Published in PLoS Comput Biol on October 13, 2011
Intercellular interactions, position, and polarity in establishing blastocyst cell lineages and embryonic axes. Cold Spring Harb Perspect Biol (2012) 1.00
The interplay of intrinsic and extrinsic bounded noises in biomolecular networks. PLoS One (2013) 0.90
Combined model of intrinsic and extrinsic variability for computational network design with application to synthetic biology. PLoS Comput Biol (2013) 0.89
Bayesian learning from marginal data in bionetwork models. Stat Appl Genet Mol Biol (2011) 0.81
Stochastic sensitivity analysis and kernel inference via distributional data. Biophys J (2014) 0.78
Build to understand: synthetic approaches to biology. Integr Biol (Camb) (2015) 0.75
A moment-convergence method for stochastic analysis of biochemical reaction networks. J Chem Phys (2016) 0.75
Effect of Intrinsic Noise on the Phenotype of Cell Populations Featuring Solution Multiplicity: An Artificial lac Operon Network Paradigm. PLoS One (2015) 0.75
Stochastic gene expression in a single cell. Science (2002) 34.54
Stochastic relaxation, gibbs distributions, and the bayesian restoration of images. IEEE Trans Pattern Anal Mach Intell (1984) 29.05
Construction of a genetic toggle switch in Escherichia coli. Nature (2000) 24.02
Stochasticity in gene expression: from theories to phenotypes. Nat Rev Genet (2005) 14.39
Control of stochasticity in eukaryotic gene expression. Science (2004) 12.85
Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells. Genetics (1998) 12.21
Intrinsic and extrinsic contributions to stochasticity in gene expression. Proc Natl Acad Sci U S A (2002) 11.46
Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science (2010) 11.37
Noise propagation in gene networks. Science (2005) 8.19
Stochastic simulation of chemical kinetics. Annu Rev Phys Chem (2007) 7.59
Control, exploitation and tolerance of intracellular noise. Nature (2002) 6.81
Stochastic switching as a survival strategy in fluctuating environments. Nat Genet (2008) 5.87
Phenotypic consequences of promoter-mediated transcriptional noise. Mol Cell (2006) 4.93
Programmable cells: interfacing natural and engineered gene networks. Proc Natl Acad Sci U S A (2004) 4.72
Regulated fluctuations in nanog expression mediate cell fate decisions in embryonic stem cells. PLoS Biol (2009) 4.60
Stochasticity and cell fate. Science (2008) 4.39
Ultrasensitivity and noise propagation in a synthetic transcriptional cascade. Proc Natl Acad Sci U S A (2005) 4.11
Linking stochastic dynamics to population distribution: an analytical framework of gene expression. Phys Rev Lett (2006) 4.06
Architecture-dependent noise discriminates functionally analogous differentiation circuits. Cell (2009) 3.05
A bistable Rb-E2F switch underlies the restriction point. Nat Cell Biol (2008) 2.91
Emergent bistability by a growth-modulating positive feedback circuit. Nat Chem Biol (2009) 2.86
Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. Proc Natl Acad Sci U S A (2004) 2.83
Regulatory activity revealed by dynamic correlations in gene expression noise. Nat Genet (2008) 2.49
Potential landscape and flux framework of nonequilibrium networks: robustness, dissipation, and coherence of biochemical oscillations. Proc Natl Acad Sci U S A (2008) 2.43
Colored extrinsic fluctuations and stochastic gene expression. Mol Syst Biol (2008) 2.32
Potential energy landscape and robustness of a gene regulatory network: toggle switch. PLoS Comput Biol (2007) 1.75
Listening to the noise: random fluctuations reveal gene network parameters. Mol Syst Biol (2009) 1.71
Optimal enumeration of state space of finitely buffered stochastic molecular networks and exact computation of steady state landscape probability. BMC Syst Biol (2008) 1.68
