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List of works by Douglas A. Lauffenburger

2D protrusion but not motility predicts growth factor-induced cancer cell migration in 3D collagen

scientific article

A Dynamical Systems Model for Combinatorial Cancer Therapy Enhances Oncolytic Adenovirus Efficacy by MEK-Inhibition ⬇️

scientific article published on February 17, 2011

A Functional Role for Antibodies in Tuberculosis

scientific article published on 21 September 2016

A Mena invasion isoform potentiates EGF-induced carcinoma cell invasion and metastasis

scientific article published on December 2008

A Role for Fc Function in Therapeutic Monoclonal Antibody-Mediated Protection against Ebola Virus

scientific article published on 01 August 2018

A biological approach to computational models of proteomic networks

scientific article

A compendium of signals and responses triggered by prodeath and prosurvival cytokines

scientific article published on 18 July 2005

A computational study of feedback effects on signal dynamics in a mitogen-activated protein kinase (MAPK) pathway model

scientific article published in March 2001

A high-throughput migration assay reveals HER2-mediated cell migration arising from increased directional persistence

scientific article

A high-throughput quantitative multiplex kinase assay for monitoring information flow in signaling networks: application to sepsis-apoptosis

scientific article published on 26 June 2003

A hybrid continuum-discrete modelling approach to predict and control angiogenesis: analysis of combinatorial growth factor and matrix effects on vessel-sprouting morphology

scientific article published in June 2010

A liver microphysiological system of tumor cell dormancy and inflammatory responsiveness is affected by scaffold properties

scientific article published on 2 December 2016

A mammalian functional-genetic approach to characterizing cancer therapeutics ⬇️

scientific article published on December 26, 2010

A microphysiological system model of therapy for liver micrometastases

scientific article

A model for mechanotransduction in cardiac muscle: effects of extracellular matrix deformation on autocrine signaling

scientific article published in October 2004

A model of dormant-emergent metastatic breast cancer progression enabling exploration of biomarker signatures.

scientific article published on 20 January 2018

A multipathway phosphoproteomic signaling network model of idiosyncratic drug- and inflammatory cytokine-induced toxicity in human hepatocytes

scientific article published on January 2009

A multiplexed homogeneous fluorescence-based assay for protein kinase activity in cell lysates

scientific article

A new publisher for our new biology

scientific article published on 01 January 2019

A rapid and sensitive quantitative kinase activity assay using a convenient 96-well format

scientific article published on 01 May 1999

A simple expression for quantifying bacterial chemotaxis using capillary assay data: application to the analysis of enhanced chemotactic responses from growth-limited cultures ⬇️

scientific article published on May 1, 1992

A stochastic model for leukocyte random motility and chemotaxis based on receptor binding fluctuations

scientific article

A systems biology pipeline identifies regulatory networks for stem cell engineering

scientific article published on 01 July 2019

A systems model of signaling identifies a molecular basis set for cytokine-induced apoptosis

scientific article published in December 2005

ADAM-10 and -17 regulate endometriotic cell migration via concerted ligand and receptor shedding feedback on kinase signaling

scientific article published on 14 May 2013

ADAM10 Sheddase Activity is a Potential Lung-Cancer Biomarker

scientific article published on 23 June 2018

ADAM8 as a drug target in pancreatic cancer.

scientific article

ADAM9 inhibition increases membrane activity of ADAM10 and controls α-secretase processing of amyloid precursor protein

scientific article published on 28 September 2011

Abstract 437: Mena at the nexus of chemotaxis and haptotaxis during tumor progression

article by Madeleine J. Oudin et al published 1 August 2015 in Cancer Research

Acidic Extracellular pH Promotes Activation of Integrin αvβ3 ⬇️

scientific article published on January 19, 2011

Acidification of Tumor at Stromal Boundaries Drives Transcriptome Alterations Associated with Aggressive Phenotypes

scientific article published on 12 February 2019

Ad26 vaccine protects against SARS-CoV-2 severe clinical disease in hamsters

scientific article published on 03 September 2020

Addressing genetic tumor heterogeneity through computationally predictive combination therapy

scientific article published on 06 December 2013

Adenoviral vector saturates Akt pro-survival signaling and blocks insulin-mediated rescue of tumor necrosis-factor-induced apoptosis

scientific article published on 29 August 2006

Advances in the quantification of mitochondrial function in primary human immune cells through extracellular flux analysis.

scientific article

Affinity regulates spatial range of EGF receptor autocrine ligand binding

scientific article published on October 2002

All-human microphysical model of metastasis therapy

scientific article

An engineering design approach to systems biology

scientific article

An inducible autocrine cascade regulates rat hepatocyte proliferation and apoptosis responses to tumor necrosis factor-alpha

scientific article

An integrated comparative phosphoproteomic and bioinformatic approach reveals a novel class of MPM-2 motifs upregulated in EGFRvIII-expressing glioblastoma cells

scientific article

An interspecies translation model implicates integrin signaling in infliximab-resistant inflammatory bowel disease

scientific article published on 04 August 2020

Analysis of Single-Cell RNA-Seq Identifies Cell-Cell Communication Associated with Tumor Characteristics

scientific article published on 01 November 2018

Analysis of chemotactic bacterial distributions in population migration assays using a mathematical model applicable to steep or shallow attractant gradients

scientific article published in January 1991

Analysis of receptor internalization as a mechanism for modulating signal transduction

scientific article published in November 1998

Analysis of the roles of microvessel endothelial cell random motility and chemotaxis in angiogenesis ⬇️

scientific article published on October 7, 1991

Antigen-specific antibody Fc glycosylation enhances humoral immunity via the recruitment of complement

scientific article published on 01 August 2018

Apoptotic Bodies Elicit Gas6-Mediated Migration of AXL-Expressing Tumor Cells

scientific article

Applying computational modeling to drug discovery and development

scientific article published on September 2006

Approaches to in vitro tissue regeneration with application for human disease modeling and drug development

scientific article published on 02 May 2014

Artificial neural networks enable genome-scale simulations of intracellular signaling

scientific article published on 02 June 2022

Assays of leukocyte chemotaxis

scientific article published on 01 January 1986

Author Correction: A systems biology pipeline identifies regulatory networks for stem cell engineering

