Published in PLoS One on January 11, 2010
Spatial guilds in the Serengeti food web revealed by a Bayesian group model. PLoS Comput Biol (2011) 1.06
Resolving the structure of interactomes with hierarchical agglomerative clustering. BMC Bioinformatics (2011) 1.00
The human proteome - a scientific opportunity for transforming diagnostics, therapeutics, and healthcare. Clin Proteomics (2012) 0.98
How networks change with time. Bioinformatics (2012) 0.91
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol Biol Cell (1998) 62.20
An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics (2003) 15.42
The Arabidopsis Information Resource (TAIR): gene structure and function annotation. Nucleic Acids Res (2007) 14.24
Estimating effective population size and mutation rate from sequence data using Metropolis-Hastings sampling. Genetics (1995) 10.11
A gene expression map of the Arabidopsis root. Science (2003) 9.95
Hierarchical structure and the prediction of missing links in networks. Nature (2008) 9.03
Gaining confidence in high-throughput protein interaction networks. Nat Biotechnol (2003) 5.15
Dynamic complex formation during the yeast cell cycle. Science (2005) 5.11
Assessing experimentally derived interactions in a small world. Proc Natl Acad Sci U S A (2003) 4.53
Mixed Membership Stochastic Blockmodels. J Mach Learn Res (2008) 3.88
A predicted interactome for Arabidopsis. Plant Physiol (2007) 2.41
Mixture models and exploratory analysis in networks. Proc Natl Acad Sci U S A (2007) 2.29
A systems approach reveals regulatory circuitry for Arabidopsis trichome initiation by the GL3 and GL1 selectors. PLoS Genet (2009) 2.07
Bayesian approach to network modularity. Phys Rev Lett (2008) 1.52
TBP-associated factors in Arabidopsis. Gene (2004) 0.93
Temporary expression of the TAF10 gene and its requirement for normal development of Arabidopsis thaliana. Plant Cell Physiol (2006) 0.86
Genome sequencing in microfabricated high-density picolitre reactors. Nature (2005) 150.21
Finding community structure in very large networks. Phys Rev E Stat Nonlin Soft Matter Phys (2004) 10.30
Hierarchical structure and the prediction of missing links in networks. Nature (2008) 9.03
Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets. Nat Genet (2006) 6.74
A DNA integrity network in the yeast Saccharomyces cerevisiae. Cell (2006) 6.61
DNA Pooling: a tool for large-scale association studies. Nat Rev Genet (2002) 5.66
A robust toolkit for functional profiling of the yeast genome. Mol Cell (2004) 4.69
Human Proteinpedia enables sharing of human protein data. Nat Biotechnol (2008) 4.21
Total synthesis of a functional designer eukaryotic chromosome. Science (2014) 3.31
Synthetic chromosome arms function in yeast and generate phenotypic diversity by design. Nature (2011) 2.81
RNA interference analysis of Legionella in Drosophila cells: exploitation of early secretory apparatus dynamics. PLoS Pathog (2006) 2.44
Phosphoproteomic analysis of Her2/neu signaling and inhibition. Proc Natl Acad Sci U S A (2006) 2.30
Gene function prediction from congruent synthetic lethal interactions in yeast. Mol Syst Biol (2005) 2.04
A comprehensive synthetic genetic interaction network governing yeast histone acetylation and deacetylation. Genes Dev (2008) 2.01
Gene synthesis demystified. Trends Biotechnol (2008) 2.00
Probing nucleosome function: a highly versatile library of synthetic histone H3 and H4 mutants. Cell (2008) 1.99
Global synthetic-lethality analysis and yeast functional profiling. Trends Genet (2005) 1.82
Where have all the interactions gone? Estimating the coverage of two-hybrid protein interaction maps. PLoS Comput Biol (2007) 1.81
Spectral redemption in clustering sparse networks. Proc Natl Acad Sci U S A (2013) 1.79
Asymptotic analysis of the stochastic block model for modular networks and its algorithmic applications. Phys Rev E Stat Nonlin Soft Matter Phys (2011) 1.66
Inference and phase transitions in the detection of modules in sparse networks. Phys Rev Lett (2011) 1.62
Finding friends and enemies in an enemies-only network: a graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions. Genome Res (2008) 1.61
Comparisons of tyrosine phosphorylated proteins in cells expressing lung cancer-specific alleles of EGFR and KRAS. Proc Natl Acad Sci U S A (2008) 1.51
NeMo: Network Module identification in Cytoscape. BMC Bioinformatics (2010) 1.49
Optimal selection strategies for QTL mapping using pooled DNA samples. Eur J Hum Genet (2002) 1.45
