (2000) 336.52

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res (2005) 44.08

The UCSC Genome Browser Database. Nucleic Acids Res (2003) 32.84

Mechanisms of alternative pre-messenger RNA splicing. Annu Rev Biochem (2003) 21.11

GenBank. Nucleic Acids Res (2005) 19.25

Ultraconserved elements in the human genome. Science (2004) 17.14

Repbase update: a database and an electronic journal of repetitive elements. Trends Genet (2000) 16.94

Predictive identification of exonic splicing enhancers in human genes. Science (2002) 16.86

Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr Opin Genet Dev (1999) 14.64

Characterizing gene sets with FuncAssociate. Bioinformatics (2003) 14.10

Understanding alternative splicing: towards a cellular code. Nat Rev Mol Cell Biol (2005) 13.21

Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humans. Proc Natl Acad Sci U S A (2002) 10.28

A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci (1998) 9.06

Systematic identification and analysis of exonic splicing silencers. Cell (2004) 8.50

Nova regulates brain-specific splicing to shape the synapse. Nat Genet (2005) 6.58

Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays. Science (2002) 6.52

Nonsense surveillance regulates expression of diverse classes of mammalian transcripts and mutes genomic noise. Nat Genet (2004) 6.14

Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss. Nat Genet (2003) 6.09

A distal enhancer and an ultraconserved exon are derived from a novel retroposon. Nature (2006) 5.98

The exon-exon junction complex provides a binding platform for factors involved in mRNA export and nonsense-mediated mRNA decay. EMBO J (2001) 5.69

Binding of a novel SMG-1-Upf1-eRF1-eRF3 complex (SURF) to the exon junction complex triggers Upf1 phosphorylation and nonsense-mediated mRNA decay. Genes Dev (2006) 5.59

Human Upf proteins target an mRNA for nonsense-mediated decay when bound downstream of a termination codon. Cell (2000) 5.54

Identification and analysis of alternative splicing events conserved in human and mouse. Proc Natl Acad Sci U S A (2005) 5.26

The birth of an alternatively spliced exon: 3' splice-site selection in Alu exons. Science (2003) 5.04

Intronic sequences flanking alternatively spliced exons are conserved between human and mouse. Genome Res (2003) 5.01

Evidence for a pioneer round of mRNA translation: mRNAs subject to nonsense-mediated decay in mammalian cells are bound by CBP80 and CBP20. Cell (2001) 4.92

Unusual intron conservation near tissue-regulated exons found by splicing microarrays. PLoS Comput Biol (2006) 4.63

Nonsense-mediated mRNA decay: molecular insights and mechanistic variations across species. Curr Opin Cell Biol (2005) 4.45

Transcriptome and genome conservation of alternative splicing events in humans and mice. Pac Symp Biocomput (2004) 4.25

Communication of the position of exon-exon junctions to the mRNA surveillance machinery by the protein RNPS1. Science (2001) 4.20

Autoregulation of polypyrimidine tract binding protein by alternative splicing leading to nonsense-mediated decay. Mol Cell (2004) 4.13

Role of the nonsense-mediated decay factor hUpf3 in the splicing-dependent exon-exon junction complex. Science (2001) 4.06

Mammalian Staufen1 recruits Upf1 to specific mRNA 3'UTRs so as to elicit mRNA decay. Cell (2005) 4.02

Mechanistic links between nonsense-mediated mRNA decay and pre-mRNA splicing in mammalian cells. Curr Opin Cell Biol (2005) 3.99

Separable roles for rent1/hUpf1 in altered splicing and decay of nonsense transcripts. Science (2002) 3.84

How prevalent is functional alternative splicing in the human genome? Trends Genet (2004) 3.81

Pre-mRNA splicing alters mRNP composition: evidence for stable association of proteins at exon-exon junctions. Genes Dev (2000) 3.74

SC35 autoregulates its expression by promoting splicing events that destabilize its mRNAs. EMBO J (2001) 3.55

Positive autoregulation of sex-lethal by alternative splicing maintains the female determined state in Drosophila. Cell (1991) 3.43

Quantitative microarray profiling provides evidence against widespread coupling of alternative splicing with nonsense-mediated mRNA decay to control gene expression. Genes Dev (2006) 3.18

Targeted disruption of an essential vertebrate gene: ASF/SF2 is required for cell viability. Genes Dev (1996) 2.99

Gene structure-based splice variant deconvolution using a microarray platform. Bioinformatics (2003) 2.97

