Published in BMC Genomics on January 24, 2009
lincRNAs: genomics, evolution, and mechanisms. Cell (2013) 6.50
Histone methylation: a dynamic mark in health, disease and inheritance. Nat Rev Genet (2012) 5.42
Systematic bias in high-throughput sequencing data and its correction by BEADS. Nucleic Acids Res (2011) 2.48
Detection and removal of biases in the analysis of next-generation sequencing reads. PLoS One (2011) 1.91
Gene structure in the sea urchin Strongylocentrotus purpuratus based on transcriptome analysis. Genome Res (2012) 1.37
When chromatin meets splicing. Nat Struct Mol Biol (2009) 1.16
Chromatin and epigenetic regulation of pre-mRNA processing. Hum Mol Genet (2012) 1.10
Fine mapping of genome activation in bovine embryos by RNA sequencing. Proc Natl Acad Sci U S A (2014) 1.05
RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts. Genome Res (2015) 0.95
De novo transcriptome sequencing in a songbird, the dark-eyed junco (Junco hyemalis): genomic tools for an ecological model system. BMC Genomics (2012) 0.93
In with the old, in with the new: the promiscuity of the duplication process engenders diverse pathways for novel gene creation. Int J Evol Biol (2012) 0.91
Epithelial sodium channel (ENaC) family: Phylogeny, structure-function, tissue distribution, and associated inherited diseases. Gene (2016) 0.89
Intraspecific sequence variation and differential expression in starch synthase genes of Arabidopsis thaliana. BMC Res Notes (2013) 0.88
Fusion genes and their discovery using high throughput sequencing. Cancer Lett (2013) 0.88
Is GC bias in the nuclear genome of the carnivorous plant Utricularia driven by ROS-based mutation and biased gene conversion? Plant Signal Behav (2011) 0.87
Comparative analysis of teleost genome sequences reveals an ancient intron size expansion in the zebrafish lineage. Genome Biol Evol (2011) 0.86
Introns form compositional clusters in parallel with the compositional clusters of the coding sequences to which they pertain. J Mol Evol (2010) 0.82
Computer analysis of protein functional sites projection on exon structure of genes in Metazoa. BMC Genomics (2015) 0.82
The bimodal distribution of genic GC content is ancestral to monocot species. Genome Biol Evol (2014) 0.81
Transposon-derived and satellite-derived repetitive sequences play distinct functional roles in Mammalian intron size expansion. Evol Bioinform Online (2012) 0.81
Comparative Analysis of AGPase Genes and Encoded Proteins in Eight Monocots and Three Dicots with Emphasis on Wheat. Front Plant Sci (2017) 0.80
Recurrent loss of specific introns during angiosperm evolution. PLoS Genet (2014) 0.79
Genome-wide cataloging and analysis of alternatively spliced genes in cereal crops. BMC Genomics (2015) 0.78
OccuPeak: ChIP-Seq peak calling based on internal background modelling. PLoS One (2014) 0.78
Evolutionary genomics of Colias Phosphoglucose Isomerase (PGI) introns. J Mol Evol (2012) 0.77
Purifying Selection on Exonic Splice Enhancers in Intronless Genes. Mol Biol Evol (2016) 0.77
Do Intron and Coding Sequences of Some Human-Mouse Orthologs Evolve as a Single Unit? J Mol Evol (2016) 0.77
The Lesion Simulating Disease (LSD) gene family as a variable in soybean response to Phakopsora pachyrhizi infection and dehydration. Funct Integr Genomics (2013) 0.77
Identification and Validation of Evolutionarily Conserved Unusually Short Pre-mRNA Introns in the Human Genome. Int J Mol Sci (2015) 0.76
Evolutionary genetic insights into Plasmodium falciparum functional genes. Parasitol Res (2009) 0.76
GC-Content of Synonymous Codons Profoundly Influences Amino Acid Usage. G3 (Bethesda) (2015) 0.76
Introns Structure Patterns of Variation in Nucleotide Composition in Arabidopsis thaliana and Rice Protein-Coding Genes. Genome Biol Evol (2015) 0.76
Genome editing through large insertion leads to the skipping of targeted exon. BMC Genomics (2015) 0.76