Twist1-induced dissemination preserves epithelial identity and requires E-cadherin. J Cell Biol (2014) 1.42
Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course. Genetics (2008) 1.41
Gene-based tests of association. PLoS Genet (2011) 1.34
Retracted Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK. Nature (2012) 1.29
Commensurate distances and similar motifs in genetic congruence and protein interaction networks in yeast. BMC Bioinformatics (2005) 1.22
Profiling diverse compounds by flux- and electrophysiology-based primary screens for inhibition of human Ether-à-go-go related gene potassium channels. Assay Drug Dev Technol (2010) 1.20
Precision and recall estimates for two-hybrid screens. Bioinformatics (2008) 1.14
Accuracy and scaling phenomena in Internet mapping. Phys Rev Lett (2005) 1.10
Temporal profiling of the secretome during adipogenesis in humans. J Proteome Res (2010) 1.07
Genetic Interaction Motif Finding by expectation maximization--a novel statistical model for inferring gene modules from synthetic lethality. BMC Bioinformatics (2005) 1.07
GeneDesign 3.0 is an updated synthetic biology toolkit. Nucleic Acids Res (2010) 1.05
HistoneHits: a database for histone mutations and their phenotypes. Genome Res (2009) 1.04
Resolving the structure of interactomes with hierarchical agglomerative clustering. BMC Bioinformatics (2011) 1.00
Assembling DNA fragments by USER fusion. Methods Mol Biol (2012) 0.99
Probabilistic inference of molecular networks from noisy data sources. Bioinformatics (2004) 0.98
Scale invariance in road networks. Phys Rev E Stat Nonlin Soft Matter Phys (2006) 0.96
CLONEQC: lightweight sequence verification for synthetic biology. Nucleic Acids Res (2010) 0.95
Assembling large DNA segments in yeast. Methods Mol Biol (2012) 0.94
Ab initio prediction of transcription factor binding sites. Pac Symp Biocomput (2007) 0.91
Novel peptide-specific quantitative structure-activity relationship (QSAR) analysis applied to collagen IV peptides with antiangiogenic activity. J Med Chem (2011) 0.91
How networks change with time. Bioinformatics (2012) 0.91
The Build-a-Genome course. Methods Mol Biol (2012) 0.91
Transdisciplinary electric power grid science. Proc Natl Acad Sci U S A (2013) 0.90
Early innate immunity determines outcome of Mycobacterium tuberculosis pulmonary infection in rabbits. Cell Commun Signal (2013) 0.90
Comprehensive evaluation of imputation performance in African Americans. J Hum Genet (2012) 0.87
RNA-Seq optimization with eQTL gold standards. BMC Genomics (2013) 0.87
Analysis of VEGF--a regulated gene expression in endothelial cells to identify genes linked to angiogenesis. PLoS One (2011) 0.87
Metabolic flux correlations, genetic interactions, and disease. J Comput Biol (2009) 0.87
Continuum percolation thresholds in two dimensions. Phys Rev E Stat Nonlin Soft Matter Phys (2012) 0.86
Predicting functional associations from metabolism using bi-partite network algorithms. BMC Syst Biol (2010) 0.85
Molecular immunologic correlates of spontaneous latency in a rabbit model of pulmonary tuberculosis. Cell Commun Signal (2013) 0.85
The housekeeping gene hypoxanthine guanine phosphoribosyltransferase (HPRT) regulates multiple developmental and metabolic pathways of murine embryonic stem cell neuronal differentiation. PLoS One (2013) 0.84
Constructing the angiome: a global angiogenesis protein interaction network. Physiol Genomics (2012) 0.82
Fast association tests for genes with FAST. PLoS One (2013) 0.82
Systems biology-based identification of Mycobacterium tuberculosis persistence genes in mouse lungs. MBio (2014) 0.80
A computational approach to animal breeding. J Theor Biol (2006) 0.80
Angiogenesis-associated crosstalk between collagens, CXC chemokines, and thrombospondin domain-containing proteins. Ann Biomed Eng (2011) 0.80
Structure-based ab initio prediction of transcription factor-binding sites. Methods Mol Biol (2009) 0.79
Automatic filters for the detection of coherent structure in spatiotemporal systems. Phys Rev E Stat Nonlin Soft Matter Phys (2006) 0.78
Design-A-Gene with GeneDesign. Methods Mol Biol (2012) 0.77
Analytical approximations for the amplitude and period of a relaxation oscillator. BMC Syst Biol (2009) 0.76
HapZipper: sharing HapMap populations just got easier. Nucleic Acids Res (2012) 0.75
Decoding transcriptional regulatory interactions. Physica D (2006) 0.75
Modeling intercellular transfer of biomolecules through tunneling nanotubes. Bull Math Biol (2013) 0.75
Systems approaches for pharmacogenetics and pharmacogenomics. Pharmacogenomics (2008) 0.75