Published in Hum Mol Genet on February 18, 2008
Regulatory roles of natural antisense transcripts. Nat Rev Mol Cell Biol (2009) 4.48
Proper regulation of a sperm-specific cis-nat-siRNA is essential for double fertilization in Arabidopsis. Genes Dev (2010) 1.44
rasiRNA pathway controls antisense expression of Drosophila telomeric retrotransposons in the nucleus. Nucleic Acids Res (2008) 1.19
Long non-coding RNA expression profiling of mouse testis during postnatal development. PLoS One (2013) 1.15
Natural antisense transcript of natriuretic peptide precursor A (NPPA): structural organization and modulation of NPPA expression. BMC Mol Biol (2009) 1.07
Non-coding RNAs: multi-tasking molecules in the cell. Int J Mol Sci (2013) 1.07
Strand selective generation of endo-siRNAs from the Na/phosphate transporter gene Slc34a1 in murine tissues. Nucleic Acids Res (2009) 1.02
Lineage-specific function of the noncoding Tsix RNA for Xist repression and Xi reactivation in mice. Genes Dev (2011) 0.96
Thousands of Novel Transcripts Identified in Mouse Cerebrum, Testis, and ES Cells Based on ribo-minus RNA Sequencing. Front Genet (2011) 0.94
What are natural antisense transcripts good for? Biochem Soc Trans (2010) 0.94
Integrative proteomic and transcriptomic analyses reveal multiple post-transcriptional regulatory mechanisms of mouse spermatogenesis. Mol Cell Proteomics (2013) 0.90
Development of an oligo DNA microarray for the European sea bass and its application to expression profiling of jaw deformity. BMC Genomics (2010) 0.89
Natural antisense transcripts are co-expressed with sense mRNAs in synaptoneurosomes of adult mouse forebrain. Neurosci Res (2008) 0.89
The association between H3K4me3 and antisense transcription. Genomics Proteomics Bioinformatics (2012) 0.88
Screening of lymph nodes metastasis associated lncRNAs in colorectal cancer patients. World J Gastroenterol (2014) 0.88
Mechanisms of small RNA generation from cis-NATs in response to environmental and developmental cues. Mol Plant (2013) 0.86
The expression of tubulin cofactor A (TBCA) is regulated by a noncoding antisense Tbca RNA during testis maturation. PLoS One (2012) 0.84
Identification of novel endogenous antisense transcripts by DNA microarray analysis targeting complementary strand of annotated genes. BMC Genomics (2009) 0.82
A genome-wide investigation of expression characteristics of natural antisense transcripts in liver and muscle samples of pigs. PLoS One (2012) 0.81
Hormone-dependent expression of a steroidogenic acute regulatory protein natural antisense transcript in MA-10 mouse tumor Leydig cells. PLoS One (2011) 0.80
The expression of ELK transcription factors in adult DRG: Novel isoforms, antisense transcripts and upregulation by nerve damage. Mol Cell Neurosci (2010) 0.80
Sense-antisense gene-pairs in breast cancer and associated pathological pathways. Oncotarget (2015) 0.79
Complex organisation and structure of the ghrelin antisense strand gene GHRLOS, a candidate non-coding RNA gene. BMC Mol Biol (2008) 0.79
Experimental RNomics and genomic comparative analysis reveal a large group of species-specific small non-message RNAs in the silkworm Bombyx mori. Nucleic Acids Res (2011) 0.79
Glucocorticoids Significantly Influence the Transcriptome of Bone Microvascular Endothelial Cells of Human Femoral Head. Chin Med J (Engl) (2015) 0.78
Long noncoding RNAs in psychiatric disorders. Psychiatr Genet (2016) 0.76
Estrogen down-regulation of the Scx gene is mediated by the opposing strand-overlapping gene Bop1. J Biol Chem (2009) 0.76
Comprehensive expressional analyses of antisense transcripts in colon cancer tissues using artificial antisense probes. BMC Med Genomics (2011) 0.75
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol (2006) 40.15
Control of developmental regulators by Polycomb in human embryonic stem cells. Cell (2006) 28.21
Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science (2003) 8.65
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet (2009) 6.02
Multiple high-throughput analyses monitor the response of E. coli to perturbations. Science (2007) 5.87
Quantitative metabolome analysis using capillary electrophoresis mass spectrometry. J Proteome Res (2003) 4.36
Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res (2006) 4.25
The Rice Annotation Project Database (RAP-DB): 2008 update. Nucleic Acids Res (2007) 4.23
Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs. Proc Natl Acad Sci U S A (2009) 3.64
Targeting a complex transcriptome: the construction of the mouse full-length cDNA encyclopedia. Genome Res (2003) 3.50