Deciding fate in adverse times: sporulation and competence in Bacillus subtilis. Proc Natl Acad Sci U S A (2009) 1.65
Thermodynamics of stoichiometric biochemical networks in living systems far from equilibrium. Biophys Chem (2004) 1.63
Molecular level stochastic model for competence cycles in Bacillus subtilis. Proc Natl Acad Sci U S A (2007) 1.54
A chance at survival: gene expression noise and phenotypic diversification strategies. Mol Microbiol (2009) 1.49
Deviant effects in molecular reaction pathways. Nat Biotechnol (2006) 1.48
Probability landscape of heritable and robust epigenetic state of lysogeny in phage lambda. Proc Natl Acad Sci U S A (2010) 1.38
Transcript counting in single cells reveals dynamics of rDNA transcription. Mol Syst Biol (2010) 1.32
Biological role of noise encoded in a genetic network motif. Proc Natl Acad Sci U S A (2010) 1.25
Using noise to probe and characterize gene circuits. Proc Natl Acad Sci U S A (2008) 1.25
Umbrella sampling for nonequilibrium processes. J Chem Phys (2007) 1.20
A stochastic spectral analysis of transcriptional regulatory cascades. Proc Natl Acad Sci U S A (2009) 1.19
Noise reduction by diffusional dissipation in a minimal quorum sensing motif. PLoS Comput Biol (2008) 1.12
Signatures of combinatorial regulation in intrinsic biological noise. Proc Natl Acad Sci U S A (2008) 1.05
Stochastic E2F activation and reconciliation of phenomenological cell-cycle models. PLoS Biol (2010) 1.03
Perfect sampling of the master equation for gene regulatory networks. Biophys J (2007) 0.93
Identification from stochastic cell-to-cell variation: a genetic switch case study. IET Syst Biol (2010) 0.89
Bacteria determine fate by playing dice with controlled odds. Proc Natl Acad Sci U S A (2010) 0.88
Stochastic models and numerical algorithms for a class of regulatory gene networks. Bull Math Biol (2009) 0.86
Oncogenic pathway signatures in human cancers as a guide to targeted therapies. Nature (2005) 19.56
Gene expression predictors of breast cancer outcomes. Lancet (2003) 6.99
Retracted A genomic strategy to refine prognosis in early-stage non-small-cell lung cancer. N Engl J Med (2006) 6.69
Retracted An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer. J Clin Oncol (2007) 5.77
High-Dimensional Sparse Factor Modeling: Applications in Gene Expression Genomics. J Am Stat Assoc (2008) 3.92
Gene expression phenotypic models that predict the activity of oncogenic pathways. Nat Genet (2003) 3.78
Long-term monitoring of bacteria undergoing programmed population control in a microchemostat. Science (2005) 3.54
Engineering microbial consortia: a new frontier in synthetic biology. Trends Biotechnol (2008) 3.26
Statistical mixture modeling for cell subtype identification in flow cytometry. Cytometry A (2008) 3.06
A synthetic Escherichia coli predator-prey ecosystem. Mol Syst Biol (2008) 2.92
A bistable Rb-E2F switch underlies the restriction point. Nat Cell Biol (2008) 2.91
Emergent bistability by a growth-modulating positive feedback circuit. Nat Chem Biol (2009) 2.86
Integrated modeling of clinical and gene expression information for personalized prediction of disease outcomes. Proc Natl Acad Sci U S A (2004) 2.74
Gene expression profiling and genetic markers in glioblastoma survival. Cancer Res (2005) 2.63
Understanding GPU Programming for Statistical Computation: Studies in Massively Parallel Massive Mixtures. J Comput Graph Stat (2010) 2.38
Patterns of gene expression that characterize long-term survival in advanced stage serous ovarian cancers. Clin Cancer Res (2005) 2.37
Gene expression phenotypes of atherosclerosis. Arterioscler Thromb Vasc Biol (2004) 2.23
A genomic strategy to elucidate modules of oncogenic pathway signaling networks. Mol Cell (2009) 2.22
