Published in Mol Biosyst on March 06, 2013
Multi-step pericellular proteolysis controls the transition from individual to collective cancer cell invasion. Nat Cell Biol (2007) 6.15
WNT and DKK determine hair follicle spacing through a reaction-diffusion mechanism. Science (2006) 3.36
Design principles of a bacterial signalling network. Nature (2005) 3.28
Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Bioinformatics (2008) 3.00
5.8S-28S rRNA interaction and HMM-based ITS2 annotation. Gene (2008) 2.51
The first comprehensive and quantitative analysis of human platelet protein composition allows the comparative analysis of structural and functional pathways. Blood (2012) 2.47
Systems biology: experimental design. FEBS J (2009) 2.44
Genome-wide analysis of DNA copy number changes and LOH in CLL using high-density SNP arrays. Blood (2006) 2.36
4SALE--a tool for synchronous RNA sequence and secondary structure alignment and editing. BMC Bioinformatics (2006) 2.24
Dynamical modeling and multi-experiment fitting with PottersWheel. Bioinformatics (2008) 2.22
Metabolic interdependence of obligate intracellular bacteria and their insect hosts. Microbiol Mol Biol Rev (2004) 2.19
Carbon metabolism of intracellular bacterial pathogens and possible links to virulence. Nat Rev Microbiol (2010) 2.04
Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures. RNA (2005) 1.94
BioNet: an R-Package for the functional analysis of biological networks. Bioinformatics (2010) 1.93
The internal transcribed spacer 2 database--a web server for (not only) low level phylogenetic analyses. Nucleic Acids Res (2006) 1.92
Control of plant organ size by KLUH/CYP78A5-dependent intercellular signaling. Dev Cell (2007) 1.80
Systems-level interactions between insulin-EGF networks amplify mitogenic signaling. Mol Syst Biol (2009) 1.77
Distinguishing species. RNA (2007) 1.74
Platelet protein interactions: map, signaling components, and phosphorylation groundstate. Arterioscler Thromb Vasc Biol (2008) 1.71
Oscillatory cerebral hemodynamics--the macro- vs. microvascular level. J Neurol Sci (2006) 1.67
Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges. ISME J (2010) 1.66
Covering a broad dynamic range: information processing at the erythropoietin receptor. Science (2010) 1.65
Spleen tyrosine kinase is overexpressed and represents a potential therapeutic target in chronic lymphocytic leukemia. Cancer Res (2009) 1.65
L1Base: from functional annotation to prediction of active LINE-1 elements. Nucleic Acids Res (2005) 1.57
Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. BMC Res Notes (2008) 1.54
Accurate and robust phylogeny estimation based on profile distances: a study of the Chlorophyceae (Chlorophyta). BMC Evol Biol (2004) 1.51
Metabolites: a helping hand for pathway evolution? Trends Biochem Sci (2003) 1.50
Whole-genome sequence of Listeria welshimeri reveals common steps in genome reduction with Listeria innocua as compared to Listeria monocytogenes. J Bacteriol (2006) 1.48
Riboswitch finder--a tool for identification of riboswitch RNAs. Nucleic Acids Res (2004) 1.47
Likelihood based observability analysis and confidence intervals for predictions of dynamic models. BMC Syst Biol (2012) 1.45
Division of labor by dual feedback regulators controls JAK2/STAT5 signaling over broad ligand range. Mol Syst Biol (2011) 1.45
Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. Biol Direct (2010) 1.44
A common strategy and database to compare the performance of seizure prediction algorithms. Epilepsy Behav (2009) 1.43
The linear chromosome of the plant-pathogenic mycoplasma 'Candidatus Phytoplasma mali'. BMC Genomics (2008) 1.42
The ITS2 Database II: homology modelling RNA structure for molecular systematics. Nucleic Acids Res (2007) 1.41
Hybrid optimization method with general switching strategy for parameter estimation. BMC Syst Biol (2008) 1.41
CBCAnalyzer: inferring phylogenies based on compensatory base changes in RNA secondary structures. In Silico Biol (2005) 1.39
An integrated view of gene expression and solute profiles of Arabidopsis tumors: a genome-wide approach. Plant Cell (2006) 1.37
Reconstructing gene-regulatory networks from time series, knock-out data, and prior knowledge. BMC Syst Biol (2007) 1.34
XML schemas for common bioinformatic data types and their application in workflow systems. BMC Bioinformatics (2006) 1.33
Integrated network reconstruction, visualization and analysis using YANAsquare. BMC Bioinformatics (2007) 1.32
A quantitative and dynamic model for plant stem cell regulation. PLoS One (2008) 1.32
Theoretical and experimental analysis links isoform-specific ERK signalling to cell fate decisions. Mol Syst Biol (2009) 1.31
Assessing the strength of directed influences among neural signals using renormalized partial directed coherence. J Neurosci Methods (2009) 1.31
Joining forces of Bayesian and frequentist methodology: a study for inference in the presence of non-identifiability. Philos Trans A Math Phys Eng Sci (2012) 1.30
Lessons learned from quantitative dynamical modeling in systems biology. PLoS One (2013) 1.28
Interactions of methylene blue with human disulfide reductases and their orthologues from Plasmodium falciparum. Antimicrob Agents Chemother (2007) 1.28
Genome-wide mapping of foamy virus vector integrations into a human cell line. J Gen Virol (2006) 1.28
Toward computer-based cleavage site prediction of cysteine endopeptidases. Biol Chem (2003) 1.27
Gene expression profiling in polycythaemia vera: overexpression of transcription factor NF-E2. Br J Haematol (2005) 1.26