scientific article published on 01 August 2019

Autocrine EGF receptor activation mediates endothelial cell migration and vascular morphogenesis induced by VEGF under interstitial flow

scientific article

Autocrine epidermal growth factor signaling stimulates directionally persistent mammary epithelial cell migration ⬇️

scientific article published on December 24, 2001

Autocrine ligand binding to cell receptors. Mathematical analysis of competition by solution "decoys" ⬇️

scientific article published on February 1, 1992

BAY61-3606 affects the viability of colon cancer cells in a genotype-directed manner

scientific article

Bacterial chemotaxis. Cell flux model, parameter measurement, population dynamics, and genetic manipulation

scientific article published on January 1987

Bayesian analysis of signaling networks governing embryonic stem cell fate decisions

scientific article published on 12 October 2004

Bayesian network approach to cell signaling pathway modeling

scientific article

Bcl-2 Family Genetic Profiling Reveals Microenvironment-Specific Determinants of Chemotherapeutic Response ⬇️

scientific article published on July 22, 2011

Bioengineering and systems biology

scientific article published on July 2006

Biological engineering and systems biology--new opportunities for engineers in the pharmaceutical industry

scientific article published in January 2004

Biophysical integration of effects of epidermal growth factor and fibronectin on fibroblast migration

scientific article

Building with a scaffold: emerging strategies for high- to low-level cellular modeling

scientific article

CD4+ T cell-dependent and CD4+ T cell-independent cytokine-chemokine network changes in the immune responses of HIV-infected individuals

scientific article

Calpain proteases in cell adhesion and motility

scientific article

Calpain-2 as a target for limiting prostate cancer invasion

scientific article published in August 2003

Cancer systems biology: a network modeling perspective

scientific article

Cardiomyocyte hypertrophy and degradation of connexin43 through spatially restricted autocrine/paracrine heparin-binding EGF

scientific article

Cell adhesion and motility depend on nanoscale RGD clustering.

scientific article

Cell population dynamics model for deconvolution of murine embryonic stem cell self-renewal and differentiation responses to cytokines and extracellular matrix

scientific article published in November 2004

Cell-level pharmacokinetic model of granulocyte colony-stimulating factor: implications for ligand lifetime and potency in vivo

scientific article published in January 2003

Cell-specific labeling enzymes for analysis of cell-cell communication in continuous co-culture.

scientific article

CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms

scientific article

Cellular Regulatory Networks

Cellular barcodes for efficiently profiling single-cell secretory responses by microengraving

scientific article published on 03 December 2012

Characterization of the expression of the pro-metastatic Mena(INV) isoform during breast tumor progression

scientific article published on 17 December 2015

Chemotactic factor concentration gradients in chemotaxis assay systems

scientific article published in January 1981

Chemotaxis of human microvessel endothelial cells in response to acidic fibroblast growth factor

scientific article published on November 1990

Clonal evolution of stem and differentiated cells can be predicted by integrating cell-intrinsic and -extrinsic parameters

scientific article published on October 2005

Clostridioides difficile-Associated Antibiotics Alter Human Mucosal Barrier Functions by Microbiome-Independent Mechanisms

scientific article published on 24 March 2020

Co-regulation of cell adhesion by nanoscale RGD organization and mechanical stimulus.

scientific article published on April 2002

Coagulopathy signature precedes and predicts severity of end-organ heat stroke pathology in a mouse model

scientific article published on 04 May 2020

Collecting and organizing systematic sets of protein data

scientific article

Combination antibody treatment down-regulates epidermal growth factor receptor by inhibiting endosomal recycling.

scientific article

Combined experimental and computational analysis of DNA damage signaling reveals context-dependent roles for Erk in apoptosis and G1/S arrest after genotoxic stress

scientific article published on 31 January 2012

Common effector processing mediates cell-specific responses to stimuli

scientific article

Comparative mitogenic potencies of EGF and TGF alpha and their dependence on receptor-limitation versus ligand-limitation

scientific article published on 01 July 1998

Comparing signaling networks between normal and transformed hepatocytes using discrete logical models

scientific article

Compromised Humoral Functional Evolution Tracks with SARS-CoV-2 Mortality

scientific article published on 03 November 2020

Computational model for cell migration in three-dimensional matrices

scientific article

Computational modeling of the EGF-receptor system: a paradigm for systems biology

scientific article

Computational translation of genomic responses from experimental model systems to humans

article

Concentration gradients of chemotactic factors in chemotaxis assays

scientific article published on 01 January 1988

Consequences of chemosensory phenomena for leukocyte chemotactic orientation

scientific article published on 01 February 1986

Control of self-assembling oligopeptide matrix formation through systematic variation of amino acid sequence

scientific article published on 01 January 2002

Controlling multipotent stromal cell migration by integrating "course-graining" materials and "fine-tuning" small molecules via decision tree signal-response modeling

scientific article

Controlling receptor/ligand trafficking: Effects of cellular and molecular properties on endosomal sorting ⬇️

scientific article published on July 1, 1997

Coregulation of epidermal growth factor receptor/human epidermal growth factor receptor 2 (HER2) levels and locations: quantitative analysis of HER2 overexpression effects

scientific article published on 01 March 2003

Correction: Multi-Scale In Vivo Systems Analysis Reveals the Influence of Immune Cells on TNF-α-Induced Apoptosis in the Intestinal Epithelium.

scientific article published on 26 October 2012

Correlates of protection against SARS-CoV-2 in rhesus macaques

scientific article published on 04 December 2020

Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks

scientific article (publication date: May 2012)

Cross-species transcriptomic signatures predict response to MK2 inhibition in mouse models of chronic inflammation

scientific article published on 07 November 2021

Cue-signal-response analysis of TNF-induced apoptosis by partial least squares regression of dynamic multivariate data

scientific article published in January 2004

Cutting to the chase: calpain proteases in cell motility

scientific article

Cytokine-associated drug toxicity in human hepatocytes is associated with signaling network dysregulation

scientific article published on April 2010

DNA Repair Capacity in Multiple Pathways Predicts Chemoresistance in Glioblastoma Multiforme.

