Published in Stat Appl Genet Mol Biol on February 24, 2006
Unraveling protein networks with power graph analysis. PLoS Comput Biol (2008) 1.77
Triangle network motifs predict complexes by complementing high-error interactomes with structural information. BMC Bioinformatics (2009) 0.75
Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01
Genome-wide association of early-onset myocardial infarction with single nucleotide polymorphisms and copy number variants. Nat Genet (2009) 12.19
Genomic analysis of regulatory network dynamics reveals large topological changes. Nature (2004) 9.32
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet (2009) 6.02
Molecular signatures of G-protein-coupled receptors. Nature (2013) 5.19
Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease. Nat Genet (2008) 4.96
Gene regulatory network growth by duplication. Nat Genet (2004) 3.79
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Discovery of the principal specific transcription factors of Apicomplexa and their implication for the evolution of the AP2-integrase DNA binding domains. Nucleic Acids Res (2005) 3.36
IL23R variation determines susceptibility but not disease phenotype in inflammatory bowel disease. Gastroenterology (2007) 2.97
Classification of intrinsically disordered regions and proteins. Chem Rev (2014) 2.48
Mechanistic insight into site-restricted monoubiquitination of FANCD2 by Ube2t, FANCL, and FANCI. Mol Cell (2008) 2.45
Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast. J Mol Biol (2006) 2.36
Tissue-specific splicing of disordered segments that embed binding motifs rewires protein interaction networks. Mol Cell (2012) 2.02
Independence of repressive histone marks and chromatin compaction during senescent heterochromatic layer formation. Mol Cell (2012) 2.02
Evolving nature of the AP2 alpha-appendage hub during clathrin-coated vesicle endocytosis. EMBO J (2004) 1.87
Supra-domains: evolutionary units larger than single protein domains. J Mol Biol (2004) 1.82
High-affinity DNA binding sites for H-NS provide a molecular basis for selective silencing within proteobacterial genomes. Nucleic Acids Res (2007) 1.80
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Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum. Genome Biol (2011) 1.72
Statistical analysis of domains in interacting protein pairs. Bioinformatics (2004) 1.64
A novel algorithm and web-based tool for comparing two alternative phylogenetic trees. Bioinformatics (2005) 1.64
Interplay between gene expression noise and regulatory network architecture. Trends Genet (2012) 1.61
Alternative splicing of intrinsically disordered regions and rewiring of protein interactions. Curr Opin Struct Biol (2013) 1.61
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Defining a genomic radius for long-range enhancer action: duplicated conserved non-coding elements hold the key. Trends Genet (2005) 1.52
Uncovering a hidden distributed architecture behind scale-free transcriptional regulatory networks. J Mol Biol (2006) 1.52
Whole genome sequencing highlights genetic changes associated with laboratory domestication of C. elegans. PLoS One (2010) 1.44
Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans. Genome Biol (2007) 1.41
The rules of disorder or why disorder rules. Prog Biophys Mol Biol (2009) 1.39
Subunit-selective N-terminal domain associations organize the formation of AMPA receptor heteromers. EMBO J (2011) 1.33
The HIRAN domain and recruitment of chromatin remodeling and repair activities to damaged DNA. Cell Cycle (2006) 1.32
Dissecting the expression dynamics of RNA-binding proteins in posttranscriptional regulatory networks. Proc Natl Acad Sci U S A (2009) 1.30
Cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action. Mol Syst Biol (2010) 1.30
A time-invariant principle of genome evolution. Proc Natl Acad Sci U S A (2010) 1.24
Conservation and evolutionary dynamics of the agr cell-to-cell communication system across firmicutes. J Bacteriol (2007) 1.23
Construction of a large extracellular protein interaction network and its resolution by spatiotemporal expression profiling. Mol Cell Proteomics (2010) 1.22
Promiscuity as a functional trait: intrinsically disordered regions as central players of interactomes. Biochem J (2013) 1.21
Xpf and not the Fanconi anaemia proteins or Rev3 accounts for the extreme resistance to cisplatin in Dictyostelium discoideum. PLoS Genet (2009) 1.19
Interplay between network structures, regulatory modes and sensing mechanisms of transcription factors in the transcriptional regulatory network of E. coli. J Mol Biol (2007) 1.18
Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes. Proc Natl Acad Sci U S A (2008) 1.15
Endothelial nitric oxide synthase polymorphisms are associated with type 2 diabetes and the insulin resistance syndrome. Diabetes (2003) 1.15
Principles of transcriptional regulation and evolution of the metabolic system in E. coli. Genome Res (2008) 1.14
Chance and necessity in chromosomal gene distributions. Trends Genet (2008) 1.13
Probabilistic annotation of protein sequences based on functional classifications. BMC Bioinformatics (2005) 1.12
Cellular strategies for regulating functional and nonfunctional protein aggregation. Cell Rep (2012) 1.08
Genomic neighbourhood and the regulation of gene expression. Curr Opin Cell Biol (2010) 1.06
Network-based approaches for linking metabolism with environment. Genome Biol (2008) 1.06
The impact of genomic neighborhood on the evolution of human and chimpanzee transcriptome. Genome Res (2009) 1.06