Testing for directed influences among neural signals using partial directed coherence. J Neurosci Methods (2005) 1.26
Testing statistical significance of multivariate time series analysis techniques for epileptic seizure prediction. Chaos (2006) 1.26
ProfDistS: (profile-) distance based phylogeny on sequence--structure alignments. Bioinformatics (2008) 1.25
Iron regulation and the cell cycle: identification of an iron-responsive element in the 3'-untranslated region of human cell division cycle 14A mRNA by a refined microarray-based screening strategy. J Biol Chem (2006) 1.25
Transcription factors ETF, E2F, and SP-1 are involved in cytokine-independent proliferation of murine hepatocytes. Hepatology (2010) 1.25
Metabolic programming of MEST DNA methylation by intrauterine exposure to gestational diabetes mellitus. Diabetes (2012) 1.25
Combining functional and anatomical connectivity reveals brain networks for auditory language comprehension. Neuroimage (2009) 1.25
YANA - a software tool for analyzing flux modes, gene-expression and enzyme activities. BMC Bioinformatics (2005) 1.24
Effects of attention and precision of exerted force on beta range EEG-EMG synchronization during a maintained motor contraction task. Clin Neurophysiol (2002) 1.23
Photoconversion and nuclear trafficking cycles determine phytochrome A's response profile to far-red light. Cell (2011) 1.23
A red/far-red light-responsive bi-stable toggle switch to control gene expression in mammalian cells. Nucleic Acids Res (2013) 1.22
13C isotopologue perturbation studies of Listeria monocytogenes carbon metabolism and its modulation by the virulence regulator PrfA. Proc Natl Acad Sci U S A (2006) 1.21
The highly attenuated oncolytic recombinant vaccinia virus GLV-1h68: comparative genomic features and the contribution of F14.5L inactivation. Mol Genet Genomics (2009) 1.20
Two-dimensional patterning by a trapping/depletion mechanism: the role of TTG1 and GL3 in Arabidopsis trichome formation. PLoS Biol (2008) 1.19
Functional diversity of R3 single-repeat genes in trichome development. Development (2009) 1.18
Multi-chromatic control of mammalian gene expression and signaling. Nucleic Acids Res (2013) 1.17
Phylogeny of Firmicutes with special reference to Mycoplasma (Mollicutes) as inferred from phosphoglycerate kinase amino acid sequence data. Int J Syst Evol Microbiol (2004) 1.16
Joining the benefits: combining epileptic seizure prediction methods. Epilepsia (2010) 1.16
Wall teichoic acid structure governs horizontal gene transfer between major bacterial pathogens. Nat Commun (2013) 1.15
Platelet NAD(P)H-oxidase-generated ROS production regulates alphaIIbbeta3-integrin activation independent of the NO/cGMP pathway. Blood (2005) 1.15
ProfDist: a tool for the construction of large phylogenetic trees based on profile distances. Bioinformatics (2005) 1.13
Shared components of protein complexes--versatile building blocks or biochemical artefacts? Bioessays (2004) 1.13
Computational processing and error reduction strategies for standardized quantitative data in biological networks. FEBS J (2005) 1.13
An integrative model for phytochrome B mediated photomorphogenesis: from protein dynamics to physiology. PLoS One (2010) 1.12
Analysis of SAGE data in human platelets: features of the transcriptome in an anucleate cell. Thromb Haemost (2006) 1.10
Definition and characterization of the systemic T-cell dysregulation in untreated indolent B-cell lymphoma and very early CLL. Blood (2011) 1.09
Gene profiling of polycystic kidneys. Nephrol Dial Transplant (2006) 1.09
Zebrafish Pou5f1-dependent transcriptional networks in temporal control of early development. Mol Syst Biol (2010) 1.08
Use of functional highly purified human platelets for the identification of new proteins of the IPP signaling pathway. Thromb Res (2007) 1.07
Partial phase synchronization for multivariate synchronizing systems. Phys Rev Lett (2006) 1.07
A critical evaluation of network and pathway-based classifiers for outcome prediction in breast cancer. PLoS One (2012) 1.06
Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach. BMC Syst Biol (2014) 1.06
RIP death domain structural interactions implicated in TNF-mediated proliferation and survival. Proteins (2006) 1.06
Comparison of approaches for parameter identifiability analysis of biological systems. Bioinformatics (2014) 1.06
The virtual liver: state of the art and future perspectives. Arch Toxicol (2014) 1.05
A novel approach for reliable microarray analysis of microdissected tumor cells from formalin-fixed and paraffin-embedded colorectal cancer resection specimens. J Mol Med (Berl) (2008) 1.04
Dynamic pathway modeling: feasibility analysis and optimal experimental design. Ann N Y Acad Sci (2007) 1.04
Corticomuscular coherence in the 6-15 Hz band: is the cortex involved in the generation of physiologic tremor? Exp Brain Res (2001) 1.03
Experimental design for parameter estimation of gene regulatory networks. PLoS One (2012) 1.03
Cerebral autoregulation dynamics in acute ischemic stroke after rtPA thrombolysis. Cerebrovasc Dis (2008) 1.03
Perforin-like protein PPLP2 permeabilizes the red blood cell membrane during egress of Plasmodium falciparum gametocytes. Cell Microbiol (2014) 1.02
The EPILEPSIAE database: an extensive electroencephalography database of epilepsy patients. Epilepsia (2012) 1.02
Cerebral dysautoregulation and the risk of ischemic events in occlusive carotid artery disease. J Neurol (2008) 1.01
Integrated systems view on networking by hormones in Arabidopsis immunity reveals multiple crosstalk for cytokinin. Plant Cell (2012) 1.01