Published in Nucleic Acids Res on October 04, 2005
Regulatory roles of natural antisense transcripts. Nat Rev Mol Cell Biol (2009) 4.48
Complex Loci in human and mouse genomes. PLoS Genet (2006) 3.74
Genome-wide natural antisense transcription: coupling its regulation to its different regulatory mechanisms. EMBO Rep (2006) 2.96
Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species. Nucleic Acids Res (2006) 2.21
A systematic analysis of disease-associated variants in the 3' regulatory regions of human protein-coding genes I: general principles and overview. Hum Genet (2006) 1.55
RNA-Seq analysis of splicing in Plasmodium falciparum uncovers new splice junctions, alternative splicing and splicing of antisense transcripts. Nucleic Acids Res (2011) 1.48
Wide-ranging functions of E2F4 in transcriptional activation and repression revealed by genome-wide analysis. Nucleic Acids Res (2011) 1.43
Antisense transcription in the human cytomegalovirus transcriptome. J Virol (2007) 1.40
Evidence for variation in abundance of antisense transcripts between multicellular animals but no relationship between antisense transcriptionand organismic complexity. Genome Res (2006) 1.35
Osteopontin and systemic lupus erythematosus association: a probable gene-gender interaction. PLoS One (2008) 1.31
Sense-antisense pairs in mammals: functional and evolutionary considerations. Genome Biol (2007) 1.26
Transcriptional regulation by small RNAs at sequences downstream from 3' gene termini. Nat Chem Biol (2010) 1.25
Integrative analysis of the human cis-antisense gene pairs, miRNAs and their transcription regulation patterns. Nucleic Acids Res (2009) 1.15
Increased expression of P-glycoprotein and doxorubicin chemoresistance of metastatic breast cancer is regulated by miR-298. Am J Pathol (2012) 1.15
Long non-coding RNA-dependent transcriptional regulation in neuronal development and disease. Front Genet (2014) 1.11
Imprinting of an evolutionarily conserved antisense transcript gene APeg3. Gene (2007) 1.02
Detection of novel 3' untranslated region extensions with 3' expression microarrays. BMC Genomics (2010) 0.86
Mechanisms of antisense transcription initiation from the 3' end of the GAL10 coding sequence in vivo. Mol Cell Biol (2013) 0.85
Gene regulation by sense-antisense overlap of polyadenylation signals. RNA (2009) 0.85
Analysis of transcripts from predicted open reading frames of Musca domestica salivary gland hypertrophy virus. J Gen Virol (2009) 0.85
Complex gene expression in the dragline silk producing glands of the Western black widow (Latrodectus hesperus). BMC Genomics (2013) 0.84
Non-random retention of protein-coding overlapping genes in Metazoa. BMC Genomics (2008) 0.83
Identification of novel endogenous antisense transcripts by DNA microarray analysis targeting complementary strand of annotated genes. BMC Genomics (2009) 0.82
Natural antisense transcripts and long non-coding RNA in Neurospora crassa. PLoS One (2014) 0.82
The expression of ELK transcription factors in adult DRG: Novel isoforms, antisense transcripts and upregulation by nerve damage. Mol Cell Neurosci (2010) 0.80
Intronic AT skew is a defendable proxy for germline transcription but does not predict crossing-over or protein evolution rates in Drosophila melanogaster. J Mol Evol (2010) 0.79
Role of inflammation and oxidative stress mediators in gliomas. Cancers (Basel) (2010) 0.78
Novel candidate key drivers in the integrative network of genes, microRNAs, methylations, and copy number variations in squamous cell lung carcinoma. Biomed Res Int (2015) 0.76
Natural antisense transcripts in plants: a review and identification in soybean infected with Phakopsora pachyrhizi SuperSAGE library. ScientificWorldJournal (2013) 0.76
Examining the condition-specific antisense transcription in S. cerevisiae and S. paradoxus. BMC Genomics (2014) 0.76