Quantitative metabolome profiling of colon and stomach cancer microenvironment by capillary electrophoresis time-of-flight mass spectrometry. Cancer Res (2009) 3.50
Differential metabolomics reveals ophthalmic acid as an oxidative stress biomarker indicating hepatic glutathione consumption. J Biol Chem (2006) 3.23
Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana. Genome Res (2007) 3.13
Conserved role of nanos proteins in germ cell development. Science (2003) 2.86
Identification of putative noncoding RNAs among the RIKEN mouse full-length cDNA collection. Genome Res (2003) 2.63
Dynamic modeling of genetic networks using genetic algorithm and S-system. Bioinformatics (2003) 2.57
Large-scale phosphorylation mapping reveals the extent of tyrosine phosphorylation in Arabidopsis. Mol Syst Biol (2008) 2.49
Impeding Xist expression from the active X chromosome improves mouse somatic cell nuclear transfer. Science (2010) 2.34
Six classes of nuclear localization signals specific to different binding grooves of importin alpha. J Biol Chem (2008) 2.26
Identification and characterization of stem cells in prepubertal spermatogenesis in mice. Dev Biol (2003) 2.24
Neurogenin3 delineates the earliest stages of spermatogenesis in the mouse testis. Dev Biol (2004) 2.13
Update on the Keio collection of Escherichia coli single-gene deletion mutants. Mol Syst Biol (2009) 2.11
The mitochondrial bottleneck occurs without reduction of mtDNA content in female mouse germ cells. Nat Genet (2007) 2.10
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. Nucleic Acids Res (2007) 2.07
Capillary electrophoresis mass spectrometry-based saliva metabolomics identified oral, breast and pancreatic cancer-specific profiles. Metabolomics (2009) 2.03
Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group. Nucleic Acids Res (2010) 2.00
Simultaneous determination of anionic intermediates for Bacillus subtilis metabolic pathways by capillary electrophoresis electrospray ionization mass spectrometry. Anal Chem (2002) 2.00
Genetic differences among C57BL/6 substrains. Exp Anim (2009) 1.99
Permuted tRNA genes expressed via a circular RNA intermediate in Cyanidioschyzon merolae. Science (2007) 1.98
Phosphopeptide enrichment by aliphatic hydroxy acid-modified metal oxide chromatography for nano-LC-MS/MS in proteomics applications. Mol Cell Proteomics (2007) 1.95
Large-scale comparative phosphoproteomics identifies conserved phosphorylation sites in plants. Plant Physiol (2010) 1.93
Asb4, Ata3, and Dcn are novel imprinted genes identified by high-throughput screening using RIKEN cDNA microarray. Biochem Biophys Res Commun (2002) 1.92
Space in systems biology of signaling pathways--towards intracellular molecular crowding in silico. FEBS Lett (2005) 1.87
Disclosing hidden transcripts: mouse natural sense-antisense transcripts tend to be poly(A) negative and nuclear localized. Genome Res (2005) 1.85
Genome Projector: zoomable genome map with multiple views. BMC Bioinformatics (2009) 1.73
Island cells control temporal association memory. Science (2014) 1.71
CDS annotation in full-length cDNA sequence. Genome Res (2003) 1.70
Impaired colonization of the gonads by primordial germ cells in mice lacking a chemokine, stromal cell-derived factor-1 (SDF-1). Proc Natl Acad Sci U S A (2003) 1.69
MathDAMP: a package for differential analysis of metabolite profiles. BMC Bioinformatics (2006) 1.68
Outflow tract cushions perform a critical valve-like function in the early embryonic heart requiring BMPRIA-mediated signaling in cardiac neural crest. Am J Physiol Heart Circ Physiol (2009) 1.66
Visualization of three-way comparisons of omics data. BMC Bioinformatics (2007) 1.66
On dynamics of overlapping genes in bacterial genomes. Gene (2003) 1.65
Phase transfer surfactant-aided trypsin digestion for membrane proteome analysis. J Proteome Res (2008) 1.64
Deletion of progranulin exacerbates atherosclerosis in ApoE knockout mice. Cardiovasc Res (2013) 1.64
KEGG-based pathway visualization tool for complex omics data. In Silico Biol (2005) 1.64
X chromosome reactivation initiates in nascent primordial germ cells in mice. PLoS Genet (2007) 1.63
Simultaneous determination of the main metabolites in rice leaves using capillary electrophoresis mass spectrometry and capillary electrophoresis diode array detection. Plant J (2004) 1.63
Comparison of gene expression in male and female mouse blastocysts revealed imprinting of the X-linked gene, Rhox5/Pem, at preimplantation stages. Curr Biol (2006) 1.61