scientific article published on 28 October 2016

Decision tree modeling predicts effects of inhibiting contractility signaling on cell motility

scientific article

Defining principles of combination drug mechanisms of action ⬇️

scientific article published on December 18, 2012

Deoxycytidine Release from Pancreatic Stellate Cells Promotes Gemcitabine Resistance

scientific article published on 04 September 2019

Detecting kinase activities from single cell lysate using concentration-enhanced mobility shift assay

scientific article

Development and Application of the Metalloprotease Activity Multiplexed Bead-Based Immunoassay (MAMBI)

scientific article published on 09 September 2019

Differential levels of soluble inflammatory markers by human immunodeficiency virus controller status and demographics

scientific article

Differential selective pressure alters rate of drug resistance acquisition in heterogeneous tumor populations

scientific article

Direct Lyapunov exponent analysis enables parametric study of transient signalling governing cell behaviour

scientific article

Directional cell migration in an extracellular pH gradient: A model study with an engineered cell line and primary microvascular endothelial cells ⬇️

scientific article published on November 12, 2012

Directional persistence of EGF-induced cell migration is associated with stabilization of lamellipodial protrusions

scientific article

Discrete SARS-CoV-2 antibody titers track with functional humoral stability

scientific article published on 15 February 2021

Discrete logic modelling as a means to link protein signalling networks with functional analysis of mammalian signal transduction

scientific article

Dissecting N-Glycosylation Dynamics in Chinese Hamster Ovary Cells Fed-batch Cultures using Time Course Omics Analyses

article

Dissecting Polyclonal Vaccine-Induced Humoral Immunity against HIV Using Systems Serology

scientific article

Dissecting the antibody-OME: past, present, and future

scientific article published on 02 August 2020

Distinct Early Serological Signatures Track with SARS-CoV-2 Survival

scientific article published on 30 July 2020

Distinct genital tract HIV-specific antibody profiles associated with tenofovir gel.

scientific article published on 27 January 2016

EGF receptor regulation of cell motility: EGF induces disassembly of focal adhesions independently of the motility-associated PLCγ signaling pathway ⬇️

scientific article published on March 1, 1998

EGF-receptor-mediated mammary epithelial cell migration is driven by sustained ERK signaling from autocrine stimulation

scientific article

Early cross-coronavirus reactive signatures of humoral immunity against COVID-19

scientific article published on 15 October 2021

Effect of epidermal growth factor receptor internalization on regulation of the phospholipase C-gamma1 signaling pathway

scientific article published on March 1999

Effects of Bcl-2 levels on Fas signaling-induced caspase-3 activation: molecular genetic tests of computational model predictions

scientific article published on July 2005

Effects of HER2 overexpression on cell signaling networks governing proliferation and migration

scientific article

Effects of systematic variation of amino acid sequence on the mechanical properties of a self-assembling, oligopeptide biomaterial

scientific article published on 01 January 2002

Efficient blockade of locally reciprocated tumor-macrophage signaling using a TAM-avid nanotherapy

scientific article published on 22 May 2020

Elevated GM-CSF and IL-1beta levels compromise the ability of p38 MAPK inhibitors to modulate TNFalpha levels in the human monocytic/macrophage U937 cell line

scientific article published on 9 July 2010

Endothelial cell phenotypic behaviors cluster into dynamic state transition programs modulated by angiogenic and angiostatic cytokines ⬇️

scientific article published on March 1, 2013

Engineering dynamics of growth factors and other therapeutic ligands

scientific article

Engineering epidermal growth factor for enhanced mitogenic potency

scientific article published on December 1996

Enhanced immune activation linked to endotoxemia in HIV-1 seronegative MSM.

scientific article published on September 2014

Enhancing protease activity assay in droplet-based microfluidics using a biomolecule concentrator

scientific article

Epi-allelic Erk1 and Erk2 knockdown series for quantitative analysis of T cell Erk regulation and IL-2 production

scientific article published on 05 April 2007

Epidemiological and immunological features of obesity and SARS-CoV-2

scientific article published on 13 November 2020

Epidermal growth factor alters fibroblast migration speed and directional persistence reciprocally and in a matrix-dependent manner ⬇️

scientific article published on August 1, 1998

Epidermal growth factor induces acute matrix contraction and subsequent calpain-modulated relaxation

scientific article published on 01 January 2002

Epidermal growth factor induces fibroblast contractility and motility via a protein kinase C delta-dependent pathway

scientific article published on 27 January 2004

Epidermal growth factor receptor activation of calpain is required for fibroblast motility and occurs via an ERK/MAP kinase signaling pathway

scientific article

Epidermal growth factor-induced enhancement of glioblastoma cell migration in 3D arises from an intrinsic increase in speed but an extrinsic matrix- and proteolysis-dependent increase in persistence

scientific article

Epithelial and mesenchymal phenotypic switchings modulate cell motility in metastasis

scientific article published on January 2011

Eradication of large established tumors in mice by combination immunotherapy that engages innate and adaptive immune responses

scientific article published on 24 October 2016

Erratum: Distinct genital tract HIV-specific antibody profiles associated with tenofovir gel

article

Escape of autocrine ligands into extracellular medium: experimental test of theoretical model predictions

scientific article published in March 1998

Evolution of Early SARS-CoV-2 and Cross-Coronavirus Immunity

scientific article published on 02 September 2020

Exploiting Temporal Collateral Sensitivity in Tumor Clonal Evolution

scientific article published on 24 February 2016

Exploiting glycan topography for computational design of Env glycoprotein antigenicity

scientific article published on 20 April 2018

Fatty Acid Metabolites Combine with Reduced β Oxidation to Activate Th17 Inflammation in Human Type 2 Diabetes

scientific article published on 01 August 2019

Fc Glycan-Mediated Regulation of Placental Antibody Transfer

scientific article published on 13 June 2019

Flexible informatics for linking experimental data to mathematical models via DataRail

scientific article

Functional Genomics Approach Identifies Novel Signaling Regulators of TGFα Ectodomain Shedding

scientific article published on 10 October 2017

Functional convalescent plasma antibodies and pre-infusion titers shape the early severe COVID-19 immune response

scientific article published on 25 November 2021

Fuzzy logic analysis of kinase pathway crosstalk in TNF/EGF/insulin-induced signaling