Sense and antisense OsDof12 transcripts in rice. BMC Mol Biol (2008) 0.76
Mapping of leptin and its syntenic genes to chicken chromosome 1p. BMC Genet (2017) 0.75
Association of new deletion/duplication region at chromosome 1p21 with intellectual disability, severe speech deficit and autism spectrum disorder-like behavior: an all-in approach to solving the DPYD enigma. Transl Neurosci (2015) 0.75
Comparative analysis of neural transcriptomes and functional implication of unannotated intronic expression. BMC Genomics (2011) 0.75
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet (2000) 336.52
MicroRNAs: genomics, biogenesis, mechanism, and function. Cell (2004) 198.59
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell (2005) 96.87
Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
The functions of animal microRNAs. Nature (2004) 64.85
Serial analysis of gene expression. Science (1995) 60.15
Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature (2005) 48.95
Finishing the euchromatic sequence of the human genome. Nature (2004) 41.40
Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. Science (2005) 16.82
A gene map of the human genome. Science (1996) 14.32
MicroRNA pathways in flies and worms: growth, death, fat, stress, and timing. Cell (2003) 14.07
Micromanagers of gene expression: the potentially widespread influence of metazoan microRNAs. Nat Rev Genet (2004) 12.97
Transcription regulation and animal diversity. Nature (2003) 9.22
Non-coding RNA genes and the modern RNA world. Nat Rev Genet (2001) 9.06
Widespread occurrence of antisense transcription in the human genome. Nat Biotechnol (2003) 8.54
Untranslated regions of mRNAs. Genome Biol (2002) 8.03
Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet (2002) 6.89
Frequent alternative splicing of human genes. Genome Res (1999) 6.68
RNA regulation: a new genetics? Nat Rev Genet (2004) 5.97
An expanding universe of noncoding RNAs. Science (2002) 5.96
An abundance of bidirectional promoters in the human genome. Genome Res (2004) 5.90
Non-coding RNAs: the architects of eukaryotic complexity. EMBO Rep (2001) 4.74
DBTSS: DataBase of human Transcriptional Start Sites and full-length cDNAs. Nucleic Acids Res (2002) 4.29
The 3' untranslated region of messenger RNA: A molecular 'hotspot' for pathology? Nat Med (2000) 4.11
In search of antisense. Trends Biochem Sci (2004) 3.93
Regulation of mRNA translation by 5'- and 3'-UTR-binding factors. Trends Biochem Sci (2003) 3.92
Computational genomics of noncoding RNA genes. Cell (2002) 3.90
Do natural antisense transcripts make sense in eukaryotes? Gene (1998) 3.66
Bidirectional gene organization: a common architectural feature of the human genome. Cell (2002) 3.47
Over 20% of human transcripts might form sense-antisense pairs. Nucleic Acids Res (2004) 3.45
Antisense transcripts with FANTOM2 clone set and their implications for gene regulation. Genome Res (2003) 3.40
Antisense transcripts in the human genome. Trends Genet (2002) 3.33
Searching for regulatory elements in human noncoding sequences. Curr Opin Struct Biol (1997) 3.30
Computational discovery of sense-antisense transcription in the human and mouse genomes. Genome Biol (2002) 3.28
Antisense RNA: function and fate of duplex RNA in cells of higher eukaryotes. Microbiol Mol Biol Rev (1998) 3.26
UTRdb and UTRsite: a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs. Nucleic Acids Res (2005) 2.80
Strong conservation of non-coding sequences during vertebrates evolution: potential involvement in post-transcriptional regulation of gene expression. Nucleic Acids Res (1993) 2.39
Genome-wide analysis of coordinate expression and evolution of human cis-encoded sense-antisense transcripts. Trends Genet (2005) 2.04
Making (anti)sense of non-coding sequence conservation. Nucleic Acids Res (1997) 1.94
