Published in EMBO J on August 01, 2003
A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly (Austin) (2012) 20.08
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
A crucial role for GW182 and the DCP1:DCP2 decapping complex in miRNA-mediated gene silencing. RNA (2005) 5.15
Drosophila crinkled, mutations of which disrupt morphogenesis and cause lethality, encodes fly myosin VIIA. Genetics (2004) 4.51
NMD: a multifaceted response to premature translational termination. Nat Rev Mol Cell Biol (2012) 3.64
Messenger RNA regulation: to translate or to degrade. EMBO J (2008) 3.38
Decay of mRNAs targeted by RISC requires XRN1, the Ski complex, and the exosome. RNA (2005) 3.11
The multiple lives of NMD factors: balancing roles in gene and genome regulation. Nat Rev Genet (2008) 3.00
hUPF2 silencing identifies physiologic substrates of mammalian nonsense-mediated mRNA decay. Mol Cell Biol (2006) 2.69
A competition between stimulators and antagonists of Upf complex recruitment governs human nonsense-mediated mRNA decay. PLoS Biol (2008) 2.61
Nonsense-mediated mRNA decay factors act in concert to regulate common mRNA targets. RNA (2005) 2.59
SMG6 is the catalytic endonuclease that cleaves mRNAs containing nonsense codons in metazoan. RNA (2008) 2.54
Posttranscriptional gene regulation by spatial rearrangement of the 3' untranslated region. PLoS Biol (2008) 2.54
Nonsense-mediated mRNA decay (NMD) mechanisms. Nat Struct Mol Biol (2009) 2.31
An unappreciated role for RNA surveillance. Genome Biol (2004) 2.28
Structures of the PIN domains of SMG6 and SMG5 reveal a nuclease within the mRNA surveillance complex. EMBO J (2006) 2.16
A conserved role for cytoplasmic poly(A)-binding protein 1 (PABPC1) in nonsense-mediated mRNA decay. EMBO J (2007) 2.11
An alternative branch of the nonsense-mediated decay pathway. EMBO J (2007) 2.01
The Drosophila afadin homologue Canoe regulates linkage of the actin cytoskeleton to adherens junctions during apical constriction. J Cell Biol (2009) 1.90
SMG-8 and SMG-9, two novel subunits of the SMG-1 complex, regulate remodeling of the mRNA surveillance complex during nonsense-mediated mRNA decay. Genes Dev (2009) 1.82
Both introns and long 3'-UTRs operate as cis-acting elements to trigger nonsense-mediated decay in plants. Nucleic Acids Res (2006) 1.76
Mechanistic insights and identification of two novel factors in the C. elegans NMD pathway. Genes Dev (2007) 1.74
Inter-kingdom conservation of mechanism of nonsense-mediated mRNA decay. EMBO J (2008) 1.68
Conservation of the protein composition and electron microscopy structure of Drosophila melanogaster and human spliceosomal complexes. Mol Cell Biol (2008) 1.64
Preventing dangerous nonsense: selection for robustness to transcriptional error in human genes. PLoS Genet (2011) 1.63
SMG-1 is a phosphatidylinositol kinase-related protein kinase required for nonsense-mediated mRNA Decay in Caenorhabditis elegans. Mol Cell Biol (2004) 1.62
Structural and functional insights into the human Upf1 helicase core. EMBO J (2006) 1.61
Nonsense-mediated mRNA decay: from vacuum cleaner to Swiss army knife. Genome Biol (2004) 1.59
N- and C-terminal Upf1 phosphorylations create binding platforms for SMG-6 and SMG-5:SMG-7 during NMD. Nucleic Acids Res (2011) 1.55
The abundance of RNPS1, a protein component of the exon junction complex, can determine the variability in efficiency of the Nonsense Mediated Decay pathway. Nucleic Acids Res (2007) 1.53
Nonsense-mediated mRNA decay (NMD) in animal embryogenesis: to die or not to die, that is the question. Curr Opin Genet Dev (2011) 1.52
A GFP-based reporter system to monitor nonsense-mediated mRNA decay. Nucleic Acids Res (2005) 1.49
Exon junction complex subunits are required to splice Drosophila MAP kinase, a large heterochromatic gene. Cell (2010) 1.46
Genome-wide identification of alternative splice forms down-regulated by nonsense-mediated mRNA decay in Drosophila. PLoS Genet (2009) 1.46
Nonsense-mediated mRNA decay effectors are essential for zebrafish embryonic development and survival. Mol Cell Biol (2009) 1.44
Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity. Nucleic Acids Res (2013) 1.44
Functions of the nonsense-mediated mRNA decay pathway in Drosophila development. PLoS Genet (2006) 1.36
ARK, the Apaf-1 related killer in Drosophila, requires diverse domains for its apoptotic activity. Cell Death Differ (2006) 1.32
A genomewide RNA interference screen for modifiers of aggregates formation by mutant Huntingtin in Drosophila. Genetics (2010) 1.32
Genome-wide analysis of mRNA decay patterns during early Drosophila development. Genome Biol (2010) 1.31
Splicing remodels messenger ribonucleoprotein architecture via eIF4A3-dependent and -independent recruitment of exon junction complex components. Proc Natl Acad Sci U S A (2007) 1.24
How and where are nonsense mRNAs degraded in mammalian cells? RNA Biol (2010) 1.23
Unspliced Rous sarcoma virus genomic RNAs are translated and subjected to nonsense-mediated mRNA decay before packaging. J Virol (2004) 1.21
Saccharomyces cerevisiae Ebs1p is a putative ortholog of human Smg7 and promotes nonsense-mediated mRNA decay. Nucleic Acids Res (2007) 1.18
Caenorhabditis elegans SMG-2 selectively marks mRNAs containing premature translation termination codons. Mol Cell Biol (2007) 1.18
A role for nonsense-mediated mRNA decay in plants: pathogen responses are induced in Arabidopsis thaliana NMD mutants. PLoS One (2012) 1.17
A 3' UTR sequence stabilizes termination codons in the unspliced RNA of Rous sarcoma virus. RNA (2005) 1.16
Assembly, disassembly and recycling: the dynamics of exon junction complexes. RNA Biol (2011) 1.14
Nonsense-mediated mRNA decay in yeast does not require PAB1 or a poly(A) tail. Mol Cell (2008) 1.14
Protein RNA and protein protein interactions mediate association of human EST1A/SMG6 with telomerase. Nucleic Acids Res (2007) 1.13
The exon junction complex differentially marks spliced junctions. Nat Struct Mol Biol (2010) 1.12
Where do introns come from? PLoS Biol (2008) 1.10
Molecular insights into the interaction of PYM with the Mago-Y14 core of the exon junction complex. EMBO Rep (2004) 1.09
Comparison of EJC-enhanced and EJC-independent NMD in human cells reveals two partially redundant degradation pathways. RNA (2013) 1.07
The SMG5-SMG7 heterodimer directly recruits the CCR4-NOT deadenylase complex to mRNAs containing nonsense codons via interaction with POP2. Genes Dev (2013) 1.07
Splicing-dependent NMD does not require the EJC in Schizosaccharomyces pombe. EMBO J (2010) 1.06
Nonsense-mediated decay does not occur within the yeast nucleus. RNA (2004) 1.06
De novo ORFs in Drosophila are important to organismal fitness and evolved rapidly from previously non-coding sequences. PLoS Genet (2013) 1.06
Mechanisms of endonuclease-mediated mRNA decay. Wiley Interdiscip Rev RNA (2011) 1.03
Turnover in the Alps: an mRNA perspective. Workshops on mechanisms and regulation of mRNA turnover. EMBO Rep (2006) 1.03
The Chp1-Tas3 core is a multifunctional platform critical for gene silencing by RITS. Nat Struct Mol Biol (2011) 1.02
Nuclear assembly of UGA decoding complexes on selenoprotein mRNAs: a mechanism for eluding nonsense-mediated decay? Mol Cell Biol (2006) 1.02
Dhx34 and Nbas function in the NMD pathway and are required for embryonic development in zebrafish. Nucleic Acids Res (2011) 1.00
Mechanism and regulation of the nonsense-mediated decay pathway. Nucleic Acids Res (2016) 0.99
An unusual arrangement of two 14-3-3-like domains in the SMG5-SMG7 heterodimer is required for efficient nonsense-mediated mRNA decay. Genes Dev (2013) 0.99
The exon junction complex as a node of post-transcriptional networks. Nat Rev Mol Cell Biol (2015) 0.99
Role for Upf2p phosphorylation in Saccharomyces cerevisiae nonsense-mediated mRNA decay. Mol Cell Biol (2006) 0.98
SMG5-PNRC2 is functionally dominant compared with SMG5-SMG7 in mammalian nonsense-mediated mRNA decay. Nucleic Acids Res (2012) 0.98
Nonsense-Mediated mRNA Decay: Degradation of Defective Transcripts Is Only Part of the Story. Annu Rev Genet (2015) 0.98