Image segmentation and dynamic lineage analysis in single-cell fluorescence microscopy. Cytometry A (2010) 1.75
Gene expression profiles of multiple breast cancer phenotypes and response to neoadjuvant chemotherapy. Clin Cancer Res (2006) 1.72
The genomic analysis of lactic acidosis and acidosis response in human cancers. PLoS Genet (2008) 1.60
Spatial Mixture Modelling for Unobserved Point Processes: Examples in Immunofluorescence Histology. Bayesian Anal (2009) 1.58
Genomic prediction of locoregional recurrence after mastectomy in breast cancer. J Clin Oncol (2006) 1.57
Towards integrated clinico-genomic models for personalized medicine: combining gene expression signatures and clinical factors in breast cancer outcomes prediction. Hum Mol Genet (2003) 1.51
Hierarchical modeling for rare event detection and cell subset alignment across flow cytometry samples. PLoS Comput Biol (2013) 1.35
Lactic acidosis triggers starvation response with paradoxical induction of TXNIP through MondoA. PLoS Genet (2010) 1.34
Distinctions in the specificity of E2F function revealed by gene expression signatures. Proc Natl Acad Sci U S A (2005) 1.34
Biology by design: reduction and synthesis of cellular components and behaviour. J R Soc Interface (2007) 1.33
Origin of bistability underlying mammalian cell cycle entry. Mol Syst Biol (2011) 1.32
Prediction of optimal versus suboptimal cytoreduction of advanced-stage serous ovarian cancer with the use of microarrays. Am J Obstet Gynecol (2004) 1.29
Prediction and uncertainty in the analysis of gene expression profiles. In Silico Biol (2002) 1.27
Optimality and robustness in quorum sensing (QS)-mediated regulation of a costly public good enzyme. Proc Natl Acad Sci U S A (2012) 1.27
Distinct gene expression phenotypes of cells lacking Rb and Rb family members. Cancer Res (2003) 1.26
Network calisthenics: control of E2F dynamics in cell cycle entry. Cell Cycle (2011) 1.25
Bayesian analysis of matrix normal graphical models. Biometrika (2009) 1.18
An integrative approach to characterize disease-specific pathways and their coordination: a case study in cancer. BMC Genomics (2008) 1.14
A synthetic biology challenge: making cells compute. Mol Biosyst (2007) 1.14
Noise reduction by diffusional dissipation in a minimal quorum sensing motif. PLoS Comput Biol (2008) 1.12
Optimal tuning of bacterial sensing potential. Mol Syst Biol (2009) 1.12
Temporal control of self-organized pattern formation without morphogen gradients in bacteria. Mol Syst Biol (2013) 1.11
Molecular evidence for arterial repair in atherosclerosis. Proc Natl Acad Sci U S A (2005) 1.09
Efficient Classification-Based Relabeling in Mixture Models. Am Stat (2011) 1.06
Spatiotemporal modulation of biodiversity in a synthetic chemical-mediated ecosystem. Nat Chem Biol (2009) 1.05
A bayesian analysis strategy for cross-study translation of gene expression biomarkers. Stat Appl Genet Mol Biol (2009) 1.04
Gene expression profiling for prediction of clinical characteristics of breast cancer. Recent Prog Horm Res (2003) 1.04
Stochastic E2F activation and reconciliation of phenomenological cell-cycle models. PLoS Biol (2010) 1.03
Programming stress-induced altruistic death in engineered bacteria. Mol Syst Biol (2012) 1.03
Sensing and integration of Erk and PI3K signals by Myc. PLoS Comput Biol (2008) 1.03
Viral-mediated noisy gene expression reveals biphasic E2f1 response to MYC. Mol Cell (2011) 1.03
Bayesian analysis of binary prediction tree models for retrospectively sampled outcomes. Biostatistics (2004) 1.02
Oscillations by minimal bacterial suicide circuits reveal hidden facets of host-circuit physiology. PLoS One (2010) 1.02
Noise-limited frequency signal transmission in gene circuits. Biophys J (2007) 0.99