Regulatory functions of 3'UTRs. Biochem Biophys Res Commun (2001) 1.91
Disclosing hidden transcripts: mouse natural sense-antisense transcripts tend to be poly(A) negative and nuclear localized. Genome Res (2005) 1.85
Mammalian overlapping genes: the comparative perspective. Genome Res (2004) 1.74
Human antisense genes have unusually short introns: evidence for selection for rapid transcription. Trends Genet (2005) 1.35
Retention and repression: fates of hyperedited RNAs in the nucleus. Curr Opin Cell Biol (2005) 1.07
UTRdb: a specialized database of 5'- and 3'-untranslated regions of eukaryotic mRNAs. Nucleic Acids Res (1998) 0.84
Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet (2002) 6.89
Dosage sensitivity and the evolution of gene families in yeast. Nature (2003) 6.77
Hearing silence: non-neutral evolution at synonymous sites in mammals. Nat Rev Genet (2006) 5.97
Comparisons of dN/dS are time dependent for closely related bacterial genomes. J Theor Biol (2005) 5.20
Altered nuclear retention of mRNAs containing inverted repeats in human embryonic stem cells: functional role of a nuclear noncoding RNA. Mol Cell (2009) 4.54
Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast. Nature (2004) 4.06
Stratus not altocumulus: a new view of the yeast protein interaction network. PLoS Biol (2006) 3.44
Alu element-mediated gene silencing. EMBO J (2008) 3.22
Distinct microRNA expression profiles in acute myeloid leukemia with common translocations. Proc Natl Acad Sci U S A (2008) 3.13
Human SNP variability and mutation rate are higher in regions of high recombination. Trends Genet (2002) 3.11
Positively charged residues are the major determinants of ribosomal velocity. PLoS Biol (2013) 3.11
Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes. Genome Res (2003) 3.10
MicroRNA expression signatures accurately discriminate acute lymphoblastic leukemia from acute myeloid leukemia. Proc Natl Acad Sci U S A (2007) 3.00
Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals. Genome Biol (2005) 2.94
Genomewide characterization of non-polyadenylated RNAs. Genome Biol (2011) 2.92
miR-21 plays a pivotal role in gastric cancer pathogenesis and progression. Lab Invest (2008) 2.87
Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers. Mol Biol Evol (2005) 2.85
Long noncoding RNAs with snoRNA ends. Mol Cell (2012) 2.71
The signature of selection mediated by expression on human genes. Genome Res (2003) 2.56
Evolution of chromosome organization driven by selection for reduced gene expression noise. Nat Genet (2007) 2.55
Chance and necessity in the evolution of minimal metabolic networks. Nature (2006) 2.48
Genomic function: Rate of evolution and gene dispensability. Nature (2003) 2.40
MicroRNA and cancer: Current status and prospective. Int J Cancer (2007) 2.36
Evolutionary and physiological importance of hub proteins. PLoS Comput Biol (2006) 2.34
Splicing and the evolution of proteins in mammals. PLoS Biol (2007) 2.32
Regulation of mir-196b by MLL and its overexpression by MLL fusions contributes to immortalization. Blood (2009) 2.11
Genome-wide analysis of coordinate expression and evolution of human cis-encoded sense-antisense transcripts. Trends Genet (2005) 2.04
In vivo evidence for a novel pathway of vitamin D₃ metabolism initiated by P450scc and modified by CYP27B1. FASEB J (2012) 1.92
Genome-wide studies reveal that Lin28 enhances the translation of genes important for growth and survival of human embryonic stem cells. Stem Cells (2011) 1.90
Evidence for co-evolution of gene order and recombination rate. Nat Genet (2003) 1.84
Still stratus not altocumulus: further evidence against the date/party hub distinction. PLoS Biol (2007) 1.84
Metabolic trade-offs and the maintenance of the fittest and the flattest. Nature (2011) 1.82