Connecting the dots: chromatin and alternative splicing in EMT. Biochem Cell Biol (2015) 0.75
Herpes simplex virus ICP27 regulates alternative pre-mRNA polyadenylation and splicing in a sequence-dependent manner. Proc Natl Acad Sci U S A (2016) 0.75
WISCOD: a statistical web-enabled tool for the identification of significant protein coding regions. Biomed Res Int (2014) 0.75
Identification and Expression Analysis of Candidate Genes Involved in Carotenoid Biosynthesis in Chickpea Seeds. Front Plant Sci (2016) 0.75
Characterizing exons and introns by regularity of nucleotide strings. Biol Direct (2016) 0.75
Lineage-specific sequence evolution and exon edge conservation partially explain the relationship between evolutionary rate and expression level in A. thaliana. Mol Ecol (2015) 0.75
Divergence of introns in the paralogous growth hormone genes of salmonid fish indicates the effect of selection. Dokl Biol Sci (2013) 0.75
Properties of genes essential for mouse development. PLoS One (2017) 0.75
Similar ratios of introns to intergenic sequence across animal genomes. Genome Biol Evol (2017) 0.75
Human-mouse alignments with BLASTZ. Genome Res (2003) 35.49
Why genes in pieces? Nature (1978) 19.03
The small nucleolar RNAs. Annu Rev Biochem (1995) 6.26
Evidence for DNA loss as a determinant of genome size. Science (2000) 4.25
Analysis of conserved noncoding DNA in Drosophila reveals similar constraints in intergenic and intronic sequences. Genome Res (2001) 4.22
Intron-exon structures of eukaryotic model organisms. Nucleic Acids Res (1999) 3.84
Heterologous introns can enhance expression of transgenes in mice. Proc Natl Acad Sci U S A (1991) 3.34
Distribution and characterization of regulatory elements in the human genome. Genome Res (2002) 3.34
Alternative splicing and RNA selection pressure--evolutionary consequences for eukaryotic genomes. Nat Rev Genet (2006) 3.00
The architecture of pre-mRNAs affects mechanisms of splice-site pairing. Proc Natl Acad Sci U S A (2005) 2.78
The evolution of controlled multitasked gene networks: the role of introns and other noncoding RNAs in the development of complex organisms. Mol Biol Evol (2001) 2.67
Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content. Genome Biol (2005) 2.41
On the abundance and distribution of transposable elements in the genome of Drosophila melanogaster. Mol Biol Evol (2002) 2.36
An isochore map of human chromosomes. Genome Res (2006) 2.36
Architectural limits on split genes. Proc Natl Acad Sci U S A (1996) 2.29
So much "junk" DNA in our genome. Brookhaven Symp Biol (1972) 2.09
Selfish DNA and the origin of introns. Nature (1985) 2.08
Distributions of exons and introns in the human genome. In Silico Biol (2004) 2.06
Analysis of evolution of exon-intron structure of eukaryotic genes. Brief Bioinform (2005) 1.89
Patterns and rates of intron divergence between humans and chimpanzees. Genome Biol (2007) 1.61
Intron size and exon evolution in Drosophila. Genetics (2005) 1.56
The neoselectionist theory of genome evolution. Proc Natl Acad Sci U S A (2007) 1.46
Selective constraints on intron evolution in Drosophila. Genetics (2003) 1.43
Intron requirement for expression of the human purine nucleoside phosphorylase gene. Nucleic Acids Res (1992) 1.42
Preferential loss and gain of introns in 3' portions of genes suggests a reverse-transcription mechanism of intron insertion. Gene (2004) 1.39
Group II intron retroelements: function and diversity. Cytogenet Genome Res (2005) 1.30
First exons and introns--a survey of GC content and gene structure in the human genome. In Silico Biol (2006) 1.19
Why do genes have introns? Recombination might add a new piece to the puzzle. Trends Genet (2001) 1.15
What controls the length of noncoding DNA? Curr Opin Genet Dev (2001) 1.12
Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Investigating the intron recognition mechanism in eukaryotes. Mol Biol Evol (2005) 1.03
Dynamics and function of intron sequences of the wingless gene during the evolution of the Drosophila genus. Evol Dev (2004) 0.82
Clinical efficacy of a RAF inhibitor needs broad target blockade in BRAF-mutant melanoma. Nature (2010) 16.12
HMDB: the Human Metabolome Database. Nucleic Acids Res (2007) 13.38
Structures of the bacterial ribosome at 3.5 A resolution. Science (2005) 12.63
Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine. Nat Biotechnol (2010) 9.01
The first metal-organic framework (MOF) of Imazethapyr and its SHG, piezoelectric and ferroelectric properties. Dalton Trans (2008) 8.86
Variation in homeodomain DNA binding revealed by high-resolution analysis of sequence preferences. Cell (2008) 7.93
The muscle-specific microRNA miR-1 regulates cardiac arrhythmogenic potential by targeting GJA1 and KCNJ2. Nat Med (2007) 7.59
Revealing global regulatory features of mammalian alternative splicing using a quantitative microarray platform. Mol Cell (2004) 7.32
Effects of body size and hypertension treatments on cardiovascular event rates: subanalysis of the ACCOMPLISH randomised controlled trial. Lancet (2012) 6.69
Hydrogen-bonded ferroelectrics based on metal-organic coordination. J Am Chem Soc (2009) 6.69
Enhanced nitrogen deposition over China. Nature (2013) 5.49
Exploration of essential gene functions via titratable promoter alleles. Cell (2004) 5.21
Probing microRNAs with microarrays: tissue specificity and functional inference. RNA (2004) 4.91
Supramolecular bola-like ferroelectric: 4-methoxyanilinium tetrafluoroborate-18-crown-6. J Am Chem Soc (2011) 4.73
Diisopropylammonium chloride: a ferroelectric organic salt with a high phase transition temperature and practical utilization level of spontaneous polarization. Adv Mater (2011) 4.30
High-definition macromolecular composition of yeast RNA-processing complexes. Mol Cell (2004) 4.18
Developmental fluoride neurotoxicity: a systematic review and meta-analysis. Environ Health Perspect (2012) 4.15
Pyrazinamide inhibits trans-translation in Mycobacterium tuberculosis. Science (2011) 4.13
Visualization of membrane protein domains by cryo-electron microscopy of dengue virus. Nat Struct Biol (2003) 4.11
Activation of the PTEN/mTOR/STAT3 pathway in breast cancer stem-like cells is required for viability and maintenance. Proc Natl Acad Sci U S A (2007) 4.05
Nitrogen deposition and its ecological impact in China: an overview. Environ Pollut (2010) 4.03
Dynamic interactions of cortactin and membrane type 1 matrix metalloproteinase at invadopodia: defining the stages of invadopodia formation and function. Cancer Res (2006) 3.83
One-year health care costs associated with delirium in the elderly population. Arch Intern Med (2008) 3.82
MicroRNA-34a inhibits glioblastoma growth by targeting multiple oncogenes. Cancer Res (2009) 3.57
The A2B adenosine receptor protects against inflammation and excessive vascular adhesion. J Clin Invest (2006) 3.49
V1 spinal neurons regulate the speed of vertebrate locomotor outputs. Nature (2006) 3.45
Effects of microRNA-29 on apoptosis, tumorigenicity, and prognosis of hepatocellular carcinoma. Hepatology (2010) 3.37
Vaccine potential of the Neisseria meningitidis 2086 lipoprotein. Infect Immun (2004) 3.29
The flavivirus precursor membrane-envelope protein complex: structure and maturation. Science (2008) 3.26
Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes. Nature (2008) 3.13
Improved virological outcomes in British Columbia concomitant with decreasing incidence of HIV type 1 drug resistance detection. Clin Infect Dis (2010) 3.12
A panoramic view of yeast noncoding RNA processing. Cell (2003) 3.11
Somatic copy number mosaicism in human skin revealed by induced pluripotent stem cells. Nature (2012) 3.09
