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| Open AccessComputational screen for sex-specific drug effects in a cardiac fibroblast signaling network model
- Kelsey M. Watts
- , Wesley Nichols
- & William J. Richardson
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| Open AccessComputational evidence for multi-layer crosstalk between the cadherin-11 and PDGFR pathways
- Zeynep Karagöz
- , Fiona R. Passanha
- & Aurélie Carlier
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| Open AccessDefining and identifying cell sub-crosstalk pairs for characterizing cell–cell communication patterns
- Chenxing Zhang
- , Yuxuan Hu
- & Lin Gao
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| Open AccessProbing the communication patterns of different chondrocyte subtypes in osteoarthritis at the single cell level using pattern recognition and manifold learning
- Jiajian Wang
- , Caihong Liu
- & Ruihuan Xu
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| Open AccessIdentification of protein phosphatase 4 catalytic subunit as a Wnt promoting factor in pan-cancer and Xenopus early embryogenesis
- YiLi Wang
- , WonHee Han
- & JinKwan Han
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| Open AccessProteomic analysis of the effect of hemin in breast cancer
- G. P. Coló
- , K. Schweitzer
- & M. M. Facchinetti
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| Open AccessStatistical control of structural networks with limited interventions to minimize cellular phenotypic diversity represented by point attractors
- Jongwan Kim
- , Corbin Hopper
- & Kwang-Hyun Cho
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| Open AccessTranscriptomic data meta-analysis reveals common and injury model specific gene expression changes in the regenerating zebrafish heart
- Marius Alexandru Botos
- , Prateek Arora
- & Nadia Mercader
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| Open AccessNetwork-level analysis of ageing and its relationship with diseases and tissue regeneration in the mouse liver
- Manisri Porukala
- & P. K. Vinod
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| Open AccessIntegrated multi-omics analysis of Alzheimer’s disease shows molecular signatures associated with disease progression and potential therapeutic targets
- Pradeep Kodam
- , R. Sai Swaroop
- & Ramakrishna Vadrevu
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| Open AccessThe influence of astrocytic leaflet motility on ionic signalling and homeostasis at active synapses
- Marinus Toman
- , John Joseph Wade
- & Liam McDaid
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| Open AccessMiRNA-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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| Open AccessSoftware JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis
- Martin Kaltdorf
- , Tim Breitenbach
- & Thomas Dandekar
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| Open AccessDysregulated thrombospondin 1 and miRNA-29a-3p in severe COVID-19
- In Soo Kim
- , Sung-Gwon Lee
- & Chungoo Park
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| Open AccessLinking single nucleotide polymorphisms to signaling blueprints in abdominal aortic aneurysms
- Chrysania Lim
- , Muhammad Yogi Pratama
- & Bhama Ramkhelawon
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| Open AccessIdentification and functional interpretation of miRNAs affected by rare CNVs in CAKUT
- Kristina Mitrovic
- , Ivan Zivotic
- & Ivan Jovanovic
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| Open AccessIntegrated network-based multiple computational analyses for identification of co-expressed candidate genes associated with neurological manifestations of COVID-19
- Suvojit Hazra
- , Alok Ghosh Chaudhuri
- & Nilkanta Chakrabarti
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| Open AccessSpontaneous emergence of computation in network cascades
- Galen Wilkerson
- , Sotiris Moschoyiannis
- & Henrik Jeldtoft Jensen
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| Open AccessMulti-omics study identifies novel signatures of DNA/RNA, amino acid, peptide, and lipid metabolism by simulated diabetes on coronary endothelial cells
- Aldo Moreno-Ulloa
- , Hilda Carolina Delgado-De la Herrán
- & Francisco Villarreal
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| Open AccessStochastic model of ERK-mediated progesterone receptor translocation, clustering and transcriptional activity
- Tatiana T. Marquez-Lago
- & Stanly Steinberg
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| Open AccessPD-L1 regulates cell proliferation and apoptosis in acute myeloid leukemia by activating PI3K-AKT signaling pathway
- Fang Wang
- , Liqiong Yang
- & Zhangang Xiao
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| Open AccessDiffering coronavirus genres alter shared host signaling pathways upon viral infection
- Diana Cruz-Pulido
- , Wilberforce Zachary Ouma
- & Scott P. Kenney
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| Open AccessFibronectin containing alternatively spliced extra domain A interacts at the central and c-terminal domain of Toll-like receptor-4
- Shubhangi Gupta
- , Azeem Ali
- & Prem Prakash
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| Open AccessMALAT1 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
- & Seema Mishra