scientific article

Gene delivery properties of end-modified poly(beta-amino ester)s

scientific article

Genital inflammation and the risk of HIV acquisition in women

scientific article

Genital-Systemic Chemokine Gradients and the Risk of HIV Acquisition in Women

scientific article published on March 2017

Getting a grip: new insights for cell adhesion and traction

scientific article published on 01 May 2001

Global network analysis of phenotypic effects: protein networks and toxicity modulation in Saccharomyces cerevisiae

scientific article

Gradient perception by neutrophil leucocytes, continued

scientific article published on 01 November 1987

Growth factor-induced cell motility in tumor invasion

scientific article

HER2-Mediated Effects on EGFR Endosomal Sorting: Analysis of Biophysical Mechanisms ⬇️

scientific article published on October 1, 2003

HIV Antibody Fc N-Linked Glycosylation Is Associated with Viral Rebound

scientific article published on 01 December 2020

HIV-1 infection induces strong production of IP-10 through TLR7/9-dependent pathways

scientific article

Hepatic Dysfunction Caused by Consumption of a High-Fat Diet.

scientific article published in December 2017

High-affinity CD25-binding IL-2 mutants potently stimulate persistent T cell growth

scientific article

High-throughput protease activity cytometry reveals dose-dependent heterogeneity in PMA-mediated ADAM17 activation.

scientific article published on 2 April 2015

IFN-γ-independent immune markers of Mycobacterium tuberculosis exposure

scientific article published on 20 May 2019

Identification of drug-specific pathways based on gene expression data: application to drug induced lung injury

scientific article

Identification of neurotoxic cytokines by profiling Alzheimer's disease tissues and neuron culture viability screening

scientific article

Identification of signaling pathways related to drug efficacy in hepatocellular carcinoma via integration of phosphoproteomic, genomic and clinical data

scientific article published on 01 November 2013

Impaired SHP2-mediated extracellular signal-regulated kinase activation contributes to gefitinib sensitivity of lung cancer cells with epidermal growth factor receptor-activating mutations

scientific article published on 20 April 2010

In vivo microscopy reveals macrophage polarization locally promotes coherent microtubule dynamics in migrating cancer cells

scientific article published on 14 July 2020

In vivo systems analysis identifies spatial and temporal aspects of the modulation of TNF-α-induced apoptosis and proliferation by MAPKs

scientific article published on 22 March 2011

In vivo systems biology approaches to chronic immune/inflammatory pathophysiology

scientific article published on 26 February 2018

Increased expression and modulated regulatory activity of co-inhibitory receptors PD-1, TIGIT and TIM-3 in lymphocytes of systemic sclerosis patients

scientific article

Increased levels of inflammatory cytokines in the female reproductive tract are associated with altered expression of proteases, mucosal barrier proteins, and an influx of HIV-susceptible target cells

scientific article published on 24 June 2015

Inflammatory but not mitogenic contexts prime synovial fibroblasts for compensatory signaling responses to p38 inhibition

scientific article published on 6 March 2018

Inflammatory cytokine biomarkers to identify women with asymptomatic sexually transmitted infections and bacterial vaginosis who are at high risk of HIV infection.

scientific article published on 28 October 2015

Inhibition of microvascular endothelial cell migration by β-cyclodextrin tetradecasulfate and hydrocortisone ⬇️

scientific article published on 01 September 1990

Initiation of anti-retroviral therapy before pregnancy reduces the risk of infection-related hospitalization in HIV-exposed uninfected infants born in a high-income country

article

Input-output behavior of ErbB signaling pathways as revealed by a mass action model trained against dynamic data

scientific article

Insights into Proteomic Immune Cell Signaling and Communication via Data-Driven Modeling ⬇️

scientific article published on January 1, 2013

Integrated Assessment of Diclofenac Biotransformation, Pharmacokinetics, and Omics-Based Toxicity in a Three-Dimensional Human Liver-Immunocompetent Coculture System

scientific article

Integrated gut/liver microphysiological systems elucidates inflammatory inter-tissue crosstalk.

scientific article

Integrated in vivo multiomics analysis identifies p21-activated kinase signaling as a driver of colitis.

scientific article published on 27 February 2018

Integrated mapping of pharmacokinetics and pharmacodynamics in a patient-derived xenograft model of glioblastoma

scientific article published in Nature Communications

Integrated mechanistic and data-driven modelling for multivariate analysis of signalling pathways

scientific article

Integrated network analyses for functional genomic studies in cancer

scientific article published on 27 June 2013

Integrating cell-level kinetic modeling into the design of engineered protein therapeutics

scientific article published in February 2005

Integration of multiple signaling pathway activities resolves K-RAS/N-RAS mutation paradox in colon epithelial cell response to inflammatory cytokine stimulation

scientific article published on 08 March 2010

Integrin dynamics on the tail region of migrating fibroblasts

scientific article published on 01 May 1996

Integrin-binding peptide in solution inhibits or enhances endothelial cell migration, predictably from cell adhesion

scientific article published on 01 March 1994

Integrin-ligand binding properties govern cell migration speed through cell-substratum adhesiveness

scientific article (publication date: 6 February 1997)

Integrin–ligand binding properties governcell migration speed through cell–substratum adhesiveness

scientific article published in Nature

Interconnected Microphysiological Systems for Quantitative Biology and Pharmacology Studies.