Human eIF4AIII interacts with an eIF4G-like partner, NOM1, revealing an evolutionarily conserved function outside the exon junction complex. Genes Dev (2011) 0.96
Drosophila Upf1 and Upf2 loss of function inhibits cell growth and causes animal death in a Upf3-independent manner. RNA (2011) 0.96
Pre-mRNA processing enhancer (PPE) elements from intronless genes play additional roles in mRNA biogenesis than do ones from intron-containing genes. Nucleic Acids Res (2005) 0.96
The DEAD-box helicase eIF4A: paradigm or the odd one out? RNA Biol (2012) 0.95
The interaction of cytoplasmic poly(A)-binding protein with eukaryotic initiation factor 4G suppresses nonsense-mediated mRNA decay. RNA (2014) 0.94
Large introns in relation to alternative splicing and gene evolution: a case study of Drosophila bruno-3. BMC Genet (2009) 0.92
Structural characterization of the Rous sarcoma virus RNA stability element. J Virol (2008) 0.92
Widespread polymorphism in the positions of stop codons in Drosophila melanogaster. Genome Biol Evol (2011) 0.91
Smg1 nonsense mutations do not abolish nonsense-mediated mRNA decay in Drosophila melanogaster. Genetics (2005) 0.91
NMD: At the crossroads between translation termination and ribosome recycling. Biochimie (2014) 0.90
Regulation of splicing factors by alternative splicing and NMD is conserved between kingdoms yet evolutionarily flexible. Mol Biol Evol (2015) 0.89
A novel phosphorylation-independent interaction between SMG6 and UPF1 is essential for human NMD. Nucleic Acids Res (2014) 0.88
The structure and function of the rous sarcoma virus RNA stability element. J Cell Biochem (2011) 0.88
Is there a classical nonsense-mediated decay pathway in trypanosomes? PLoS One (2011) 0.88
The TPR-containing domain within Est1 homologs exhibits species-specific roles in telomerase interaction and telomere length homeostasis. BMC Mol Biol (2011) 0.88
The mRNP remodeling mediated by UPF1 promotes rapid degradation of replication-dependent histone mRNA. Nucleic Acids Res (2014) 0.87
Conventional 3' end formation is not required for NMD substrate recognition in Saccharomyces cerevisiae. RNA (2006) 0.87
Identification and functional analysis of novel phosphorylation sites in the RNA surveillance protein Upf1. Nucleic Acids Res (2013) 0.86
Under the Tucson sun: a meeting in the desert on mRNA decay. RNA (2004) 0.86
Equal transcription rates of productively and nonproductively rearranged immunoglobulin mu heavy chain alleles in a pro-B cell line. RNA (2009) 0.85
Transcriptome-Wide Identification of RNA Targets of Arabidopsis SERINE/ARGININE-RICH45 Uncovers the Unexpected Roles of This RNA Binding Protein in RNA Processing. Plant Cell (2015) 0.84
VHL frameshift mutation as target of nonsense-mediated mRNA decay in Drosophila melanogaster and human HEK293 cell line. J Biomed Biotechnol (2010) 0.84
Transcription initiation from within P elements generates hypomorphic mutations in Drosophila melanogaster. Genetics (2011) 0.84
Proteins involved in the degradation of cytoplasmic mRNA in the major eukaryotic model systems. RNA Biol (2014) 0.83
Inactivation of NMD increases viability of sup45 nonsense mutants in Saccharomyces cerevisiae. BMC Mol Biol (2007) 0.83
Intron retention in the Drosophila melanogaster Rieske Iron Sulphur Protein gene generated a new protein. Nat Commun (2011) 0.83
The rules and impact of nonsense-mediated mRNA decay in human cancers. Nat Genet (2016) 0.83
The human RNA surveillance factor UPF1 regulates tumorigenesis by targeting Smad7 in hepatocellular carcinoma. J Exp Clin Cancer Res (2016) 0.82
Intra- and intermolecular regulatory interactions in Upf1, the RNA helicase central to nonsense-mediated mRNA decay in yeast. Mol Cell Biol (2013) 0.82
The Upf factor complex interacts with aberrant products derived from mRNAs containing a premature termination codon and facilitates their proteasomal degradation. J Biol Chem (2013) 0.80
Drosophila mutants show NMD pathway activity is reduced, but not eliminated, in the absence of Smg6. RNA (2012) 0.80