Quantitative chemical composition of cortical GABAergic neurons revealed in transgenic venus-expressing rats. Cereb Cortex (2007) 1.58
Pathway projector: web-based zoomable pathway browser using KEGG atlas and Google Maps API. PLoS One (2009) 1.57
Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism. Mol Syst Biol (2009) 1.52
Metabolomics reveals signature of mitochondrial dysfunction in diabetic kidney disease. J Am Soc Nephrol (2013) 1.49
A multi-algorithm, multi-timescale method for cell simulation. Bioinformatics (2004) 1.48
A mammalian neural tissue opsin (Opsin 5) is a deep brain photoreceptor in birds. Proc Natl Acad Sci U S A (2010) 1.48
Complete mutation analysis panel of the 39 human HOX genes. Teratology (2002) 1.47
MEGU: pathway mapping web-service based on KEGG and SVG. In Silico Biol (2006) 1.44
emPAI Calc--for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry. Bioinformatics (2009) 1.43
A novel feature of microsatellites in plants: a distribution gradient along the direction of transcription. FEBS Lett (2003) 1.42
Depiction of metabolome changes in histidine-starved Escherichia coli by CE-TOFMS. Mol Biosyst (2007) 1.41
Metabolomic profiling of anionic metabolites by capillary electrophoresis mass spectrometry. Anal Chem (2009) 1.40
Identification of Cis-regulatory elements in the mouse Pax9/Nkx2-9 genomic region: implication for evolutionary conserved synteny. Genetics (2003) 1.37
Identification and expression analysis of putative mRNA-like non-coding RNA in Drosophila. Genes Cells (2005) 1.36
Nuclear export signal consensus sequences defined using a localization-based yeast selection system. Traffic (2008) 1.36
Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales. Mol Biol Evol (2008) 1.36
RNAi-mediated knockdown of Xist can rescue the impaired postimplantation development of cloned mouse embryos. Proc Natl Acad Sci U S A (2011) 1.34
SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level. In Silico Biol (2006) 1.33
Computational comparative analyses of alternative splicing regulation using full-length cDNA of various eukaryotes. RNA (2004) 1.33
Usp46 is a quantitative trait gene regulating mouse immobile behavior in the tail suspension and forced swimming tests. Nat Genet (2009) 1.33
Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees. Nucleic Acids Res (2007) 1.32
Computational methods for microRNA target prediction. Methods Enzymol (2007) 1.32
Bioinformatics Tools for Mass Spectroscopy-Based Metabolomic Data Processing and Analysis. Curr Bioinform (2012) 1.31
Serum metabolomics reveals γ-glutamyl dipeptides as biomarkers for discrimination among different forms of liver disease. J Hepatol (2011) 1.30
Design of peptide inhibitors for the importin alpha/beta nuclear import pathway by activity-based profiling. Chem Biol (2008) 1.30
Unbiased quantitation of Escherichia coli membrane proteome using phase transfer surfactants. Mol Cell Proteomics (2009) 1.30
Dynamic changes in the epigenomic state and nuclear organization of differentiating mouse embryonic stem cells. Genes Cells (2007) 1.29
New evidence confirms that the mitochondrial bottleneck is generated without reduction of mitochondrial DNA content in early primordial germ cells of mice. PLoS Genet (2009) 1.26
A new multicompartmental reaction-diffusion modeling method links transient membrane attachment of E. coli MinE to E-ring formation. Syst Synth Biol (2009) 1.26
GC-compositional strand bias around transcription start sites in plants and fungi. BMC Genomics (2005) 1.25
Genetic variation of melatonin productivity in laboratory mice under domestication. Proc Natl Acad Sci U S A (2010) 1.24
Metabolomic anatomy of an animal model revealing homeostatic imbalances in dyslipidaemia. Mol Biosyst (2011) 1.24
Roles of hemoglobin Allostery in hypoxia-induced metabolic alterations in erythrocytes: simulation and its verification by metabolome analysis. J Biol Chem (2007) 1.24
Quantitative assay for TALEN activity at endogenous genomic loci. Biol Open (2013) 1.22
An extreme thermophile, Thermus thermophilus, is a polyploid bacterium. J Bacteriol (2010) 1.22
Myristoylation of p39 and p35 is a determinant of cytoplasmic or nuclear localization of active cyclin-dependent kinase 5 complexes. J Neurochem (2008) 1.21
GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes. BMC Bioinformatics (2006) 1.18
One-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale. Anal Chem (2010) 1.18
Metabolomic profiling of lung and prostate tumor tissues by capillary electrophoresis time-of-flight mass spectrometry. Metabolomics (2012) 1.17