Nonsense-mediated mRNA decay in mammals. J Cell Sci (2005) 2.84

A strategy for disease gene identification through nonsense-mediated mRNA decay inhibition. Nat Biotechnol (2001) 2.82

SRprises along a messenger's journey. Mol Cell (2005) 2.81

The splicing factor SRp20 modifies splicing of its own mRNA and ASF/SF2 antagonizes this regulation. EMBO J (1997) 2.43

The role of Upf proteins in modulating the translation read-through of nonsense-containing transcripts. EMBO J (2001) 2.23

Human tra2-beta1 autoregulates its protein concentration by influencing alternative splicing of its pre-mRNA. Hum Mol Genet (2004) 2.23

TIA-1 and TIAR activate splicing of alternative exons with weak 5' splice sites followed by a U-rich stretch on their own pre-mRNAs. J Biol Chem (2001) 1.96

Sequence conservation, relative isoform frequencies, and nonsense-mediated decay in evolutionarily conserved alternative splicing. Proc Natl Acad Sci U S A (2005) 1.93

The pioneer translation initiation complex is functionally distinct from but structurally overlaps with the steady-state translation initiation complex. Genes Dev (2004) 1.93

Complexes between the nonsense-mediated mRNA decay pathway factor human upf1 (up-frameshift protein 1) and essential nonsense-mediated mRNA decay factors in HeLa cells. Biochem J (2003) 1.74

Evolutionary conservation of a 2-kb intronic sequence flanking a tissue-specific alternative exon in the PTBP2 gene. Genomics (2004) 1.56

eIF4G is required for the pioneer round of translation in mammalian cells. Nat Struct Mol Biol (2004) 1.54

Alternative splicing of brain-specific PTB defines a tissue-specific isoform pattern that predicts distinct functional roles. Genomics (2002) 1.34

SRp30c is a repressor of 3' splice site utilization. Mol Cell Biol (2002) 1.16

Polyamine-regulated unproductive splicing and translation of spermidine/spermine N1-acetyltransferase. RNA (2006) 1.07

Articles by these authors

HITS-CLIP yields genome-wide insights into brain alternative RNA processing. Nature (2008) 14.17

Direct detection of DNA methylation during single-molecule, real-time sequencing. Nat Methods (2010) 9.75

An RNA gene expressed during cortical development evolved rapidly in humans. Nature (2006) 7.23

Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays. Science (2002) 6.52

Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43. Nat Neurosci (2011) 6.01

A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons. Genes Dev (2007) 5.83

Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array. BMC Genomics (2006) 5.59

Discovery of tissue-specific exons using comprehensive human exon microarrays. Genome Biol (2007) 5.53

Unusual intron conservation near tissue-regulated exons found by splicing microarrays. PLoS Comput Biol (2006) 4.63

A genome-wide approach to identify genetic variants that contribute to etoposide-induced cytotoxicity. Proc Natl Acad Sci U S A (2007) 4.35

Evaluation of genetic variation contributing to differences in gene expression between populations. Am J Hum Genet (2008) 4.01

Accumulation of unstable promoter-associated transcripts upon loss of the nuclear exosome subunit Rrp6p in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A (2006) 3.49

Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing. Nat Biotechnol (2012) 3.39

Genetic architecture of transcript-level variation in humans. Am J Hum Genet (2008) 3.36

Detection and measurement of alternative splicing using splicing-sensitive microarrays. Methods (2005) 3.21

The methylomes of six bacteria. Nucleic Acids Res (2012) 3.19

Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy. Nat Struct Mol Biol (2010) 3.07

Identification of genetic variants contributing to cisplatin-induced cytotoxicity by use of a genomewide approach. Am J Hum Genet (2007) 3.05

Gene structure-based splice variant deconvolution using a microarray platform. Bioinformatics (2003) 2.97

Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome. Nucleic Acids Res (2004) 2.94

Divergent roles of ALS-linked proteins FUS/TLS and TDP-43 intersect in processing long pre-mRNAs. Nat Neurosci (2012) 2.93

Heritability of alternative splicing in the human genome. Genome Res (2007) 2.76

Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins. Cell Rep (2012) 2.76

Perturbation of transcription elongation influences the fidelity of internal exon inclusion in Saccharomyces cerevisiae. RNA (2003) 2.36

Expanding the diversity of mycobacteriophages: insights into genome architecture and evolution. PLoS One (2011) 2.29