scientific article published on 14 March 2018

Interleukin 2 (IL-2) variants engineered for increased IL-2 receptor alpha-subunit affinity exhibit increased potency arising from a cell surface ligand reservoir effect

scientific article published in October 2004

Interleukin-2 mutants with enhanced alpha-receptor subunit binding affinity

scientific article published in December 2003

Interleukin-7 receptor signaling network: an integrated systems perspective

scientific article published on April 2008

Internalized epidermal growth factor receptors participate in the activation of p21(ras) in fibroblasts

scientific article

Interrogating signaling nodes involved in cellular transformations using kinase activity probes

scientific article

Interrupting autocrine ligand-receptor binding: comparison between receptor blockers and ligand decoys ⬇️

scientific article published on September 1, 1992

Interstitial fluid flow intensity modulates endothelial sprouting in restricted Src-activated cell clusters during capillary morphogenesis

scientific article

Intracellular receptor/ligand sorting based on endosomal retention components

scientific article published in August 1996

Intratumor heterogeneity alters most effective drugs in designed combinations

scientific article

Kinetic analysis of F-actin depolymerization in polymorphonuclear leukocyte lysates indicates that chemoattractant stimulation increases actin filament number without altering the filament length distribution

scientific article published on November 1991

Kinetic analysis of chemotactic peptide receptor modulation ⬇️

scientific article published on January 1, 1982

Kinetic model for integrin-mediated adhesion release during cell migration

scientific article published in March 1999

Kinetic model for lamellipodal actin-integrin 'clutch' dynamics

scientific article

Learning signaling network structures with sparsely distributed data

scientific article

Leukemia inhibitory factor (LIF) concentration modulates embryonic stem cell self-renewal and differentiation independently of proliferation

scientific article published on 01 September 2000

Ligand accumulation in autocrine cell cultures

scientific article

Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling

scientific article

Lipids promote survival, proliferation, and maintenance of differentiation of rat liver sinusoidal endothelial cells in vitro

scientific article published on 10 November 2011

Local remodeling of synthetic extracellular matrix microenvironments by co-cultured endometrial epithelial and stromal cells enables long-term dynamic physiological function

scientific article published on 20 March 2017

Logic-based models for the analysis of cell signaling networks

scientific article published on April 2010

Lyapunov exponents and phase diagrams reveal multi-factorial control over TRAIL-induced apoptosis

scientific article published on 22 November 2011

MCAM: multiple clustering analysis methodology for deriving hypotheses and insights from high-throughput proteomic datasets

scientific article

MENA Confers Resistance to Paclitaxel in Triple-Negative Breast Cancer

scientific article published on 3 November 2016

Macrophage-Secreted TNFα and TGFβ1 Influence Migration Speed and Persistence of Cancer Cells in 3D Tissue Culture via Independent Pathways

scientific article published on 21 November 2016

Making connections count

scientific article published in Nature

Mapping functional humoral correlates of protection against malaria challenge following RTS,S/AS01 vaccination

scientific article published on 01 July 2020

Marrow-derived stem cell motility in 3D synthetic scaffold is governed by geometry along with adhesivity and stiffness

scientific article

Mathematical model for the effects of adhesion and mechanics on cell migration speed

scientific article

Mathematical modeling of epidermal growth factor receptor signaling through the phospholipase C pathway: mechanistic insights and predictions for molecular interventions

scientific article published in October 2000

Maximal migration of human smooth muscle cells on fibronectin and type IV collagen occurs at an intermediate attachment strength

scientific article

Measurement and Modeling of Signaling at the Single-Cell Level ⬇️

scientific article published on September 14, 2012

Measurement of bacterial random motility and chemotaxis coefficients: I. Stopped-flow diffusion chamber assay

scientific article

Measurement of bacterial random motility and chemotaxis coefficients: II. Application of single-cell-based mathematical model

scientific article published in March 1991

Measurement of chemoattractant concentration profiles and diffusion coefficient in agarose

scientific article published in May 1984

Measurement of leukocyte motility and chemotaxis parameters with a linear under-agarose migration assay ⬇️

scientific article published on August 1, 1983

Measurement of leukocyte motility and chemotaxis parameters with the Millipore filter assay

scientific article published in September 1989

Measurement of the chemotaxis coefficient for human neutrophils in the under-agarose migration assay

scientific article published in January 1988

Mechanotransduction through growth-factor shedding into the extracellular space

scientific article published on 21 April 2004

Membrane proximal ERK signaling is required for M-calpain activation downstream of epidermal growth factor receptor signaling.

scientific article published on 23 April 2001

Mena binds α5 integrin directly and modulates α5β1 function ⬇️

scientific article published on August 20, 2012

Mena invasive (MenaINV) promotes multicellular streaming motility and transendothelial migration in a mouse model of breast cancer

scientific article

MenaINV mediates synergistic cross-talk between signaling pathways driving chemotaxis and haptotaxis.

scientific article published on 24 August 2016

Metalloprotease-mediated ligand release regulates autocrine signaling through the epidermal growth factor receptor

scientific article published on May 1999

Microarchitecture of three-dimensional scaffolds influences cell migration behavior via junction interactions

scientific article published on 11 July 2008

Microfluidic concentration-enhanced cellular kinase activity assay

scientific article

Microfluidic probe for single-cell analysis in adherent tissue culture

scientific article

Microfluidic shear devices for quantitative analysis of cell adhesion

scientific article

Migration of individual microvessel endothelial cells: stochastic model and parameter measurement

scientific article published in June 1991

Migration of tumor cells in 3D matrices is governed by matrix stiffness along with cell-matrix adhesion and proteolysis

scientific article (publication date: 18 July 2006)

Mining for humoral correlates of HIV control and latent reservoir size

scientific article published on 13 October 2020

Modeling HER2 effects on cell behavior from mass spectrometry phosphotyrosine data

scientific article

Modeling Tumor Clonal Evolution for Drug Combinations Design

scientific article

Modeling a snap-action, variable-delay switch controlling extrinsic cell death

scientific article

Modeling and computational analysis of EGF receptor-mediated cell communication in Drosophila oogenesis.

scientific article published in June 2002

Modeling of signal-response cascades using decision tree analysis.

scientific article published on May 2005

Models of signalling networks – what cell biologists can gain from them and give to them ⬇️

scientific article published on May 1, 2013

Modification of proteolytic activity matrix analysis (PrAMA) to measure ADAM10 and ADAM17 sheddase activities in cell and tissue lysates

scientific article published on 23 October 2017

Modular design of artificial tissue homeostasis: robust control through synthetic cellular heterogeneity

scientific article

Molecular Pathways: Receptor Ectodomain Shedding in Treatment, Resistance, and Monitoring of Cancer

scientific article published on 28 November 2016

Molecular Signatures of Immune Activation and Epithelial Barrier Remodeling Are Enhanced during the Luteal Phase of the Menstrual Cycle: Implications for HIV Susceptibility

scientific article published on 17 June 2015

Molecular network analysis of endometriosis reveals a role for c-Jun-regulated macrophage activation

scientific article

Molecular network analysis of phosphotyrosine and lipid metabolism in hepatic PTP1b deletion mice

scientific article published on 20 May 2013

Molecular/cell engineering approach to autocrine ligand control of cell function.