A multiferroic perdeutero metal-organic framework. Angew Chem Int Ed Engl (2011) 2.88
DAPK1 interaction with NMDA receptor NR2B subunits mediates brain damage in stroke. Cell (2010) 2.87
Crystal structure of a Rad51 filament. Nat Struct Mol Biol (2004) 2.83
Mycobacterial catalase-peroxidase is a tissue antigen and target of the adaptive immune response in systemic sarcoidosis. J Exp Med (2005) 2.69
Proposed diagnostic criteria for internet addiction. Addiction (2010) 2.68
Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression. Genome Res (2009) 2.64
A chart-based method for identification of delirium: validation compared with interviewer ratings using the confusion assessment method. J Am Geriatr Soc (2005) 2.63
Recombinant vascular endothelial growth factor 121 attenuates hypertension and improves kidney damage in a rat model of preeclampsia. Hypertension (2007) 2.62
Identification of amino acids in HA and PB2 critical for the transmission of H5N1 avian influenza viruses in a mammalian host. PLoS Pathog (2009) 2.62
Net primary production of Chinese croplands from 1950 to 1999. Ecol Appl (2007) 2.61
Person-to-person transmission of severe fever with thrombocytopenia syndrome bunyavirus through blood contact. Clin Infect Dis (2011) 2.59
Activity-independent homeostasis in rhythmically active neurons. Neuron (2003) 2.57
Structural basis for mRNA and tRNA positioning on the ribosome. Proc Natl Acad Sci U S A (2006) 2.55
Downregulation of miR-133 and miR-590 contributes to nicotine-induced atrial remodelling in canines. Cardiovasc Res (2009) 2.54
Structural basis for aminoglycoside inhibition of bacterial ribosome recycling. Nat Struct Mol Biol (2007) 2.54
Delirium in the intensive care unit: occurrence and clinical course in older patients. J Am Geriatr Soc (2003) 2.53
Linking H3K79 trimethylation to Wnt signaling through a novel Dot1-containing complex (DotCom). Genes Dev (2010) 2.53
Clinical progress and risk factors for death in severe fever with thrombocytopenia syndrome patients. J Infect Dis (2012) 2.49
CutDB: a proteolytic event database. Nucleic Acids Res (2006) 2.41
Epigenetic regulation of SOX9 by the NF-κB signaling pathway in pancreatic cancer stem cells. Stem Cells (2013) 2.40
Chromatin remodelers Isw1 and Chd1 maintain chromatin structure during transcription by preventing histone exchange. Nat Struct Mol Biol (2012) 2.37
Survival prediction of gastric cancer by a seven-microRNA signature. Gut (2009) 2.37
Alternative splicing of conserved exons is frequently species-specific in human and mouse. Trends Genet (2005) 2.26
SCL and associated proteins distinguish active from repressive GATA transcription factor complexes. Blood (2008) 2.19
Genome-wide analysis of mouse transcripts using exon microarrays and factor graphs. Nat Genet (2005) 2.15
Flexible DNA bending in HU-DNA cocrystal structures. EMBO J (2003) 2.15
Retracted MicroRNA miR-133 represses HERG K+ channel expression contributing to QT prolongation in diabetic hearts. J Biol Chem (2007) 2.14
Integration of estrogen and Wnt signaling circuits by the polycomb group protein EZH2 in breast cancer cells. Mol Cell Biol (2007) 2.14
Quality of Australian clinical guidelines and relevance to the care of older people with multiple comorbid conditions. Med J Aust (2008) 2.11
Genome-scale analysis of DNA methylation in lung adenocarcinoma and integration with mRNA expression. Genome Res (2012) 2.10
Lack of association of ADH1C genotype with breast cancer susceptibility in Caucasian population: a pooled analysis of case-control studies. Breast (2012) 2.08
Cryo-EM reconstruction of dengue virus in complex with the carbohydrate recognition domain of DC-SIGN. Cell (2006) 2.08
Characteristics of Chinese patients with Wegener's granulomatosis with anti-myeloperoxidase autoantibodies. Kidney Int (2005) 2.07