A unification of mosaic structures in the human genome. Hum Mol Genet (2003) 1.79
Molecular basis for an attenuated cytoplasmic dsRNA response in human embryonic stem cells. Cell Cycle (2010) 1.71
Oligo(dT) primer generates a high frequency of truncated cDNAs through internal poly(A) priming during reverse transcription. Proc Natl Acad Sci U S A (2002) 1.71
HMGA2/TET1/HOXA9 signaling pathway regulates breast cancer growth and metastasis. Proc Natl Acad Sci U S A (2013) 1.70
How do synonymous mutations affect fitness? Bioessays (2007) 1.63
Blockade of miR-150 maturation by MLL-fusion/MYC/LIN-28 is required for MLL-associated leukemia. Cancer Cell (2012) 1.61
Genes that escape X-inactivation in humans have high intraspecific variability in expression, are associated with mental impairment but are not slow evolving. Mol Biol Evol (2013) 1.61
Minimally invasive surgery for spontaneous supratentorial intracerebral hemorrhage: a meta-analysis of randomized controlled trials. Stroke (2012) 1.58
Essential role of the voltage-dependent anion channel (VDAC) in mitochondrial permeability transition pore opening and cytochrome c release induced by arsenic trioxide. Oncogene (2004) 1.57
Effects of length and location on the cellular response to double-stranded RNA. Microbiol Mol Biol Rev (2004) 1.57
Similar rates but different modes of sequence evolution in introns and at exonic silent sites in rodents: evidence for selectively driven codon usage. Mol Biol Evol (2004) 1.55
Chromatin remodelling is a major source of coexpression of linked genes in yeast. Trends Genet (2007) 1.55
20-Hydroxyvitamin D2 is a noncalcemic analog of vitamin D with potent antiproliferative and prodifferentiation activities in normal and malignant cells. Am J Physiol Cell Physiol (2010) 1.54
Decoding the function of nuclear long non-coding RNAs. Curr Opin Cell Biol (2010) 1.54
Transcriptional regulation of germinal center B and plasma cell fates by dynamical control of IRF4. Immunity (2013) 1.52
Distinct physiological and behavioural functions for parental alleles of imprinted Grb10. Nature (2011) 1.52
Evolution of cis-regulatory elements in duplicated genes of yeast. Trends Genet (2003) 1.49
An overview of tubulin inhibitors that interact with the colchicine binding site. Pharm Res (2012) 1.49
miR-196b directly targets both HOXA9/MEIS1 oncogenes and FAS tumour suppressor in MLL-rearranged leukaemia. Nat Commun (2012) 1.49
Aberrant overexpression and function of the miR-17-92 cluster in MLL-rearranged acute leukemia. Proc Natl Acad Sci U S A (2010) 1.43
GroEL dependency affects codon usage--support for a critical role of misfolding in gene evolution. Mol Syst Biol (2010) 1.43
Exonic splicing regulatory elements skew synonymous codon usage near intron-exon boundaries in mammals. Mol Biol Evol (2007) 1.43
Gene regulation by SINES and inosines: biological consequences of A-to-I editing of Alu element inverted repeats. Cell Cycle (2008) 1.42
Leukocyte tyrosine kinase functions in pigment cell development. PLoS Genet (2008) 1.41
Evidence against the selfish operon theory. Trends Genet (2004) 1.38
Evidence for a trade-off between translational efficiency and splicing regulation in determining synonymous codon usage in Drosophila melanogaster. Mol Biol Evol (2007) 1.36
Evidence for variation in abundance of antisense transcripts between multicellular animals but no relationship between antisense transcriptionand organismic complexity. Genome Res (2006) 1.35
Consistent deregulation of gene expression between human and murine MLL rearrangement leukemias. Cancer Res (2009) 1.35
Human antisense genes have unusually short introns: evidence for selection for rapid transcription. Trends Genet (2005) 1.35
Vigilins bind to promiscuously A-to-I-edited RNAs and are involved in the formation of heterochromatin. Curr Biol (2005) 1.34
