Published in Bioinformatics on February 05, 2004
A multiscale model for avascular tumor growth. Biophys J (2005) 2.14
Collective cell motion in endothelial monolayers. Phys Biol (2010) 1.39
On multiscale approaches to three-dimensional modelling of morphogenesis. J R Soc Interface (2005) 1.26
Dynamical mechanisms for skeletal pattern formation in the vertebrate limb. Proc Biol Sci (2004) 1.22
From single cells to tissue architecture-a bottom-up approach to modelling the spatio-temporal organisation of complex multi-cellular systems. J Math Biol (2008) 1.18
Multiscale modeling for biologists. Wiley Interdiscip Rev Syst Biol Med (2010) 1.16
At the biological modeling and simulation frontier. Pharm Res (2009) 1.15
Multicell simulations of development and disease using the CompuCell3D simulation environment. Methods Mol Biol (2009) 1.08
Adhesion between cells, diffusion of growth factors, and elasticity of the AER produce the paddle shape of the chick limb. Physica A (2007) 1.05
Stochastic collective movement of cells and fingering morphology: no maverick cells. Biophys J (2009) 1.05
Module-based multiscale simulation of angiogenesis in skeletal muscle. Theor Biol Med Model (2011) 1.04
Development of a three dimensional multiscale computational model of the human epidermis. PLoS One (2010) 1.03
Front instabilities and invasiveness of simulated avascular tumors. Bull Math Biol (2009) 1.02
Simulation of single-species bacterial-biofilm growth using the Glazier-Graner-Hogeweg model and the CompuCell3D modeling environment. Math Biosci Eng (2008) 1.02
Spatial simulations of myxobacterial development. PLoS Comput Biol (2010) 0.98
Multiscale computational analysis of Xenopus laevis morphogenesis reveals key insights of systems-level behavior. BMC Syst Biol (2007) 0.98
Invasion from a cell aggregate--the roles of active cell motion and mechanical equilibrium. Phys Biol (2012) 0.97
Systems biology and physical biology of clathrin-mediated endocytosis. Integr Biol (Camb) (2011) 0.94
The Multiscale Systems Immunology project: software for cell-based immunological simulation. Source Code Biol Med (2008) 0.93
Systems biology beyond networks: generating order from disorder through self-organization. Semin Cancer Biol (2011) 0.93
Growth based morphogenesis of vertebrate limb bud. Bull Math Biol (2008) 0.93
Multicellular sprouting in vitro. Biophys J (2008) 0.91
The Role of Cell-Cell Adhesion in the Formation of Multicellular Sprouts. Math Model Nat Phenom (2010) 0.91
A computational approach to understand in vitro alveolar morphogenesis. PLoS One (2009) 0.90
A computational model predicting disruption of blood vessel development. PLoS Comput Biol (2013) 0.89
Regular mosaic pattern development: a study of the interplay between lateral inhibition, apoptosis and differential adhesion. Theor Biol Med Model (2007) 0.89
Collective cell streams in epithelial monolayers depend on cell adhesion. New J Phys (2013) 0.88
Modeling cellular signaling: taking space into the computation. Nat Methods (2012) 0.85
Digit patterning during limb development as a result of the BMP-receptor interaction. Sci Rep (2012) 0.85
BSim: an agent-based tool for modeling bacterial populations in systems and synthetic biology. PLoS One (2012) 0.85
USNCTAM perspectives on mechanics in medicine. J R Soc Interface (2014) 0.83
The effects of cell compressibility, motility and contact inhibition on the growth of tumor cell clusters using the Cellular Potts Model. J Theor Biol (2013) 0.83
Multiscale computational models in physical systems biology of intracellular trafficking. IET Syst Biol (2014) 0.82
Computer simulation of cellular patterning within the Drosophila pupal eye. PLoS Comput Biol (2010) 0.82