A programmable microenvironment for cellular studies via microfluidics-generated double emulsions. Biomaterials (2013) 0.99
Engineering microbial systems to explore ecological and evolutionary dynamics. Curr Opin Biotechnol (2012) 0.99
Prognostic index score and clinical prediction model of local regional recurrence after mastectomy in breast cancer patients. Int J Radiat Oncol Biol Phys (2006) 0.97
Cross-study projections of genomic biomarkers: an evaluation in cancer genomics. PLoS One (2009) 0.96
The inoculum effect and band-pass bacterial response to periodic antibiotic treatment. Mol Syst Biol (2012) 0.96
Gene expression phenotypes of oncogenic signaling pathways. Cell Cycle (2003) 0.95
Hierarchical Bayesian mixture modelling for antigen-specific T-cell subtyping in combinatorially encoded flow cytometry studies. Stat Appl Genet Mol Biol (2013) 0.95
Engineering multicellular systems by cell-cell communication. Curr Opin Biotechnol (2009) 0.92
Optimization of a highly standardized carboxyfluorescein succinimidyl ester flow cytometry panel and gating strategy design using discriminative information measure evaluation. Cytometry A (2010) 0.92
Decoding biological principles using gene circuits. Mol Biosyst (2009) 0.90
Programmed Allee effect in bacteria causes a tradeoff between population spread and survival. Proc Natl Acad Sci U S A (2014) 0.89
Programmed cell death in bacteria and implications for antibiotic therapy. Trends Microbiol (2013) 0.89
Signal discrimination by differential regulation of protein stability in quorum sensing. J Mol Biol (2008) 0.88
FOXO transcription factors control E2F1 transcriptional specificity and apoptotic function. Cancer Res (2013) 0.87
Retraction: A genomic strategy to refine prognosis in early-stage non-small-cell lung cancer. N Engl J Med 2006;355:570-80. N Engl J Med (2011) 0.87
Bayesian Weibull tree models for survival analysis of clinico-genomic data. Stat Methodol (2008) 0.87
A synthetic biology approach to understanding cellular information processing. ACS Synth Biol (2012) 0.87
Selection Sampling from Large Data Sets for Targeted Inference in Mixture Modeling. Bayesian Anal (2010) 0.87
Adaptive Mixture Modelling Metropolis Methods for Bayesian Analysis of Non-linear State-Space Models. J Comput Graph Stat (2010) 0.86
Proliferation behavior of E. coli in a three-dimensional in vitro tumor model. Integr Biol (Camb) (2011) 0.86
Synthetic biology: Division of logic labour. Nature (2011) 0.85
Productive work and employment for persons with traumatic brain injury: what have we learned after 20 years? J Head Trauma Rehabil (2005) 0.85
Tension and robustness in multitasking cellular networks. PLoS Comput Biol (2012) 0.82
Bayesian learning from marginal data in bionetwork models. Stat Appl Genet Mol Biol (2011) 0.81
Programming microbial population dynamics by engineered cell-cell communication. Biotechnol J (2011) 0.80
Evolving sensitivity. ACS Chem Biol (2006) 0.80
A brave new synthetic world. A report of the first meeting on 'Frontiers in Synthetic Biology', Boston, USA, 1-2 December 2008. Genome Biol (2009) 0.80
Engineered cell-cell communication and its applications. Adv Biochem Eng Biotechnol (2014) 0.80
Generic metric to quantify quorum sensing activation dynamics. ACS Synth Biol (2013) 0.79
AN INTEGRATIVE ANALYSIS OF CANCER GENE EXPRESSION STUDIES USING BAYESIAN LATENT FACTOR MODELING. Ann Appl Stat (2009) 0.79
Bayesian Learning in Sparse Graphical Factor Models via Variational Mean-Field Annealing. J Mach Learn Res (2010) 0.78
Cell biology. Cells listen to their inner voice. Science (2014) 0.78
Model-controlled flooding with applications to image reconstruction and segmentation. J Electron Imaging (2012) 0.77
Addressing biological uncertainties in engineering gene circuits. Integr Biol (Camb) (2015) 0.77