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res (1997) 665.31
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res (1994) 392.47
The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res (1997) 175.36
The genome sequence of Drosophila melanogaster. Science (2000) 74.32
Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature (2001) 57.23
PairWise and SearchWise: finding the optimal alignment in a simultaneous comparison of a protein profile against all DNA translation frames. Nucleic Acids Res (1996) 9.82
A rule for termination-codon position within intron-containing genes: when nonsense affects RNA abundance. Trends Biochem Sci (1998) 9.06
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
Human Upf proteins target an mRNA for nonsense-mediated decay when bound downstream of a termination codon. Cell (2000) 5.54
The TPR snap helix: a novel protein repeat motif from mitosis to transcription. Trends Biochem Sci (1991) 4.47
Communication of the position of exon-exon junctions to the mRNA surveillance machinery by the protein RNPS1. Science (2001) 4.20
Role of the nonsense-mediated decay factor hUpf3 in the splicing-dependent exon-exon junction complex. Science (2001) 4.06
Separable roles for rent1/hUpf1 in altered splicing and decay of nonsense transcripts. Science (2002) 3.84
Binary specification of nonsense codons by splicing and cytoplasmic translation. EMBO J (1998) 3.79
SMG-2 is a phosphorylated protein required for mRNA surveillance in Caenorhabditis elegans and related to Upf1p of yeast. Mol Cell Biol (1999) 3.18
Y14 and hUpf3b form an NMD-activating complex. Mol Cell (2003) 3.17
At least one intron is required for the nonsense-mediated decay of triosephosphate isomerase mRNA: a possible link between nuclear splicing and cytoplasmic translation. Mol Cell Biol (1998) 2.79
mRNA surveillance: the perfect persist. J Cell Sci (2002) 2.70
Upf1p, Nmd2p, and Upf3p are interacting components of the yeast nonsense-mediated mRNA decay pathway. Mol Cell Biol (1997) 2.63
Identification and characterization of human orthologues to Saccharomyces cerevisiae Upf2 protein and Upf3 protein (Caenorhabditis elegans SMG-4). Mol Cell Biol (2001) 2.61
REF1/Aly and the additional exon junction complex proteins are dispensable for nuclear mRNA export. J Cell Biol (2002) 2.55
The Y14 protein communicates to the cytoplasm the position of exon-exon junctions. EMBO J (2001) 2.37
PIN domains in nonsense-mediated mRNA decay and RNAi. Curr Biol (2001) 2.26
A human homolog of yeast Est1 associates with telomerase and uncaps chromosome ends when overexpressed. Curr Biol (2003) 2.14
A novel mode of RBD-protein recognition in the Y14-Mago complex. Nat Struct Biol (2003) 2.11
smg-7 is required for mRNA surveillance in Caenorhabditis elegans. Genetics (1999) 1.90
mRNA surveillance in eukaryotes: kinetic proofreading of proper translation termination as assessed by mRNP domain organization? RNA (1999) 1.89
SMG-5, required for C.elegans nonsense-mediated mRNA decay, associates with SMG-2 and protein phosphatase 2A. EMBO J (2003) 1.83
Cloning of a novel phosphatidylinositol kinase-related kinase: characterization of the human SMG-1 RNA surveillance protein. J Biol Chem (2001) 1.74
mRNAs encoding telomerase components and regulators are controlled by UPF genes in Saccharomyces cerevisiae. Eukaryot Cell (2003) 1.40
Protein expression in Drosophila Schneider cells. Anal Biochem (2000) 0.98
Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
A method and server for predicting damaging missense mutations. Nat Methods (2010) 78.53
Human non-synonymous SNPs: server and survey. Nucleic Acids Res (2002) 50.45
Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature (2002) 45.19
A human gut microbial gene catalogue established by metagenomic sequencing. Nature (2010) 43.63
Comparative metagenomics of microbial communities. Science (2005) 25.88
InterPro: the integrative protein signature database. Nucleic Acids Res (2008) 25.07