The mechanics of metastasis: insights from a computational model. PLoS One (2012) 0.81
Pattern formation during vasculogenesis. Birth Defects Res C Embryo Today (2012) 0.81
Biocellion: accelerating computer simulation of multicellular biological system models. Bioinformatics (2014) 0.81
Vascular Network Formation in Expanding versus Static Tissues: Embryos and Tumors. Genes Cancer (2011) 0.80
Cell resolved, multiparticle model of plastic tissue deformations and morphogenesis. Phys Biol (2014) 0.80
Comparing individual-based approaches to modelling the self-organization of multicellular tissues. PLoS Comput Biol (2017) 0.79
Variable cell morphology approach for individual-based modeling of microbial communities. Biophys J (2014) 0.79
Multiscale Model of Colorectal Cancer Using the Cellular Potts Framework. Cancer Inform (2015) 0.78
Computational simulation methodologies for mechanobiological modelling: a cell-centred approach to neointima development in stents. Philos Trans A Math Phys Eng Sci (2010) 0.78
Endothelial cell motility, coordination and pattern formation during vasculogenesis. Wiley Interdiscip Rev Syst Biol Med (2013) 0.78
Front instabilities and invasiveness of simulated 3D avascular tumors. PLoS One (2010) 0.77
Adult Stem Cell Therapies for Wound Healing: Biomaterials and Computational Models. Front Bioeng Biotechnol (2016) 0.77
An Analysis of the Truncated Bid- and ROS-dependent Spatial Propagation of Mitochondrial Permeabilization Waves during Apoptosis. J Biol Chem (2015) 0.76
A Liver-Centric Multiscale Modeling Framework for Xenobiotics. PLoS One (2016) 0.76
Spatio-temporal morphology changes in and quenching effects on the 2D spreading dynamics of cell colonies in both plain and methylcellulose-containing culture media. J Biol Phys (2016) 0.75
Computational Modeling, Formal Analysis, and Tools for Systems Biology. PLoS Comput Biol (2016) 0.75
On an infrastructure to support sharing and aggregating pre- and post-publication systems biology research data. Syst Synth Biol (2012) 0.75
A threaded Java concurrent implementation of the Monte-Carlo Metropolis Ising model. Int Work Conf Interp Nat Artif Comput (2009) 0.75
A cell-centered, agent-based framework that enables flexible environment granularities. Theor Biol Med Model (2016) 0.75
Active Vertex Model for cell-resolution description of epithelial tissue mechanics. PLoS Comput Biol (2017) 0.75
Sequence entropy of folding and the absolute rate of amino acid substitutions. Nat Ecol Evol (2017) 0.75
Association of NOD2 leucine-rich repeat variants with susceptibility to Crohn's disease. Nature (2001) 33.12
Identification of a chromosome 18q gene that is altered in colorectal cancers. Science (1990) 8.32
Enhanced sensitivity of PTEN-deficient tumors to inhibition of FRAP/mTOR. Proc Natl Acad Sci U S A (2001) 6.99
Drosophila S6 kinase: a regulator of cell size. Science (1999) 6.76
Phosphorylation and activation of p70s6k by PDK1. Science (1998) 6.53
Mammalian TOR: a homeostatic ATP sensor. Science (2001) 6.41
Studies on phosphatidylcholine vesicles. Formation and physical characteristics. Biochemistry (1969) 5.98
CARD15 mutations in Blau syndrome. Nat Genet (2001) 5.79
Rapamycin suppresses 5'TOP mRNA translation through inhibition of p70s6k. EMBO J (1997) 5.57
Mapping of a susceptibility locus for Crohn's disease on chromosome 16. Nature (1996) 5.44
Disruption of the p70(s6k)/p85(s6k) gene reveals a small mouse phenotype and a new functional S6 kinase. EMBO J (1998) 5.34
Novel dihydropyridines with positive inotropic action through activation of Ca2+ channels. Nature (1983) 5.14
