Published in Phys Rev E Stat Nonlin Soft Matter Phys on November 24, 2008
Information propagation within the Genetic Network of Saccharomyces cerevisiae. BMC Syst Biol (2010) 0.81
Robustness and information propagation in attractors of Random Boolean Networks. PLoS One (2012) 0.79
High-resolution DNA analysis of human embryonic stem cell lines reveals culture-induced copy number changes and loss of heterozygosity. Nat Biotechnol (2010) 3.21
CGH-Plotter: MATLAB toolbox for CGH-data analysis. Bioinformatics (2003) 2.28
In silico microdissection of microarray data from heterogeneous cell populations. BMC Bioinformatics (2005) 2.26
Robust detection of periodic time series measured from biological systems. BMC Bioinformatics (2005) 2.14
Gene expression dynamics in the macrophage exhibit criticality. Proc Natl Acad Sci U S A (2008) 1.95
The tumorigenic FGFR3-TACC3 gene fusion escapes miR-99a regulation in glioblastoma. J Clin Invest (2013) 1.76
Software for quantification of labeled bacteria from digital microscope images by automated image analysis. Biotechniques (2005) 1.76
Computational framework for simulating fluorescence microscope images with cell populations. IEEE Trans Med Imaging (2007) 1.69
Relationships between probabilistic Boolean networks and dynamic Bayesian networks as models of gene regulatory networks. Signal Processing (2006) 1.61
Global gene expression profile of human cord blood-derived CD133+ cells. Stem Cells (2005) 1.42
Robust quantification of in vitro angiogenesis through image analysis. IEEE Trans Med Imaging (2005) 1.36
Robust regression for periodicity detection in non-uniformly sampled time-course gene expression data. BMC Bioinformatics (2007) 1.24
A novel strategy for microarray quality control using Bayesian networks. Bioinformatics (2003) 1.23
Bright field microscopy as an alternative to whole cell fluorescence in automated analysis of macrophage images. PLoS One (2009) 1.19
Critical networks exhibit maximal information diversity in structure-dynamics relationships. Phys Rev Lett (2008) 1.12
Simulation of microarray data with realistic characteristics. BMC Bioinformatics (2006) 1.12
Evaluation of methods for detection of fluorescence labeled subcellular objects in microscope images. BMC Bioinformatics (2010) 1.10
Effects of transcriptional pausing on gene expression dynamics. PLoS Comput Biol (2010) 1.06
Differential gene expression in adipose stem cells cultured in allogeneic human serum versus fetal bovine serum. Tissue Eng Part A (2010) 1.05
Stochastic differential equation model for cerebellar granule cell excitability. PLoS Comput Biol (2008) 1.04
Analysis of signaling pathways in 90 cancer cell lines by protein lysate array. J Proteome Res (2007) 1.04
Mutual information in random Boolean models of regulatory networks. Phys Rev E Stat Nonlin Soft Matter Phys (2008) 1.04
Simulating fluorescent microscope images of cell populations. Conf Proc IEEE Eng Med Biol Soc (2005) 1.01
Simulation tools for biochemical networks: evaluation of performance and usability. Bioinformatics (2004) 1.01
In vivo kinetics of transcription initiation of the lar promoter in Escherichia coli. Evidence for a sequential mechanism with two rate-limiting steps. BMC Syst Biol (2011) 0.97
The effect of cosolvents on the formulation of nanoparticles from low-molecular-weight poly(l)lactide. AAPS PharmSciTech (2002) 0.97
Transcriptome and small RNA deep sequencing reveals deregulation of miRNA biogenesis in human glioma. J Pathol (2013) 0.96
SGN Sim, a stochastic genetic networks simulator. Bioinformatics (2007) 0.96
Segmentation of folds in tissue section images. Conf Proc IEEE Eng Med Biol Soc (2007) 0.93
Dynamics of transcription driven by the tetA promoter, one event at a time, in live Escherichia coli cells. Nucleic Acids Res (2012) 0.92
Information diversity in structure and dynamics of simulated neuronal networks. Front Comput Neurosci (2011) 0.92
Asymmetric disposal of individual protein aggregates in Escherichia coli, one aggregate at a time. J Bacteriol (2012) 0.91
Probabilistic RNA partitioning generates transient increases in the normalized variance of RNA numbers in synchronized populations of Escherichia coli. Mol Biosyst (2011) 0.90
Delayed stochastic model of transcription at the single nucleotide level. J Comput Biol (2009) 0.90
Effects of the promoter open complex formation on gene expression dynamics. Phys Rev E Stat Nonlin Soft Matter Phys (2010) 0.90
Cell segmentation by multi-resolution analysis and maximum likelihood estimation (MAMLE). BMC Bioinformatics (2013) 0.89
Characterization of aberrant pathways across human cancers. BMC Syst Biol (2013) 0.89
A K-means segmentation method for finding 2-D object areas based on 3-D image stacks obtained by confocal microscopy. Conf Proc IEEE Eng Med Biol Soc (2007) 0.88
A systems biological approach to identify key transcription factors and their genomic neighborhoods in human sarcomas. Chin J Cancer (2011) 0.86
Computational methods for estimation of cell cycle phase distributions of yeast cells. EURASIP J Bioinform Syst Biol (2007) 0.86
Regulation of mean and noise of the in vivo kinetics of transcription under the control of the lac/ara-1 promoter. FEBS Lett (2012) 0.86
