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Computational screen for sex-specific drug effects in a cardiac fibroblast signaling network model
- Kelsey M. Watts
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Computational evidence for multi-layer crosstalk between the cadherin-11 and PDGFR pathways
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Defining and identifying cell sub-crosstalk pairs for characterizing cell–cell communication patterns
- Chenxing Zhang
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Probing the communication patterns of different chondrocyte subtypes in osteoarthritis at the single cell level using pattern recognition and manifold learning
- Jiajian Wang
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Identification of protein phosphatase 4 catalytic subunit as a Wnt promoting factor in pan-cancer and Xenopus early embryogenesis
- YiLi Wang
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Proteomic analysis of the effect of hemin in breast cancer
- G. P. Coló
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Statistical control of structural networks with limited interventions to minimize cellular phenotypic diversity represented by point attractors
- Jongwan Kim
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Transcriptomic data meta-analysis reveals common and injury model specific gene expression changes in the regenerating zebrafish heart
- Marius Alexandru Botos
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Network-level analysis of ageing and its relationship with diseases and tissue regeneration in the mouse liver
- Manisri Porukala
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Integrated multi-omics analysis of Alzheimer’s disease shows molecular signatures associated with disease progression and potential therapeutic targets
- Pradeep Kodam
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The influence of astrocytic leaflet motility on ionic signalling and homeostasis at active synapses
- Marinus Toman
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MiRNA-30d and miR-770-5p as potential clinical risk predictors of Vasoplegic Syndrome in Patients undergoing on-pump coronary artery bypass grafting
- Omar Asdrúbal Vilca Mejia
- , Renato Cesar de Souza
- & Fábio Biscegli Jatene
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Software JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis
- Martin Kaltdorf
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- & Thomas Dandekar
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Dysregulated thrombospondin 1 and miRNA-29a-3p in severe COVID-19
- In Soo Kim
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Linking single nucleotide polymorphisms to signaling blueprints in abdominal aortic aneurysms
- Chrysania Lim
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Identification and functional interpretation of miRNAs affected by rare CNVs in CAKUT
- Kristina Mitrovic
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Integrated network-based multiple computational analyses for identification of co-expressed candidate genes associated with neurological manifestations of COVID-19
- Suvojit Hazra
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Spontaneous emergence of computation in network cascades
- Galen Wilkerson
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Multi-omics study identifies novel signatures of DNA/RNA, amino acid, peptide, and lipid metabolism by simulated diabetes on coronary endothelial cells
- Aldo Moreno-Ulloa
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Stochastic model of ERK-mediated progesterone receptor translocation, clustering and transcriptional activity
- Tatiana T. Marquez-Lago
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PD-L1 regulates cell proliferation and apoptosis in acute myeloid leukemia by activating PI3K-AKT signaling pathway
- Fang Wang
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Differing coronavirus genres alter shared host signaling pathways upon viral infection
- Diana Cruz-Pulido
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Fibronectin containing alternatively spliced extra domain A interacts at the central and c-terminal domain of Toll-like receptor-4
- Shubhangi Gupta
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MALAT1 as master regulator of biomarkers predictive of pan-cancer multi-drug resistance in the context of recalcitrant NRAS signaling pathway identified using systems-oriented approach
- Santosh Kumar
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Altered intercellular communication and extracellular matrix signaling as a potential disease mechanism in human hypertrophic cardiomyopathy
- Amy Larson
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Dynamical modeling of miR-34a, miR-449a, and miR-16 reveals numerous DDR signaling pathways regulating senescence, autophagy, and apoptosis in HeLa cells
- Shantanu Gupta
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Queueing theory model of pentose phosphate pathway
- Sylwester M. Kloska
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Force-enhanced biophysical connectivity of platelet β3 integrin signaling through Talin is predicted by steered molecular dynamics simulations
- Shuixiu Su
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Causal biological network models for reactive astrogliosis: a systems approach to neuroinflammation
- Melinda Barkhuizen
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Regulated cell death joins in atherosclerotic plaque silent progression
- Elena Uyy
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Petri nets and ODEs as complementary methods for comprehensive analysis on an example of the ATM–p53–NF-\(\kappa\)B signaling pathways
- Kaja Gutowska
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CyFi-MAP: an interactive pathway-based resource for cystic fibrosis
- Catarina Pereira
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Dynamic FRET-FLIM based screening of signal transduction pathways
- Rolf Harkes
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Computational quantification of global effects induced by mutations and drugs in signaling networks of colorectal cancer cells
- Sara Sommariva
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Proliferative diabetic retinopathy transcriptomes reveal angiogenesis, anti-angiogenic therapy escape mechanisms, fibrosis and lymphatic involvement
- Ani Korhonen
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Novel interferon-sensitive genes unveiled by correlation-driven gene selection and systems biology
- Cristina Cheroni
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Identification of intima-to-media signals for flow-induced vascular remodeling using correlative gene expression analysis
- John Kolega
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Rapid signaling reactivation after targeted BRAF inhibition predicts the proliferation of individual melanoma cells from an isogenic population
- Payam Khoshkenar
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Gene expression analysis method integration and co-expression module detection applied to rare glucide metabolism disorders using ExpHunterSuite
- Fernando M. Jabato
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Introducing the novel Cytoscape app TimeNexus to analyze time-series data using temporal MultiLayer Networks (tMLNs)
- Michaël Pierrelée
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The origin and radiation of the phosphoprotein phosphatase (PPP) enzymes of Eukaryotes
- David Kerk
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Systems biology approach highlights mechanistic differences between Crohn’s disease and ulcerative colitis
- Pedro A. Ruiz Castro
- , Hasmik Yepiskoposyan
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Modular network mechanism of CCN1-associated resistance to HSV-1-derived oncolytic immunovirotherapies for glioblastomas
- Dileep D. Monie
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- & Hu Li
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The chemical defensome of five model teleost fish
- Marta Eide
- , Xiaokang Zhang
- & Anders Goksøyr
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Modeling of stringent-response reflects nutrient stress induced growth impairment and essential amino acids in different Staphylococcus aureus mutants
- Christof Audretsch
- , Fabio Gratani
- & Thomas Dandekar
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Advanced bioinformatic analysis and pathway prediction of NSCLC cells upon cisplatin resistance
- A K M Nawshad Hossian
- , Fatema Tuz Zahra
- & George Mattheolabakis
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Network theoretic analysis of JAK/STAT pathway and extrapolation to drugs and viruses including COVID-19
- Arindam Banerjee
- , Rudra Prosad Goswami
- & Moumita Chatterjee
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Differential expression and correlation analysis of miRNA–mRNA profiles in swine testicular cells infected with porcine epidemic diarrhea virus
- Xiaoqian Zhang
- , Chang Li
- & Qigai He
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| Open Access
Influence of energy deficiency on the subcellular processes of Substantia Nigra Pars Compacta cell for understanding Parkinsonian neurodegeneration
- Vignayanandam Ravindernath Muddapu
- & V. Srinivasa Chakravarthy
Subtyping of COVID-19 samples based on cell-cell interaction in single cell transcriptomes