Influenza virus hemagglutinin with multibasic cleavage site is activated by furin, a subtilisin-like endoprotease. EMBO J (1992) 5.05
Anthrax toxin protective antigen is activated by a cell surface protease with the sequence specificity and catalytic properties of furin. Proc Natl Acad Sci U S A (1992) 4.91
Human furin is a calcium-dependent serine endoprotease that recognizes the sequence Arg-X-X-Arg and efficiently cleaves anthrax toxin protective antigen. J Biol Chem (1992) 4.87
The VLA protein family. Characterization of five distinct cell surface heterodimers each with a common 130,000 molecular weight beta subunit. J Biol Chem (1987) 4.47
Intracellular trafficking and activation of the furin proprotein convertase: localization to the TGN and recycling from the cell surface. EMBO J (1994) 4.46
The principal target of rapamycin-induced p70s6k inactivation is a novel phosphorylation site within a conserved hydrophobic domain. EMBO J (1995) 4.26
Rapamycin selectively represses translation of the "polypyrimidine tract" mRNA family. Proc Natl Acad Sci U S A (1994) 4.16
Genetic and biochemical characterization of dTOR, the Drosophila homolog of the target of rapamycin. Genes Dev (2000) 4.05
Ribosomal S6 kinase signaling and the control of translation. Exp Cell Res (1999) 4.04
Prostate stem cell antigen: a cell surface marker overexpressed in prostate cancer. Proc Natl Acad Sci U S A (1998) 3.89
Identification of a Kunjin/West Nile-like flavivirus in brains of patients with New York encephalitis. Lancet (1999) 3.80
PACS-1 defines a novel gene family of cytosolic sorting proteins required for trans-Golgi network localization. Cell (1998) 3.79
Activation of p70/p85 S6 kinase by a pathway independent of p21ras. Nature (1994) 3.67
Hypoinsulinaemia, glucose intolerance and diminished beta-cell size in S6K1-deficient mice. Nature (2001) 3.65
Geometric packing constraints in egg phosphatidylcholine vesicles. Proc Natl Acad Sci U S A (1978) 3.56
Bi-cycling the furin pathway: from TGN localization to pathogen activation and embryogenesis. Trends Cell Biol (1999) 3.50
Concurrent cisplatin-based chemotherapy plus radiotherapy for cervical cancer--a meta-analysis. Clin Oncol (R Coll Radiol) (2002) 3.33
Properties of lipid bilayer membranes separating two aqueous phases: determination of membrane thickness. J Mol Biol (1965) 3.29
TGF-beta/Smad3 signals repress chondrocyte hypertrophic differentiation and are required for maintaining articular cartilage. J Cell Biol (2001) 3.22
New susceptibility locus for rheumatoid arthritis suggested by a genome-wide linkage study. Proc Natl Acad Sci U S A (1998) 3.14
4E-BP1 phosphorylation is mediated by the FRAP-p70s6k pathway and is independent of mitogen-activated protein kinase. Proc Natl Acad Sci U S A (1996) 3.09
Proliferation, but not growth, blocked by conditional deletion of 40S ribosomal protein S6. Science (2000) 3.07
Ewing sarcoma 11;22 translocation produces a chimeric transcription factor that requires the DNA-binding domain encoded by FLI1 for transformation. Proc Natl Acad Sci U S A (1993) 3.07
Surface tensions of embryonic tissues predict their mutual envelopment behavior. Development (1996) 3.06
Human fur gene encodes a yeast KEX2-like endoprotease that cleaves pro-beta-NGF in vivo. J Cell Biol (1990) 3.03
HIV-1 Nef protein binds to the cellular protein PACS-1 to downregulate class I major histocompatibility complexes. Nat Cell Biol (2000) 2.95
Characterization of the cell surface heterodimer VLA-4 and related peptides. J Biol Chem (1987) 2.94
p70s6k function is essential for G1 progression. Nature (1993) 2.91
Her-2-neu expression and progression toward androgen independence in human prostate cancer. J Natl Cancer Inst (2000) 2.87