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| Open AccessAltered intercellular communication and extracellular matrix signaling as a potential disease mechanism in human hypertrophic cardiomyopathy
- Amy Larson
- , Christina J. Codden
- & Michael T. Chin
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| Open AccessDynamical modeling of miR-34a, miR-449a, and miR-16 reveals numerous DDR signaling pathways regulating senescence, autophagy, and apoptosis in HeLa cells
- Shantanu Gupta
- , Pritam Kumar Panda
- & Rajeev Ahuja
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| Open AccessQueueing theory model of pentose phosphate pathway
- Sylwester M. Kloska
- , Krzysztof Pałczyński
- & Tadeusz A. Wysocki
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| Open AccessForce-enhanced biophysical connectivity of platelet β3 integrin signaling through Talin is predicted by steered molecular dynamics simulations
- Shuixiu Su
- , Yingchen Ling
- & Jianhua Wu
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| Open AccessCausal biological network models for reactive astrogliosis: a systems approach to neuroinflammation
- Melinda Barkhuizen
- , Kasper Renggli
- & Marja Talikka
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| Open AccessRegulated cell death joins in atherosclerotic plaque silent progression
- Elena Uyy
- , Viorel I. Suica
- & Felicia Antohe
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| Open AccessPetri nets and ODEs as complementary methods for comprehensive analysis on an example of the ATM–p53–NF-\(\kappa\)B signaling pathways
- Kaja Gutowska
- , Daria Kogut
- & Krzysztof Puszynski
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| Open AccessCyFi-MAP: an interactive pathway-based resource for cystic fibrosis
- Catarina Pereira
- , Alexander Mazein
- & Andre O. Falcao
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| Open AccessDynamic FRET-FLIM based screening of signal transduction pathways
- Rolf Harkes
- , Olga Kukk
- & Kees Jalink
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| Open AccessComputational quantification of global effects induced by mutations and drugs in signaling networks of colorectal cancer cells
- Sara Sommariva
- , Giacomo Caviglia
- & Michele Piana
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| Open AccessProliferative diabetic retinopathy transcriptomes reveal angiogenesis, anti-angiogenic therapy escape mechanisms, fibrosis and lymphatic involvement
- Ani Korhonen
- , Erika Gucciardo
- & Sirpa Loukovaara
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| Open AccessNovel interferon-sensitive genes unveiled by correlation-driven gene selection and systems biology
- Cristina Cheroni
- , Lara Manganaro
- & Raffaele De Francesco
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| Open AccessIdentification of intima-to-media signals for flow-induced vascular remodeling using correlative gene expression analysis
- John Kolega
- , Kerry E. Poppenberg
- & Vincent M. Tutino
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| Open AccessRapid signaling reactivation after targeted BRAF inhibition predicts the proliferation of individual melanoma cells from an isogenic population
- Payam Khoshkenar
- , Emily Lowry
- & Amir Mitchell
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| Open AccessGene expression analysis method integration and co-expression module detection applied to rare glucide metabolism disorders using ExpHunterSuite
- Fernando M. Jabato
- , José Córdoba-Caballero
- & James R. Perkins
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| Open AccessIntroducing the novel Cytoscape app TimeNexus to analyze time-series data using temporal MultiLayer Networks (tMLNs)
- Michaël Pierrelée
- , Ana Reynders
- & Bianca H. Habermann
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| Open AccessThe origin and radiation of the phosphoprotein phosphatase (PPP) enzymes of Eukaryotes
- David Kerk
- , Jordan F. Mattice
- & Greg B. Moorhead
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| Open AccessSystems biology approach highlights mechanistic differences between Crohn’s disease and ulcerative colitis
- Pedro A. Ruiz Castro
- , Hasmik Yepiskoposyan
- & Marja Talikka
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| Open AccessModular network mechanism of CCN1-associated resistance to HSV-1-derived oncolytic immunovirotherapies for glioblastomas
- Dileep D. Monie
- , Cristina Correia
- & Hu Li
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| Open AccessThe chemical defensome of five model teleost fish
- Marta Eide
- , Xiaokang Zhang
- & Anders Goksøyr
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| Open AccessModeling 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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| Open AccessAdvanced 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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| Open AccessNetwork 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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| Open AccessDifferential 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 AccessInfluence of energy deficiency on the subcellular processes of Substantia Nigra Pars Compacta cell for understanding Parkinsonian neurodegeneration
- Vignayanandam Ravindernath Muddapu
- & V. Srinivasa Chakravarthy