Recent improvements to the SMART domain-based sequence annotation resource. Nucleic Acids Res (2002) 25.06
The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res (2003) 24.72
Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature (2004) 24.40
Enterotypes of the human gut microbiome. Nature (2011) 24.36
Comparative assessment of large-scale data sets of protein-protein interactions. Nature (2002) 24.25
Proteome survey reveals modularity of the yeast cell machinery. Nature (2006) 20.77
STRING 8--a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res (2008) 20.62
The genome sequence of the malaria mosquito Anopheles gambiae. Science (2002) 20.36
SMART 4.0: towards genomic data integration. Nucleic Acids Res (2004) 19.37
The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res (2010) 18.73
STRING v9.1: protein-protein interaction networks, with increased coverage and integration. Nucleic Acids Res (2012) 18.26
InterPro, progress and status in 2005. Nucleic Acids Res (2005) 17.53
SMART 5: domains in the context of genomes and networks. Nucleic Acids Res (2006) 17.13
The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. Nat Biotechnol (2004) 16.08
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics (2006) 14.96
Toward automatic reconstruction of a highly resolved tree of life. Science (2006) 14.96
InterPro in 2011: new developments in the family and domain prediction database. Nucleic Acids Res (2011) 13.45
New developments in the InterPro database. Nucleic Acids Res (2007) 12.49
STRING 7--recent developments in the integration and prediction of protein interactions. Nucleic Acids Res (2006) 12.16
Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy. Nucleic Acids Res (2011) 10.82
STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res (2005) 10.44
SMART 6: recent updates and new developments. Nucleic Acids Res (2008) 9.80
Gene silencing by microRNAs: contributions of translational repression and mRNA decay. Nat Rev Genet (2011) 9.79
STRING: a database of predicted functional associations between proteins. Nucleic Acids Res (2003) 9.45
Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster. Science (2002) 9.43
Drug target identification using side-effect similarity. Science (2008) 9.24
SMART 7: recent updates to the protein domain annotation resource. Nucleic Acids Res (2011) 9.15
Bioinformatics in the post-sequence era. Nat Genet (2003) 8.83
mRNA degradation by miRNAs and GW182 requires both CCR4:NOT deadenylase and DCP1:DCP2 decapping complexes. Genes Dev (2006) 8.78
PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments. Nucleic Acids Res (2006) 8.36
Literature mining for the biologist: from information retrieval to biological discovery. Nat Rev Genet (2006) 8.23
P bodies: at the crossroads of post-transcriptional pathways. Nat Rev Mol Cell Biol (2007) 7.96
Protein disorder prediction: implications for structural proteomics. Structure (2003) 7.93
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol (2011) 7.53
Alternative splicing and genome complexity. Nat Genet (2001) 7.30
The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proc Natl Acad Sci U S A (2002) 7.21
Getting to the root of miRNA-mediated gene silencing. Cell (2008) 7.17
Systematic discovery of in vivo phosphorylation networks. Cell (2007) 6.94
Richness of human gut microbiome correlates with metabolic markers. Nature (2013) 6.93
ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res (2003) 6.86
A side effect resource to capture phenotypic effects of drugs. Mol Syst Biol (2010) 6.75
The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans. Nature (2008) 6.69
The ecoresponsive genome of Daphnia pulex. Science (2011) 6.55
The genome of the model beetle and pest Tribolium castaneum. Nature (2008) 6.50
Association of genes to genetically inherited diseases using data mining. Nat Genet (2002) 5.78
GW182 interaction with Argonaute is essential for miRNA-mediated translational repression and mRNA decay. Nat Struct Mol Biol (2008) 5.57