The impact of the nucleosome code on protein-coding sequence evolution in yeast. PLoS Genet (2008) 1.34
Antisense starts making more sense. Nat Biotechnol (2003) 1.34
Biased codon usage near intron-exon junctions: selection on splicing enhancers, splice-site recognition or something else? Trends Genet (2005) 1.33
Evidence that the human X chromosome is enriched for male-specific but not female-specific genes. Mol Biol Evol (2003) 1.32
Molecular portraits of B cell lineage commitment. Proc Natl Acad Sci U S A (2002) 1.32
PBX3 is an important cofactor of HOXA9 in leukemogenesis. Blood (2012) 1.30
The evolution of isochores: evidence from SNP frequency distributions. Genetics (2002) 1.29
Medicine: silencing viruses with RNA. Nature (2002) 1.27
A mixture of "cheats" and "co-operators" can enable maximal group benefit. PLoS Biol (2010) 1.27
Discovery of 4-substituted methoxybenzoyl-aryl-thiazole as novel anticancer agents: synthesis, biological evaluation, and structure-activity relationships. J Med Chem (2009) 1.27
MicroRNAs expression signatures are associated with lineage and survival in acute leukemias. Blood Cells Mol Dis (2010) 1.26
Photo-conversion of two epimers (20R and 20S) of pregna-5,7-diene-3beta, 17alpha, 20-triol and their bioactivity in melanoma cells. Steroids (2008) 1.24
Chemical synthesis of 20S-hydroxyvitamin D3, which shows antiproliferative activity. Steroids (2010) 1.23
Predicting the virulence of MRSA from its genome sequence. Genome Res (2014) 1.23
How biologically relevant are interaction-based modules in protein networks? Genome Biol (2004) 1.22
Production of 22-hydroxy metabolites of vitamin d3 by cytochrome p450scc (CYP11A1) and analysis of their biological activities on skin cells. Drug Metab Dispos (2011) 1.22
Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction. PLoS Genet (2005) 1.20
Long noncoding RNAs in mammalian cells: what, where, and why? Wiley Interdiscip Rev RNA (2010) 1.19
TET1 plays an essential oncogenic role in MLL-rearranged leukemia. Proc Natl Acad Sci U S A (2013) 1.19
20-hydroxyvitamin D₃ inhibits proliferation of cancer cells with high efficacy while being non-toxic. Anticancer Res (2012) 1.18
Facultative Vivipary is a Life-History Trait in Caenorhabditis elegans. J Nematol (2004) 1.18
Genomic DNA breakpoints in AML1/RUNX1 and ETO cluster with topoisomerase II DNA cleavage and DNase I hypersensitive sites in t(8;21) leukemia. Proc Natl Acad Sci U S A (2002) 1.16
Imprinted chromosomal regions of the human genome have unusually high recombination rates. Genetics (2003) 1.15
Identification of a 24-gene prognostic signature that improves the European LeukemiaNet risk classification of acute myeloid leukemia: an international collaborative study. J Clin Oncol (2013) 1.15
Cytochrome P450scc-dependent metabolism of 7-dehydrocholesterol in placenta and epidermal keratinocytes. Int J Biochem Cell Biol (2012) 1.14
The price of silent mutations. Sci Am (2009) 1.14
Maternally-inherited Grb10 reduces placental size and efficiency. Dev Biol (2009) 1.14
Genomic regionality in rates of evolution is not explained by clustering of genes of comparable expression profile. Genome Res (2004) 1.14
Direct and indirect consequences of meiotic recombination: implications for genome evolution. Trends Genet (2011) 1.13
Transcriptional coupling of neighboring genes and gene expression noise: evidence that gene orientation and noncoding transcripts are modulators of noise. Genome Biol Evol (2011) 1.12
Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mRNA decay. BMC Biol (2009) 1.11
Identification of the protein-protein contact site and interaction mode of human VDAC1 with Bcl-2 family proteins. Biochem Biophys Res Commun (2003) 1.11
Comparative evolutionary analysis of VPS33 homologues: genetic and functional insights. Hum Mol Genet (2005) 1.10