Position-dependent alternative splicing activity revealed by global profiling of alternative splicing events regulated by PTB. Nat Struct Mol Biol (2010) 2.19

The splicing regulator Rbfox1 (A2BP1) controls neuronal excitation in the mammalian brain. Nat Genet (2011) 2.10

Identification of common genetic variants that account for transcript isoform variation between human populations. Hum Genet (2008) 1.96

A correlation with exon expression approach to identify cis-regulatory elements for tissue-specific alternative splicing. Nucleic Acids Res (2007) 1.94

Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation. Proc Natl Acad Sci U S A (2010) 1.93

Sensitive and specific single-molecule sequencing of 5-hydroxymethylcytosine. Nat Methods (2011) 1.90

Purification of RNA using TRIzol (TRI reagent). Cold Spring Harb Protoc (2010) 1.89

ANOSVA: a statistical method for detecting splice variation from expression data. Bioinformatics (2005) 1.88

Exploring functional relationships between components of the gene expression machinery. Nat Struct Mol Biol (2005) 1.87

Exon-level microarray analyses identify alternative splicing programs in breast cancer. Mol Cancer Res (2010) 1.84

Crystal structures of EF-G-ribosome complexes trapped in intermediate states of translocation. Science (2013) 1.84

Muscleblind-like 2-mediated alternative splicing in the developing brain and dysregulation in myotonic dystrophy. Neuron (2012) 1.78

Prp43p is a DEAH-box spliceosome disassembly factor essential for ribosome biogenesis. Mol Cell Biol (2006) 1.64

Competition between pre-mRNAs for the splicing machinery drives global regulation of splicing. Mol Cell (2013) 1.62

Human transcriptome array for high-throughput clinical studies. Proc Natl Acad Sci U S A (2011) 1.62

Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases. Genome Res (2012) 1.59

Genome-wide analysis reveals SR protein cooperation and competition in regulated splicing. Mol Cell (2013) 1.56

Rearrangement of competing U2 RNA helices within the spliceosome promotes multiple steps in splicing. Genes Dev (2007) 1.53

Polyacrylamide gel electrophoresis of RNA. Cold Spring Harb Protoc (2010) 1.51

The splicing regulator Rbfox2 is required for both cerebellar development and mature motor function. Genes Dev (2012) 1.48

Competencies: a cure for pre-med curriculum. Science (2011) 1.47

ATP requirement for Prp5p function is determined by Cus2p and the structure of U2 small nuclear RNA. Proc Natl Acad Sci U S A (2003) 1.43

Structural RNAs of known and unknown function identified in malaria parasites by comparative genomics and RNA analysis. RNA (2007) 1.40

Sam68 regulates a set of alternatively spliced exons during neurogenesis. Mol Cell Biol (2008) 1.38

Removal of a single alpha-tubulin gene intron suppresses cell cycle arrest phenotypes of splicing factor mutations in Saccharomyces cerevisiae. Mol Cell Biol (2002) 1.36

Analysis of alternative splicing associated with aging and neurodegeneration in the human brain. Genome Res (2011) 1.35

The structure of a rigorously conserved RNA element within the SARS virus genome. PLoS Biol (2004) 1.35

Comprehensive methylome characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at single-base resolution. PLoS Genet (2013) 1.32

Alternative pre-mRNA splicing switches modulate gene expression in late erythropoiesis. Blood (2009) 1.25

Searching yeast intron data at Ares lab Web site. Methods Enzymol (2002) 1.21

Cell type and culture condition-dependent alternative splicing in human breast cancer cells revealed by splicing-sensitive microarrays. Cancer Res (2006) 1.21

Analysis of RNA base modification and structural rearrangement by single-molecule real-time detection of reverse transcription. J Nanobiotechnology (2013) 1.19

Quaking and PTB control overlapping splicing regulatory networks during muscle cell differentiation. RNA (2013) 1.17

A new alpha-helical extension promotes RNA binding by the dsRBD of Rnt1p RNAse III. EMBO J (2004) 1.12

Integration of a splicing regulatory network within the meiotic gene expression program of Saccharomyces cerevisiae. Genes Dev (2010) 1.10

Role of the ubiquitin-like protein Hub1 in splice-site usage and alternative splicing. Nature (2011) 1.07

Global methylation state at base-pair resolution of the Caulobacter genome throughout the cell cycle. Proc Natl Acad Sci U S A (2013) 1.06