Repulsive guidance molecule (RGMa), a DRAGON homologue, is a bone morphogenetic protein co-receptor. J Biol Chem (2005) 2.07
MicroRNA-328 contributes to adverse electrical remodeling in atrial fibrillation. Circulation (2010) 2.07
MicroRNA control of bone formation and homeostasis. Nat Rev Endocrinol (2012) 2.05
Recent duplications dominate NBS-encoding gene expansion in two woody species. Mol Genet Genomics (2008) 2.04
Genetic basis of virulence attenuation revealed by comparative genomic analysis of Mycobacterium tuberculosis strain H37Ra versus H37Rv. PLoS One (2008) 2.01
miRNA-223 promotes gastric cancer invasion and metastasis by targeting tumor suppressor EPB41L3. Mol Cancer Res (2011) 2.00
Effects of therapeutic mild hypothermia on patients with severe traumatic brain injury after craniotomy. J Crit Care (2007) 2.00
Highly penetrative, drug-loaded nanocarriers improve treatment of glioblastoma. Proc Natl Acad Sci U S A (2013) 1.95
Natural selection for polymorphism in the disease resistance gene Rps2 of Arabidopsis thaliana. Genetics (2003) 1.95
Inhibition of the TGF-beta receptor I kinase promotes hematopoiesis in MDS. Blood (2008) 1.95
Short leukocyte telomere length predicts risk of diabetes in american indians: the strong heart family study. Diabetes (2013) 1.91
microRNA-34a is tumor suppressive in brain tumors and glioma stem cells. Cell Cycle (2010) 1.90
Life history response of Mediterranean fruit flies to dietary restriction. Aging Cell (2002) 1.89
A research algorithm to improve detection of delirium in the intensive care unit. Crit Care (2006) 1.89
DRAGON, a bone morphogenetic protein co-receptor. J Biol Chem (2005) 1.89
Associations of processed meat and unprocessed red meat intake with incident diabetes: the Strong Heart Family Study. Am J Clin Nutr (2012) 1.88
GWAS identifies novel susceptibility loci on 6p21.32 and 21q21.3 for hepatocellular carcinoma in chronic hepatitis B virus carriers. PLoS Genet (2012) 1.86
Adenomatous polyposis coli (APC) differentially regulates beta-catenin phosphorylation and ubiquitination in colon cancer cells. J Biol Chem (2006) 1.86
Hypomethylation-linked activation of PAX2 mediates tamoxifen-stimulated endometrial carcinogenesis. Nature (2005) 1.86
PhoU is a persistence switch involved in persister formation and tolerance to multiple antibiotics and stresses in Escherichia coli. Antimicrob Agents Chemother (2007) 1.85
IKK mediates ischemia-induced neuronal death. Nat Med (2005) 1.83
A regulatory protein that interferes with activator-stimulated transcription in bacteria. Proc Natl Acad Sci U S A (2003) 1.82
Prevention and reversal of atrial fibrillation inducibility and autonomic remodeling by low-level vagosympathetic nerve stimulation. J Am Coll Cardiol (2011) 1.81
Functional coordination of alternative splicing in the mammalian central nervous system. Genome Biol (2007) 1.80
Kruppel-like factor 4 is acetylated by p300 and regulates gene transcription via modulation of histone acetylation. J Biol Chem (2007) 1.78
Ganglionated plexi modulate extrinsic cardiac autonomic nerve input: effects on sinus rate, atrioventricular conduction, refractoriness, and inducibility of atrial fibrillation. J Am Coll Cardiol (2007) 1.77
DUBs and cancer: the role of deubiquitinating enzymes as oncogenes, non-oncogenes and tumor suppressors. Cell Cycle (2009) 1.77
Interactive atrial neural network: Determining the connections between ganglionated plexi. Heart Rhythm (2006) 1.76
An inactivated enterovirus 71 vaccine in healthy children. N Engl J Med (2014) 1.76
The AlkB domain of mammalian ABH8 catalyzes hydroxylation of 5-methoxycarbonylmethyluridine at the wobble position of tRNA. Angew Chem Int Ed Engl (2010) 1.76
Finding cis-regulatory elements using comparative genomics: some lessons from ENCODE data. Genome Res (2007) 1.75
Structure-Guided Blockade of CSF1R Kinase in Tenosynovial Giant-Cell Tumor. N Engl J Med (2015) 1.75