Transcriptional profiling reflects shared and unique characters for CD34+ and CD133+ cells. Stem Cells Dev (2006) 0.85
IR spectroscopy together with multivariate data analysis as a process analytical tool for in-line monitoring of crystallization process and solid-state analysis of crystalline product. J Pharm Biomed Anal (2005) 0.84
Extraction of the number of peroxisomes in yeast cells by automated image analysis. Conf Proc IEEE Eng Med Biol Soc (2006) 0.84
A beta-mixture model for dimensionality reduction, sample classification and analysis. BMC Bioinformatics (2011) 0.84
Cancer systems biology: signal processing for cancer research. Chin J Cancer (2011) 0.84
Stochastic sequence-level model of coupled transcription and translation in prokaryotes. BMC Bioinformatics (2011) 0.83
In vivo single-molecule kinetics of activation and subsequent activity of the arabinose promoter. Nucleic Acids Res (2013) 0.83
A joint finite mixture model for clustering genes from independent Gaussian and beta distributed data. BMC Bioinformatics (2009) 0.83
Evaluating the performance of microarray segmentation algorithms. Bioinformatics (2006) 0.83
Stability of functions in Boolean models of gene regulatory networks. Chaos (2005) 0.82
NanoMiner - integrative human transcriptomics data resource for nanoparticle research. PLoS One (2013) 0.82
Effects of temperature on the dynamics of the LacI-TetR-CI repressilator. Mol Biosyst (2013) 0.82
Tracking perturbations in Boolean networks with spectral methods. Phys Rev E Stat Nonlin Soft Matter Phys (2005) 0.81
Tuning cell differentiation patterns and single cell dynamics by regulating proteins' functionalities in a toggle switch. J Theor Biol (2009) 0.81
Quantification of vesicles in differentiating human SH-SY5Y neuroblastoma cells by automated image analysis. Neurosci Lett (2005) 0.81
Automated quantification of lymph node size and number in surgical specimens of stage II colorectal cancer. Conf Proc IEEE Eng Med Biol Soc (2005) 0.81
An integrated study of aberrant gene copy number and gene expression in GIST and LMS. Technol Cancer Res Treat (2010) 0.81
Reconstruction and validation of RefRec: a global model for the yeast molecular interaction network. PLoS One (2010) 0.81
Information propagation within the Genetic Network of Saccharomyces cerevisiae. BMC Syst Biol (2010) 0.81
NF-Y influences directionality of transcription from the bidirectional Mrps12/Sarsm promoter in both mouse and human cells. Biochim Biophys Acta (2009) 0.80
Effects of Mg(2+) on in vivo transcriptional dynamics of the lar promoter. Biosystems (2011) 0.80
Dynamical effects of transcriptional pause-prone sites. Comput Biol Chem (2010) 0.80
Differential gene expression in non-malignant tumour microenvironment is associated with outcome in follicular lymphoma patients treated with rituximab and CHOP. Br J Haematol (2006) 0.79
Three-dimensional digital image analysis of immunostained neurons in thick tissue sections. Conf Proc IEEE Eng Med Biol Soc (2006) 0.79
Robustness of the division symmetry in Escherichia coli and functional consequences of symmetry breaking. Phys Biol (2014) 0.79
Unsupervised analysis uncovers changes in histopathologic diagnosis in supervised genomic studies. Technol Cancer Res Treat (2006) 0.79
RMBNToolbox: random models for biochemical networks. BMC Syst Biol (2007) 0.78
Diversity of temporal correlations between genes in models of noisy and noiseless gene networks. Biosystems (2011) 0.78
Iterated maps for annealed Boolean networks. Phys Rev E Stat Nonlin Soft Matter Phys (2006) 0.78
In silico analysis of division times of Escherichia coli populations as a function of the partitioning scheme of non-functional proteins. In Silico Biol (2015) 0.77
Effects of rate-limiting steps in transcription initiation on genetic filter motifs. PLoS One (2013) 0.77
Effect of mixing on enzymatic hydrolysis of cardboard waste: saccharification yield and subsequent separation of the solid residue using a pressure filter. Bioresour Technol (2012) 0.77
Determining noisy attractors of delayed stochastic gene regulatory networks from multiple data sources. Bioinformatics (2009) 0.77
ESTOOLS Data@Hand: human stem cell gene expression resource. Nat Methods (2013) 0.77
Multi-scale Gaussian representation and outline-learning based cell image segmentation. BMC Bioinformatics (2013) 0.77
Effects of codon sequence on the dynamics of genetic networks. J Theor Biol (2012) 0.77
Quantification of in vitro cell invasion through image analysis. Conf Proc IEEE Eng Med Biol Soc (2004) 0.77
Analysis of angiogenesis using in vitro experiments and stochastic growth models. Phys Rev E Stat Nonlin Soft Matter Phys (2005) 0.76
Cell-to-cell diversity in protein levels of a gene driven by a tetracycline inducible promoter. BMC Mol Biol (2011) 0.76
Inference of kinetic parameters of delayed stochastic models of gene expression using a markov chain approximation. EURASIP J Bioinform Syst Biol (2010) 0.76
Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time. J Theor Biol (2012) 0.76
Effects of multimerization on the temporal variability of protein complex abundance. BMC Syst Biol (2013) 0.76