scientific article published on May 1995

Motility signaled from the EGF receptor and related systems

scientific article published on 01 January 2006

Multi-pathway network analysis of mammalian epithelial cell responses in inflammatory environments ⬇️

scientific article published on February 1, 2012

Multi-scale in vivo systems analysis reveals the influence of immune cells on TNF-α-induced apoptosis in the intestinal epithelium

scientific article

Multipathway kinase signatures of multipotent stromal cells are predictive for osteogenic differentiation: tissue-specific stem cells

scientific article published on November 2009

Multipathway model enables prediction of kinase inhibitor cross-talk effects on migration of Her2-overexpressing mammary epithelial cells

scientific article

Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks

scholarly article

Multiple signaling pathways mediate compaction of collagen matrices by EGF-stimulated fibroblasts

scientific article published on 3 April 2006

Multiplexed protease activity assay for low-volume clinical samples using droplet-based microfluidics and its application to endometriosis

scientific article

Multiplexed relative and absolute quantitative immunopeptidomics reveals MHC I repertoire alterations induced by CDK4/6 inhibition

scientific article published on 02 June 2020

Multivariate Computational Analysis of Gamma Delta T Cell Inhibitory Receptor Signatures Reveals the Divergence of Healthy and ART-Suppressed HIV+ Aging

article

Multivariate proteomic analysis of murine embryonic stem cell self-renewal versus differentiation signaling

scholarly article

Network analysis of differential Ras isoform mutation effects on intestinal epithelial responses to TNF-α.

scientific article published on 02 October 2013

Network-level effects of kinase inhibitors modulate TNF-α-induced apoptosis in the intestinal epithelium

scientific article

Networks inferred from biochemical data reveal profound differences in toll-like receptor and inflammatory signaling between normal and transformed hepatocytes

scientific article

Non Linear Programming (NLP) formulation for quantitative modeling of protein signal transduction pathways

scientific article

Normalization and Statistical Analysis of Multiplexed Bead-based Immunoassay Data Using Mixed-effects Modeling ⬇️

scientific article published on October 15, 2012

O6-Methylguanine DNA lesions induce an intra-S-phase arrest from which cells exit into apoptosis governed by early and late multi-pathway signaling network activation ⬇️

scientific article published on October 1, 2012

On-demand dissolution of modular, synthetic extracellular matrix reveals local epithelial-stromal communication networks.

scientific article published on 23 March 2017

Oncogenic KRAS Regulates Tumor Cell Signaling via Stromal Reciprocation. ⬇️

scientific article published on June 2016

Oncogenic KRAS Regulates Tumor Cell Signaling via Stromal Reciprocation.

scientific article published on 13 April 2016

Our new look at biology ⬇️

scientific article published on 01 January 2013

Overexpression of Cellular Src in Fibroblasts Enhances Endocytic Internalization of Epidermal Growth Factor Receptor ⬇️

scientific article published on November 28, 1997

PCLN-07. A 3D HYDROGEL CULTURE SYSTEM FACILITATES STUDY OF PRIMARY PEDIATRIC LOW-GRADE GLIOMA CELLS IN VITRO

scientific article published on 22 June 2018

PKCδ localization at the membrane increases matrix traction force dependent on PLCγ1/EGFR signaling

scientific article (publication date: 2013)

PTMScout, a Web resource for analysis of high throughput post-translational proteomics studies

scientific article

PTP1B-dependent regulation of receptor tyrosine kinase signaling by the actin-binding protein Mena

scientific article

Parsing ERK activation reveals quantitatively equivalent contributions from epidermal growth factor receptor and HER2 in human mammary epithelial cells

scientific article

Parsing the effects of binding, signaling, and trafficking on the mitogenic potencies of granulocyte colony-stimulating factor analogues

scientific article published on May 2003

Passive Transfer of Vaccine-Elicited Antibodies Protects against SIV in Rhesus Macaques

scientific article published on 01 October 2020

Pathway-based network modeling finds hidden genes in shRNA screen for regulators of acute lymphoblastic leukemia

scientific article published on 17 June 2016

Peritoneal fluid cytokines related to endometriosis in patients evaluated for infertility

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Pharmacometrics and Systems Pharmacology 2030

scientific article published on 23 November 2019

Physical and biochemical regulation of integrin release during rear detachment of migrating cells ⬇️

scientific article published on April 1, 1998

Physicochemical modelling of cell signalling pathways.

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Physiome-on-a-Chip: The Challenge of "Scaling" in Design, Operation, and Translation of Microphysiological Systems

scientific article published on 10 October 2015

Polyfunctional responses by human T cells result from sequential release of cytokines

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Postendocytic trafficking of epidermal growth factor-receptor complexes is mediated through saturable and specific endosomal interactions.

scientific article published on June 1994

Predicting cancer drug mechanisms of action using molecular network signatures ⬇️

scientific article published on January 4, 2013

Predicting the broadly neutralizing antibody susceptibility of the HIV reservoir

scientific article published on 05 September 2019

Prioritisation and network analysis of Crohn's disease susceptibility genes

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Probability of autocrine ligand capture by cell-surface receptors: implications for ligand secretion measurements

scientific article published in January 1994

Profiling drugs for rheumatoid arthritis that inhibit synovial fibroblast activation ⬇️

scientific article published on 31 October 2016

Profiling of metalloprotease activities in cerebrospinal fluids of patients with neoplastic meningitis

scientific article published on 14 August 2017

Proliferative response of fibroblasts expressing internalization-deficient epidermal growth factor (EGF) receptors is altered via differential EGF depletion effect

scientific article published on July 1994

Protein kinase Cdelta signaling downstream of the EGF receptor mediates migration and invasiveness of prostate cancer cells

scientific article published on 20 March 2006

Protein kinases display minimal interpositional dependence on substrate sequence: potential implications for the evolution of signalling networks ⬇️

scientific article published on September 19, 2012

Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation

scientific article published on 11 September 2019

Proteolytic Activity Matrix Analysis (PrAMA) for simultaneous determination of multiple protease activities