The modular phosphorylation and activation of p70s6k. FEBS Lett (1997) 2.85
Body mass index during childhood, adolescence and young adulthood in relation to adult overweight and adiposity: the Fels Longitudinal Study. Int J Obes Relat Metab Disord (2000) 2.84
beta-Amyloid-mediated vasoactivity and vascular endothelial damage. Nature (1996) 2.82
Diabetes as a risk factor for dementia and mild cognitive impairment: a meta-analysis of longitudinal studies. Intern Med J (2012) 2.81
Endometrial carcinoma--relative effectiveness of adjuvant irradiation vs therapy reserved for relapse. Gynecol Oncol (1996) 2.78
BAT-26, an indicator of the replication error phenotype in colorectal cancers and cell lines. Cancer Res (1997) 2.77
Genetic alterations associated with hepatocellular carcinomas define distinct pathways of hepatocarcinogenesis. Gastroenterology (2001) 2.73
Clinical features of adrenocortical carcinoma, prognostic factors, and the effect of mitotane therapy. N Engl J Med (1990) 2.73
Conditional biallelic Nf2 mutation in the mouse promotes manifestations of human neurofibromatosis type 2. Genes Dev (2000) 2.72
EWS and ATF-1 gene fusion induced by t(12;22) translocation in malignant melanoma of soft parts. Nat Genet (1993) 2.72
The insulin-induced signalling pathway leading to S6 and initiation factor 4E binding protein 1 phosphorylation bifurcates at a rapamycin-sensitive point immediately upstream of p70s6k. Mol Cell Biol (1997) 2.66
The effect of serum, EGF, PGF2 alpha and insulin on S6 phosphorylation and the initiation of protein and DNA synthesis. Cell (1982) 2.63
A candidate gene approach to searching for low-penetrance breast and prostate cancer genes. Nat Rev Cancer (2005) 2.62
Prostate stem cell antigen (PSCA) expression increases with high gleason score, advanced stage and bone metastasis in prostate cancer. Oncogene (2000) 2.61
Fibronectin receptor structures in the VLA family of heterodimers. Nature (1987) 2.54
Target of rapamycin (TOR): balancing the opposing forces of protein synthesis and degradation. Curr Opin Genet Dev (1999) 2.48
Inhibition of HIV-1 gp160-dependent membrane fusion by a furin-directed alpha 1-antitrypsin variant. J Biol Chem (1993) 2.40
Substrate recognition determinants of the mitogen-activated 70K S6 kinase from rat liver. J Biol Chem (1992) 2.38
Heparin is essential for the storage of specific granule proteases in mast cells. Nature (1999) 2.34
Effect of adenotonsillectomy on nocturnal hypoxaemia, sleep disturbance, and symptoms in snoring children. Lancet (1990) 2.33
Restriction of ocular fundus lesions to a specific subgroup of APC mutations in adenomatous polyposis coli patients. Cell (1993) 2.31
MAP2 kinase and 70K S6 kinase lie on distinct signalling pathways. Nature (1991) 2.30
Genetic analyses of chromosome 12 loci in Crohn's disease. Gut (2000) 2.30
Evidence for the complete inactivation of the NF2 gene in the majority of sporadic meningiomas. Nat Genet (1994) 2.28
alpha1-Antitrypsin Portland, a bioengineered serpin highly selective for furin: application as an antipathogenic agent. Proc Natl Acad Sci U S A (1998) 2.28
The principal rapamycin-sensitive p70(s6k) phosphorylation sites, T-229 and T-389, are differentially regulated by rapamycin-insensitive kinase kinases. Mol Cell Biol (1996) 2.28
PACS-1 binding to adaptors is required for acidic cluster motif-mediated protein traffic. EMBO J (2001) 2.26
Intracellular trafficking of furin is modulated by the phosphorylation state of a casein kinase II site in its cytoplasmic tail. EMBO J (1995) 2.22
Structure of a family of rat amylase genes. Nature (1980) 2.19
Association of p53 mutations with short survival in colorectal cancer. Gastroenterology (1994) 2.19