Functional and evolutionary insights from the genomes of three parasitoid Nasonia species. Science (2010) 5.56
Immunity-related genes and gene families in Anopheles gambiae. Science (2002) 5.47
A crucial role for GW182 and the DCP1:DCP2 decapping complex in miRNA-mediated gene silencing. RNA (2005) 5.15
Dynamic complex formation during the yeast cell cycle. Science (2005) 5.11
Structure and nucleic-acid binding of the Drosophila Argonaute 2 PAZ domain. Nature (2003) 4.92
P-body formation is a consequence, not the cause, of RNA-mediated gene silencing. Mol Cell Biol (2007) 4.90
STITCH: interaction networks of chemicals and proteins. Nucleic Acids Res (2007) 4.88
Genomes in flux: the evolution of archaeal and proteobacterial gene content. Genome Res (2002) 4.85
eggNOG: automated construction and annotation of orthologous groups of genes. Nucleic Acids Res (2007) 4.84
Transcriptome complexity in a genome-reduced bacterium. Science (2009) 4.64
Nonsense-mediated mRNA decay: molecular insights and mechanistic variations across species. Curr Opin Cell Biol (2005) 4.45
Update on XplorMed: A web server for exploring scientific literature. Nucleic Acids Res (2003) 4.42
Genomic variation landscape of the human gut microbiome. Nature (2012) 4.38
Nucleic acid 3'-end recognition by the Argonaute2 PAZ domain. Nat Struct Mol Biol (2004) 4.38
Genome-wide experimental determination of barriers to horizontal gene transfer. Science (2007) 4.37
A genome-wide survey of human pseudogenes. Genome Res (2003) 4.34
Viral evasion and subversion of pattern-recognition receptor signalling. Nat Rev Immunol (2008) 4.16
KEGG Atlas mapping for global analysis of metabolic pathways. Nucleic Acids Res (2008) 4.14
iPath: interactive exploration of biochemical pathways and networks. Trends Biochem Sci (2008) 4.03
Deadenylation is a widespread effect of miRNA regulation. RNA (2008) 3.98
Proteome organization in a genome-reduced bacterium. Science (2009) 3.97
Molecular eco-systems biology: towards an understanding of community function. Nat Rev Microbiol (2008) 3.95
eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. Nucleic Acids Res (2011) 3.94
Target-specific requirements for enhancers of decapping in miRNA-mediated gene silencing. Genes Dev (2007) 3.92
SuperTarget and Matador: resources for exploring drug-target relationships. Nucleic Acids Res (2007) 3.82
Genome-wide analysis of mRNAs regulated by Drosha and Argonaute proteins in Drosophila melanogaster. Mol Cell Biol (2006) 3.80
eggNOG v4.0: nested orthology inference across 3686 organisms. Nucleic Acids Res (2013) 3.77
Linear motif atlas for phosphorylation-dependent signaling. Sci Signal (2008) 3.77
Medusa: a simple tool for interaction graph analysis. Bioinformatics (2005) 3.74
Prediction of effective genome size in metagenomic samples. Genome Biol (2007) 3.73
Systematic identification of novel protein domain families associated with nuclear functions. Genome Res (2002) 3.50
SmashCommunity: a metagenomic annotation and analysis tool. Bioinformatics (2010) 3.48
Function prediction and protein networks. Curr Opin Cell Biol (2003) 3.46
Impact of genome reduction on bacterial metabolism and its regulation. Science (2009) 3.45
Extraction of regulatory gene/protein networks from Medline. Bioinformatics (2005) 3.43
A temporal map of transcription factor activity: mef2 directly regulates target genes at all stages of muscle development. Dev Cell (2006) 3.29
Co-evolution of transcriptional and post-translational cell-cycle regulation. Nature (2006) 3.28
The DNA sequence of human chromosome 7. Nature (2003) 3.18
Get the most out of your metagenome: computational analysis of environmental sequence data. Curr Opin Microbiol (2007) 3.15
Accurate and universal delineation of prokaryotic species. Nat Methods (2013) 3.14
Decay of mRNAs targeted by RISC requires XRN1, the Ski complex, and the exosome. RNA (2005) 3.11
STITCH 2: an interaction network database for small molecules and proteins. Nucleic Acids Res (2009) 3.06
SMG7 acts as a molecular link between mRNA surveillance and mRNA decay. Mol Cell (2004) 3.05