scientific article published on 23 December 2010

Publisher Correction: IFN-γ-independent immune markers of Mycobacterium tuberculosis exposure

scientific article published on 01 July 2019

Qualitatively different T cell phenotypic responses to IL-2 versus IL-15 are unified by identical dependences on receptor signal strength and duration

scientific article published on 02 December 2013

Quantitative Assessment of Autocrine Cell Loops

scientific article published on 01 January 1999

Quantitative Systems Pharmacology Approaches Applied to Microphysiological Systems (MPS): Data Interpretation and Multi-MPS Integration

scientific article published on 5 October 2015

Quantitative analysis of Akt phosphorylation and activity in response to EGF and insulin treatment

scientific article published on 2 January 2007

Quantitative analysis of HER2-mediated effects on HER2 and epidermal growth factor receptor endocytosis: distribution of homo- and heterodimers depends on relative HER2 levels

scientific article published on 9 April 2003

Quantitative analysis of gradient sensing: towards building predictive models of chemotaxis in cancer

scientific article published on 26 January 2012

Quantitative analysis of pathways controlling extrinsic apoptosis in single cells

scientific article

Quantitative analysis of random motility of human microvessel endothelial cells using a linear under-agarose assay

scientific article published on September 1, 1988

Quantitative analysis of the EGF receptor autocrine system reveals cryptic regulation of cell response by ligand capture

scientific article published on 01 June 2001

Quantitative comparison of polyethylenimine formulations and adenoviral vectors in terms of intracellular gene delivery processes

scientific article

Quantitative methods for developing Fc mutants with extended half-lives

scientific article published in December 2005

Quantitative modeling perspectives on the ErbB system of cell regulatory processes

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Quantitative network signal combinations downstream of TCR activation can predict IL-2 production response

scientific article published on April 2007

Quantitative parsing of cell multi-tasking in wound repair and tissue morphogenesis

scientific article published on June 2003

Quantitative relationship among integrin-ligand binding, adhesion, and signaling via focal adhesion kinase and extracellular signal-regulated kinase 2.

scientific article published on September 1999

Querying quantitative logic models (Q2LM) to study intracellular signaling networks and cell‐cytokine interactions ⬇️

scientific article published on January 10, 2012

Quick COVID-19 Healers Sustain Anti-SARS-CoV-2 Antibody Production

scientific article published on 03 November 2020

RAS mutations affect tumor necrosis factor-induced apoptosis in colon carcinoma cells via ERK-modulatory negative and positive feedback circuits along with non-ERK pathway effects

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ROCK in a stiff place.

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ROS and Oxidative Stress Are Elevated in Mitosis during Asynchronous Cell Cycle Progression and Are Exacerbated by Mitotic Arrest

scientific article published on 20 February 2019

Rapid phospho-turnover by receptor tyrosine kinases impacts downstream signaling and drug binding

scientific article published on September 2011

Rational cytokine design for increased lifetime and enhanced potency using pH-activated "histidine switching".

scientific article published on 5 August 2002

Real-time quantitative measurement of autocrine ligand binding indicates that autocrine loops are spatially localized

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Receptor tyrosine kinases fall into distinct classes based on their inferred signaling networks

scientific article (publication date: 16 July 2013)

Receptor-Driven ERK Pulses Reconfigure MAPK Signaling and Enable Persistence of Drug-Adapted BRAF-Mutant Melanoma Cells

scientific article published on 21 October 2020

Receptor-mediated cell attachment and detachment kinetics. I. Probabilistic model and analysis

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Receptor-mediated cell attachment and detachment kinetics. II. Experimental model studies with the radial-flow detachment assay

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Receptor-mediated effects on ligand availability influence relative mitogenic potencies of epidermal growth factor and transforming growth factor alpha

scientific article published on March 1996

Receptor-mediated targeting of gene delivery vectors: insights from molecular mechanisms for improved vehicle design

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Reduced Proteolytic Shedding of Receptor Tyrosine Kinases Is a Post-Translational Mechanism of Kinase Inhibitor Resistance

scientific article published on 16 March 2016

Regulated ADAM17-dependent EGF family ligand release by substrate-selecting signaling pathways ⬇️

scientific article published on May 29, 2013

Regulation of Cell Migration by the Calcium-dependent Protease Calpain ⬇️

scientific article published on December 26, 1997

Regulation of postendocytic trafficking of the epidermal growth factor receptor through endosomal retention

scientific article published on April 1994

Removal of the membrane-anchoring domain of epidermal growth factor leads to intracrine signaling and disruption of mammary epithelial cell organization

scientific article

Reply to Azuaje: Predicting effective combined therapies for heterogeneous tumors

scientific article published on 24 September 2014

Reply to Slogrove et al

scientific article published on 01 May 2019

Reproducible automated phosphopeptide enrichment using magnetic TiO2 and Ti-IMAC.

scientific article published on 2 October 2014

Reversible pinocytosis in polymorphonuclear leukocytes ⬇️

scientific article published on June 1, 1983

Right on cue

scientific article published on 01 November 2006

Robust co-regulation of tyrosine phosphorylation sites on proteins reveals novel protein interactions

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Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data

scientific article published on 12 February 2020

Route of immunization defines multiple mechanisms of vaccine-mediated protection against SIV

scientific article published on 03 September 2018

SARS-CoV-2-specific ELISA development

scientific article published on 08 August 2020

Scratching the (cell) surface: cytokine engineering for improved ligand/receptor trafficking dynamics

article

Self-assembly of a beta-sheet protein governed by relief of electrostatic repulsion relative to van der Waals attraction.

scientific article published on January 2000

Self-organization of polarized cell signaling via autocrine circuits: computational model analysis

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Shaping up for shipping out: PLCgamma signaling of morphology changes in EGF-stimulated fibroblast migration

scientific article

Signaling network state predicts twist-mediated effects on breast cell migration across diverse growth factor contexts

scientific article published on 10 August 2011

Signaling thresholds govern heterogeneity in IL‐7‐receptor‐mediated responses of naïve CD8+ T cells ⬇️

scientific article published on February 22, 2011

Simulation of integrin-cytoskeletal interactions in migrating fibroblasts ⬇️

scientific article published on July 1, 1994

Simultaneous Detection of Metalloprotease Activities in Complex Biological Samples Using the PrAMA (Proteolytic Activity Matrix Assay) Method

scientific article published in January 2017

Single-shot Ad26 vaccine protects against SARS-CoV-2 in rhesus macaques

scientific article published on 30 July 2020

Small-molecule control of antibody N-glycosylation in engineered mammalian cells

scientific article published on 20 May 2019

Spatial range of autocrine signaling: modeling and computational analysis

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Spontaneous dormancy of metastatic breast cancer cells in an all human liver microphysiologic system

