Published in Mol Biol Evol on November 04, 2008
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Transposable elements reveal a stem cell-specific class of long noncoding RNAs. Genome Biol (2012) 2.22
Alu elements: know the SINEs. Genome Biol (2011) 1.81
All y'all need to know 'bout retroelements in cancer. Semin Cancer Biol (2010) 1.52
LINE dancing in the human genome: transposable elements and disease. Genome Med (2009) 1.33
Identification of widespread ultra-edited human RNAs. PLoS Genet (2011) 1.16
Mobile DNA and evolution in the 21st century. Mob DNA (2010) 1.12
Retrotransposons as regulators of gene expression. Science (2016) 1.09
A novel protein isoform of the multicopy human NAIP gene derives from intragenic Alu SINE promoters. PLoS One (2009) 0.98
Expressing genes do not forget their LINEs: transposable elements and gene expression. Front Biosci (Landmark Ed) (2012) 0.94
Alu elements: an intrinsic source of human genome instability. Curr Opin Virol (2013) 0.94
Quantification of Hepatic UDP glucuronosyltransferase 1A splice variant expression and correlation of UDP glucuronosyltransferase 1A1 variant expression with glucuronidation activity. J Pharmacol Exp Ther (2012) 0.85
The possible roles of human Alu elements in aging. Front Genet (2013) 0.82
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Intergenic Alu exonisation facilitates the evolution of tissue-specific transcript ends. Nucleic Acids Res (2015) 0.81
Nuclear function of Alus. Nucleus (2014) 0.81
Transcriptome sequencing reveals thousands of novel long non-coding RNAs in B cell lymphoma. Genome Med (2015) 0.81
Evolutionary impact of transposable elements on genomic diversity and lineage-specific innovation in vertebrates. Chromosome Res (2015) 0.80
Cell type-specific termination of transcription by transposable element sequences. Mob DNA (2012) 0.80
IsoSCM: improved and alternative 3' UTR annotation using multiple change-point inference. RNA (2014) 0.79
Structural Variation of Alu Element and Human Disease. Genomics Inform (2016) 0.77
Genome-wide mapping of infection-induced SINE RNAs reveals a role in selective mRNA export. Nucleic Acids Res (2017) 0.77
Evolutionary rate of human tissue-specific genes are related with transposable element insertions. Genetica (2013) 0.76
The role of DNA insertions in phenotypic differentiation between humans and other primates. Genome Biol Evol (2015) 0.76
Elevated rate of fixation of endogenous retroviral elements in Haplorhini TRIM5 and TRIM22 genomic sequences: impact on transcriptional regulation. PLoS One (2013) 0.75
Linear decay of retrotransposon antisense bias across genes is contingent upon tissue specificity. PLoS One (2013) 0.75
The domain structure and distribution of Alu elements in long noncoding RNAs and mRNAs. RNA (2015) 0.75
Population and allelic variation of A-to-I RNA editing in human transcriptomes. Genome Biol (2017) 0.75
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol (2006) 40.15
Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res (2006) 9.85
MassBank: a public repository for sharing mass spectral data for life sciences. J Mass Spectrom (2010) 6.16
AltTrans: transcript pattern variants annotated for both alternative splicing and alternative polyadenylation. BMC Bioinformatics (2006) 5.50
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Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res (2006) 4.25
ASTD: The Alternative Splicing and Transcript Diversity database. Genomics (2008) 2.72
Genome-wide analysis of deoxyadenosine methyltransferase-mediated control of gene expression in Escherichia coli. Mol Microbiol (2002) 2.50
The genome sequence of the model ascomycete fungus Podospora anserina. Genome Biol (2008) 2.43
Sequence determinants in human polyadenylation site selection. BMC Genomics (2003) 2.26
Differential repression of alternative transcripts: a screen for miRNA targets. PLoS Comput Biol (2006) 1.82
Profile-based detection of microRNA precursors in animal genomes. Bioinformatics (2004) 1.79
ARNold: a web tool for the prediction of Rho-independent transcription terminators. RNA Biol (2011) 1.75