DNA-binding and transcriptional activation properties of the EWS-FLI-1 fusion protein resulting from the t(11;22) translocation in Ewing sarcoma. Mol Cell Biol (1994) 2.18
Role of S6 phosphorylation and S6 kinase in cell growth. Prog Nucleic Acid Res Mol Biol (2001) 2.15
Familial adenomatous polyposis: desmoid tumours and lack of ophthalmic lesions (CHRPE) associated with APC mutations beyond codon 1444. Hum Mol Genet (1995) 2.13
BMP-4 is proteolytically activated by furin and/or PC6 during vertebrate embryonic development. EMBO J (1998) 2.11
Determination of the replication error phenotype in human tumors without the requirement for matching normal DNA by analysis of mononucleotide repeat microsatellites. Genes Chromosomes Cancer (1998) 2.09
Cloning of the mitogen-activated S6 kinase from rat liver reveals an enzyme of the second messenger subfamily. Proc Natl Acad Sci U S A (1990) 2.09
Multiple phosphorylation of ribosomal protein S6 during transition of quiescent 3T3 cells into early G1, and cellular compartmentalization of the phosphate donor. Proc Natl Acad Sci U S A (1979) 2.09
Ablation of Cypher, a PDZ-LIM domain Z-line protein, causes a severe form of congenital myopathy. J Cell Biol (2001) 2.09
Rapamycin, wortmannin, and the methylxanthine SQ20006 inactivate p70s6k by inducing dephosphorylation of the same subset of sites. J Biol Chem (1995) 2.08
Nuclear localization of p85s6k: functional requirement for entry into S phase. EMBO J (1994) 2.06
Function and mechanism of zinc metalloenzymes. J Nutr (2000) 2.06
Identification and characterization of a mitogen-activated S6 kinase. Proc Natl Acad Sci U S A (1988) 2.06
Origins of the CSF outbreak. Vet Rec (2000) 2.00
Defective thymine dimer excision by cell-free extracts of xeroderma pigmentosum cells. Proc Natl Acad Sci U S A (1976) 1.97
A method for the synthesis of isomerically pure saturated mixed-chain phosphatidylcholines. Anal Biochem (1981) 1.96
Lysis of intravascular thrombus prior to coronary stenting using the dispatch infusion catheter. Cathet Cardiovasc Diagn (1996) 1.95
Mammalian subtilisin-related proteinases in cleavage activation of the paramyxovirus fusion glycoprotein: superiority of furin/PACE to PC2 or PC1/PC3. J Virol (1992) 1.91
The immunosuppressant rapamycin induces inactivation of p70s6k through dephosphorylation of a novel set of sites. J Biol Chem (1993) 1.91
BRCA1 sequence variations in 160 individuals referred to a breast/ovarian family cancer clinic. Institut Curie Breast Cancer Group. Am J Hum Genet (1997) 1.91
Properties of lipid bilayer membranes separating two aqueous phases: water permeability. J Mol Biol (1966) 1.91
Far-field acoustic response: origins in the cat. Science (1975) 1.91
Kex2-like endoproteases PC2 and PC3 accurately cleave a model prohormone in mammalian cells: evidence for a common core of neuroendocrine processing enzymes. Proc Natl Acad Sci U S A (1991) 1.90
Use of the monoclonal antibody 12F1 to characterize the differentiation antigen VLA-2. J Immunol (1987) 1.90
Phosphatidylinositol 3-kinase signals activate a selective subset of Rac/Rho-dependent effector pathways. Curr Biol (1996) 1.90
S6 kinase in quiescent Swiss mouse 3T3 cells is activated by phosphorylation in response to serum treatment. Proc Natl Acad Sci U S A (1988) 1.88
Protein phosphatase 2A inactivates the mitogen-stimulated S6 kinase from Swiss mouse 3T3 cells. J Biol Chem (1988) 1.87
Multiple genetic alterations in distal and proximal colorectal cancer. Lancet (1989) 1.87
PDK1 regulates growth through Akt and S6K in Drosophila. Proc Natl Acad Sci U S A (2001) 1.85
Optic neuropathy in patients with glioblastoma receiving bevacizumab. Neurology (2009) 1.84