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Stochastic model of leukocyte chemosensory movement

scientific article published on January 1987

Stopped-flow chamber and image analysis system for quantitative characterization of bacterial population migration: Motility and chemotaxis ofEscherichia coli K12 to fucose

scientific article published on December 1991

Structure of the EGF receptor transactivation circuit integrates multiple signals with cell context

scientific article published on 10 May 2010

Studies of TAK1-centered polypharmacology with novel covalent TAK1 inhibitors

scientific article published on 7 December 2016

Substrate-based kinase activity inference identifies MK2 as driver of colitis

scientific article published on 01 November 2019

Supplementation-dependent differences in the rates of embryonic stem cell self-renewal, differentiation, and apoptosis

scientific article published on December 2003

Sustained epidermal growth factor receptor levels and activation by tethered ligand binding enhances osteogenic differentiation of multi-potent marrow stromal cells

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Synergistic Communication between CD4+ T Cells and Monocytes Impacts the Cytokine Environment

scientific article published on 10 October 2016

Synergistic drug-cytokine induction of hepatocellular death as an in vitro approach for the study of inflammation-associated idiosyncratic drug hepatotoxicity.

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Systems Modeling Identifies Divergent Receptor Tyrosine Kinase Reprogramming to MAPK Pathway Inhibition

scientific article published on 26 July 2018

Systems analysis of EGF receptor signaling dynamics with microwestern arrays

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T cell and antibody functional correlates of severe COVID-19

scientific article published on 30 November 2020

TNF-insulin crosstalk at the transcription factor GATA6 is revealed by a model that links signaling and transcriptomic data tensors

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Tandem phosphorylation within an intrinsically disordered region regulates ACTN4 function

scientific article published on 26 May 2015

Targeting autocrine HB-EGF signaling with specific ADAM12 inhibition using recombinant ADAM12 prodomain

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Targeting tumor cell motility as a strategy against invasion and metastasis

scientific article published on 06 April 2013

Temporal variation in HIV-specific IgG subclass Abs during acute infection differentiates spontaneous controllers from chronic progressors.

scientific article published on 12 December 2017

Th17 cytokines differentiate obesity from obesity-associated type 2 diabetes and promote TNFα production

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The AXL Receptor is a Sensor of Ligand Spatial Heterogeneity

scientific article published in July 2015

The Na+/H+ exchanger regulatory factor stabilizes epidermal growth factor receptors at the cell surface

scientific article published on 06 October 2004

The alternatively-included 11a sequence modifies the effects of Mena on actin cytoskeletal organization and cell behavior

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The colonic epithelium plays an active role in promoting colitis by shaping the tissue cytokine profile.

scientific article published on 29 March 2018

The heparin-binding domain of HB-EGF mediates localization to sites of cell-cell contact and prevents HB-EGF proteolytic release.

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The membrane-anchoring domain of epidermal growth factor receptor ligands dictates their ability to operate in juxtacrine mode

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The receptor AXL diversifies EGFR signaling and limits the response to EGFR-targeted inhibitors in triple-negative breast cancer cells

scientific article published on 06 August 2013

The response of human epithelial cells to TNF involves an inducible autocrine cascade

scientific article published on March 2006

The role of low-affinity interleukin-2 receptors in autocrine ligand binding: alternative mechanisms for enhanced binding effect

scientific article published in July 1994

The role of transient ERK2 signals in fibronectin- and insulin-mediated DNA synthesis

scientific article published on 01 December 2000

The role of tyrosine kinase activity in endocytosis, compartmentation, and down-regulation of the epidermal growth factor receptor.

scientific article published on June 1991

Three-kinase inhibitor combination recreates multipathway effects of a geldanamycin analogue on hepatocellular carcinoma cell death

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Time series modeling of live-cell shape dynamics for image-based phenotypic profiling

scientific article published on 11 December 2015

Time-resolved mass spectrometry of tyrosine phosphorylation sites in the epidermal growth factor receptor signaling network reveals dynamic modules

scientific article

Tissue-Specific Oncogenic Activity of KRASA146T

scientific article published on 05 April 2019

Training signaling pathway maps to biochemical data with constrained fuzzy logic: quantitative analysis of liver cell responses to inflammatory stimuli

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Transforming Boolean models to continuous models: methodology and application to T-cell receptor signaling

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Translating preclinical models to humans

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Tumor Cell-Driven Extracellular Matrix Remodeling Drives Haptotaxis during Metastatic Progression

scientific article published on 25 January 2016

Tumor invasion as dysregulated cell motility

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Tyro3 carboxyl terminal region confers stability and contains the autophosphorylation sites

scientific article published on 28 June 2017

Tyro3-mediated phosphorylation of ACTN4 at tyrosines is FAK-dependent and decreases susceptibility to cleavage by m-Calpain

scientific article published on 20 December 2017

Understanding effects of matrix protease and matrix organization on directional persistence and translational speed in three-dimensional cell migration

scientific article published on 2 November 2006

Understanding resistance to combination chemotherapy ⬇️

scientific article published on November 17, 2012

VISAGE Reveals a Targetable Mitotic Spindle Vulnerability in Cancer Cells

scientific article published on 10 July 2019

Vascular endothelial growth factor (VEGF) and platelet (PF-4) factor 4 inputs modulate human microvascular endothelial signaling in a three-dimensional matrix migration context.

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Who's got pull around here? Cell organization in development and tissue engineering

scholarly article

mRNA-1273 and BNT162b2 COVID-19 vaccines elicit antibodies with differences in Fc-mediated effector functions

scientific article published on 18 May 2022

pH Dependence of structural stability of interleukin-2 and granulocyte colony-stimulating factor

scientific article published on May 2003

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