Conservation of alternative polyadenylation patterns in mammalian genes. BMC Genomics (2006) 1.75
RNAcentral: A vision for an international database of RNA sequences. RNA (2011) 1.73
Experimental discovery of small RNAs in Staphylococcus aureus reveals a riboregulator of central metabolism. Nucleic Acids Res (2010) 1.49
RNA stem-loops: to be or not to be cleaved by RNAse III. RNA (2007) 1.28
Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles. Genome Res (2009) 1.25
Genome-wide discovery and analysis of microRNAs and other small RNAs from rice embryogenic callus. RNA Biol (2011) 1.19
Entropy measures quantify global splicing disorders in cancer. PLoS Comput Biol (2008) 1.18
Complete nucleotide sequence of plasmid Rts1: implications for evolution of large plasmid genomes. J Bacteriol (2002) 1.18
Characterization of novel genomic alterations and therapeutic approaches using acute megakaryoblastic leukemia xenograft models. J Exp Med (2012) 1.16
Metagenome annotation using a distributed grid of undergraduate students. PLoS Biol (2008) 1.14
Beyond the 3' end: experimental validation of extended transcript isoforms. Nucleic Acids Res (2007) 1.06
Mireval: a web tool for simple microRNA prediction in genome sequences. Bioinformatics (2008) 1.04
The disparate nature of "intergenic" polyadenylation sites. RNA (2006) 1.02
A universal RNA structural motif docking the elbow of tRNA in the ribosome, RNAse P and T-box leaders. Nucleic Acids Res (2013) 1.00
A survey of metazoan selenocysteine insertion sequences. Biochimie (2002) 1.00
KaPPA-View4: a metabolic pathway database for representation and analysis of correlation networks of gene co-expression and metabolite co-accumulation and omics data. Nucleic Acids Res (2010) 0.96
Transcription attenuation in bacteria: theme and variations. Brief Funct Genomic Proteomic (2009) 0.91
Premature terminator analysis sheds light on a hidden world of bacterial transcriptional attenuation. Genome Biol (2010) 0.91
CsfG, a sporulation-specific, small non-coding RNA highly conserved in endospore formers. RNA Biol (2011) 0.90
An assessment of bacterial small RNA target prediction programs. RNA Biol (2015) 0.90
Identification of large intergenic non-coding RNAs in bovine muscle using next-generation transcriptomic sequencing. BMC Genomics (2014) 0.89
The ERPIN server: an interface to profile-based RNA motif identification. Nucleic Acids Res (2004) 0.89
RNAspace.org: An integrated environment for the prediction, annotation, and analysis of ncRNA. RNA (2011) 0.87
Zinc-mediated RNA fragmentation allows robust transcript reassembly upon whole transcriptome RNA-Seq. Methods (2013) 0.87
Complete genome sequence and comparative analysis of Shewanella violacea, a psychrophilic and piezophilic bacterium from deep sea floor sediments. Mol Biosyst (2010) 0.86
RsaOG, a new staphylococcal family of highly transcribed non-coding RNA. RNA Biol (2010) 0.86
NAPP: the Nucleic Acid Phylogenetic Profile Database. Nucleic Acids Res (2011) 0.83
Detection of non-coding RNA in bacteria and archaea using the DETR'PROK Galaxy pipeline. Methods (2013) 0.82
RNA at 92 °C: the non-coding transcriptome of the hyperthermophilic archaeon Pyrococcus abyssi. RNA Biol (2013) 0.82
Computing expectation values for RNA motifs using discrete convolutions. BMC Bioinformatics (2005) 0.81
Novel selenoproteins identified from genomic sequence data. Methods Enzymol (2002) 0.79
An application of a relational database system for high-throughput prediction of elemental compositions from accurate mass values. Bioinformatics (2012) 0.78
BRASERO: A Resource for Benchmarking RNA Secondary Structure Comparison Algorithms. Adv Bioinformatics (2012) 0.77
Distribution of repetitive sequences on the leading and lagging strands of the Escherichia coli genome: comparative study of Long Direct Repeat (LDR) sequences. DNA Res (2002) 0.76
Plant noncoding RNA gene discovery by "single-genome comparative genomics". RNA (2011) 0.76
Expression profiling in mouse fetal thymus reveals clusters of coordinately expressed genes that mark individual stages of T-cell ontogeny. Immunogenetics (2002) 0.75
Regulatory RNomics and gene expression. J Biomed Biotechnol (2009) 0.75