Contribution of TNFSF15 gene variants to Crohn's disease susceptibility confirmed in UK population. Inflamm Bowel Dis (2008) 1.04
Early prediction of the long term evolution of multiple sclerosis: the Bayesian Risk Estimate for Multiple Sclerosis (BREMS) score. J Neurol Neurosurg Psychiatry (2007) 1.02
Fcγ receptor I alpha chain (CD64) expression in macrophages is critical for the onset of meningitis by Escherichia coli K1. PLoS Pathog (2010) 1.01
Association between protective and deleterious HLA alleles with multiple sclerosis in Central East Sardinia. PLoS One (2009) 1.00
Some statistical properties of regulatory DNA sequences, and their use in predicting regulatory regions in the Drosophila genome: the fluffy-tail test. BMC Bioinformatics (2005) 0.99
Dissecting ensemble networks in ES cell populations reveals micro-heterogeneity underlying pluripotency. Mol Biosyst (2012) 0.98
Association between the ACCN1 gene and multiple sclerosis in Central East Sardinia. PLoS One (2007) 0.97
DNA sequence preferences of transcriptional activators correlate more strongly than repressors with nucleosomes. Mol Cell (2012) 0.97
Structural, evolutionary, and assembly principles of protein oligomerization. Prog Mol Biol Transl Sci (2013) 0.97
A novel prognostic index to determine the impact of cardiac conditions and co-morbidities on one-year outcome in patients with heart failure. Am J Cardiol (2006) 0.96
Epithelial organisation revealed by a network of cellular contacts. Nat Commun (2011) 0.95
A complex network framework for unbiased statistical analyses of DNA-DNA contact maps. Nucleic Acids Res (2012) 0.95
Genetic association between NLRP3 variants and Crohn's disease does not replicate in a large UK panel. Inflamm Bowel Dis (2010) 0.93
Human inositol polyphosphate multikinase regulates transcript-selective nuclear mRNA export to preserve genome integrity. Mol Cell (2013) 0.92
Striking nucleotide frequency pattern at the borders of highly conserved vertebrate non-coding sequences. Trends Genet (2005) 0.92
Recognition pliability is coupled to structural heterogeneity: a calmodulin intrinsically disordered binding region complex. Structure (2012) 0.91
Comparison of transcription regulatory interactions inferred from high-throughput methods: what do they reveal? Trends Genet (2008) 0.90
Evolutionary selection for protein aggregation. Biochem Soc Trans (2012) 0.89
Evolution. The hidden codes that shape protein evolution. Science (2013) 0.89
A permutation test of host-parasite cospeciation. Mol Biol Evol (2009) 0.89
Solitary and repetitive binding motifs for the AP2 complex alpha-appendage in amphiphysin and other accessory proteins. J Biol Chem (2007) 0.88
Diverse activation pathways in class A GPCRs converge near the G-protein-coupling region. Nature (2016) 0.87
Duel of the fates: the role of transcriptional circuits and noise in CD4+ cells. Curr Opin Cell Biol (2012) 0.87
Exploiting gene deletion fitness effects in yeast to understand the modular architecture of protein complexes under different growth conditions. BMC Syst Biol (2009) 0.86
Transcriptional control of the quorum sensing response in yeast. Mol Biosyst (2009) 0.85
Conservation of unique cell-surface CD antigen mosaics in HIV-1-infected individuals. Blood (2005) 0.83
Cumulative estrogen exposure, number of menstrual cycles, and Alzheimer's risk in a cohort of British women. Psychoneuroendocrinology (2013) 0.80
A hierarchical statistical modeling approach to analyze proteomic isobaric tag for relative and absolute quantitation data. Bioinformatics (2013) 0.79
Exploring the environmental preference of weak interactions in (alpha/beta)8 barrel proteins. Proteins (2006) 0.79
Investigations on C-H...pi interactions in RNA binding proteins. Int J Biol Macromol (2007) 0.78
Studying statistical properties of regulatory DNA sequences, and their use in predicting regulatory regions in the eukaryotic genomes. Brief Bioinform (2006) 0.78
Registering alpha-helices and beta-strands using backbone C-H...O interactions. Proteins (2003) 0.78
The efficiency of mitochondrial electron transport chain is increased in the long-lived mrg19 Saccharomyces cerevisiae. Aging Cell (2009) 0.78
Spial: analysis of subtype-specific features in multiple sequence alignments of proteins. Bioinformatics (2010) 0.78
Quality determination and the repair of poor quality spots in array experiments. BMC Bioinformatics (2005) 0.77
Characterisation of conserved non-coding sequences in vertebrate genomes using bioinformatics, statistics and functional studies. Comp Biochem Physiol Part D Genomics Proteomics (2005) 0.77
Transcript stability in the protein interaction network of Escherichia coli. Mol Biosyst (2008) 0.77
Proteomic analysis of mitotic RNA polymerase II reveals novel interactors and association with proteins dysfunctional in disease. Mol Cell Proteomics (2011) 0.77
Nanobiotechnology: Scaling up synthetic gene circuits. Nat Nanotechnol (2010) 0.76
Improving the power to detect differentially expressed genes in comparative microarray experiments by including information from self-self hybridizations. Comput Biol Chem (2007) 0.76
Deciphering membrane protein structures from protein sequences. Genome Biol (2012) 0.76
Intrinsically disordered proteins. Mol Biosyst (2011) 0.76
Maternal breastfeeding history and Alzheimer's disease risk. J Alzheimers Dis (2013) 0.76
Classifying pairs with trees for supervised biological network inference. Mol Biosyst (2015) 0.75
A methodology to infer gene networks from spatial patterns of expression--an application to fluorescence in situ hybridization images. Mol Biosyst (2013) 0.75