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8761
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...
Published 2011“…A quantitative computational model based on weighted linear combinations of these pathway activities successfully predicted not only the spectrum of cell death responses but also the corresponding chemokine production responses. …”
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Article -
8762
ADAM-10 and -17 regulate endometriotic cell migration via concerted ligand and receptor shedding feedback on kinase signaling
Published 2013“…This study uses combined measurement and computational modeling to examine how various growth factor environments influence sheddase activity and cell migration in the invasive disease of endometriosis. …”
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Article -
8763
Quantitative prediction of 3D solution shape and flexibility of nucleic acid nanostructures
Published 2014“…Here, we significantly extend and experimentally validate a computational modeling framework for DNA origami previously presented as CanDo [Castro,C.E., Kilchherr,F., Kim,D.…”
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Article -
8764
Cellular defense processes regulated by pathogen-elicited receptor signaling
Published 2014“…We have developed over the past half-decade a "data-driven" computational modeling approach, on a 'cue-signal-response' combined experiment/computation paradigm, to elucidate key multi-variate signaling relationships governing the cell responses. …”
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Article -
8765
Evaporation kinetics of nano water droplets using coarse-grained molecular dynamic simulations
Published 2021“…In particular, computational modeling studies using molecular dynamic (MD) simulations had been extensively performed for this objective. …”
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Journal Article -
8766
Semi-supervised learning of functional connectome for disease classification
Published 2022“…Overfitting is a common problem when computational models are applied on neuroimaging datasets, which are high-dimensional and small in terms of sample sizes, resulting in poor inferences such as ungeneralizable biomarkers. …”
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Final Year Project (FYP) -
8767
Metaverse's stochastic optimization for enhanced computation and communication
Published 2024“…Furthermore, the thesis delves into advanced computational models, with a particular emphasis on BERT. …”
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Thesis-Doctor of Philosophy -
8768
Influence of histone tails and H4 tail acetylations on nucleosome–nucleosome interactions
Published 2012“…The experimental data were compared with the results of coarse-grained computer modeling for NCP solutions with explicit presence of mobile ions.…”
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Journal Article -
8769
From numerical model to computational intelligence: the digital transition of urban energy system
Published 2018“…More specifically, numerous computational models have been proposed by the scientific community to mimic the dynamics of various components at various levels in the urban energy system. …”
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Journal Article -
8770
The role of the circle of Willis in internal carotid artery stenosis and anatomical variations: a computational study based on a patient-specific three-dimensional model
Published 2015“…Methods: In the current study, a patient-specific three-dimensional computational model of the CoW was reconstructed based on the computed tomography (CT) images. …”
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Journal Article -
8771
Quantification of restitution dispersion from the dynamic changes of the T-wave peak to end, measured at the surface ECG.
Published 2011“…The capability of the proposed estimate to reflect APDR dispersion is assessed using a combination of ECG signal processing, and computational modeling and simulation. Specifically, ECG recordings of control subjects undergoing a tilt test trial are used to measure that estimate, while its capability to provide a quantification of APDR dispersion at tissue level is assessed by using a 2-D ventricular tissue simulation. …”
Journal article -
8772
BOKEI: Bayesian optimization using knowledge of correlated torsions and expected improvement for conformer generation
Published 2020“…Increasing our understanding of the conformational preferences of molecules will help improve our ability to find low energy conformers efficiently, which will have impact in a wide range of computational modeling applications.…”
Journal article -
8773
Not all predictions are equal: 'What' and 'When' predictions modulate activity in auditory cortex through different mechanisms
Published 2018“…Here, to elucidate the neural mechanisms of predictions, we combine invasive electrophysiological recordings (human electrocorticography in 4 females and 2 males) with computational modelling while manipulating predictions about content (‘what’) and time (‘when’). …”
Journal article -
8774
Temporal regularity in audition
Published 2017“…I combine human psychoacoustics, rodent electrophysiology, and computational modelling to demonstrate that rhythmic sound patterns are easier to detect than arrhythmic ones, that adaptation in the auditory system may be a mechanism by which information about temporal structure at the rhythm timescale is encoded and made available to higher structures, and that low-level auditory processing may play a substantial part in shaping complex percepts such as where and how clearly we feel the beat in music.…”
Thesis -
8775
Integrating single-cell and spatial transcriptomics in a computational multiscale model of triple negative breast cancer
Published 2022“…<p>This thesis presents a multiscale computational model of tumour growth, microCJ. microCJ models cells as independent agents, each with their own genetic identity and state. …”
Thesis -
8776
VEGF signals induce trailblazer cell identity that drives neural crest migration.
Published 2015“…Timed addition and removal of VEGF in culture reveals the changes in neural crest cell gene expression are rapid. A computational model incorporating an integrate-and-switch mechanism between cellular phenotypes predicts migration efficiency is influenced by the timescale of cell behavior switching. …”
Journal article -
8777
Effects of ranolazine on the arrhythmic substrate in hypertrophic cardiomyopathy
Published 2024“…</p> <br> <p><strong>Methods:</strong> Computational models of human tissue and ventricles were used to simulate the electrophysiological behaviour of diseased HCM myocardium for variable degrees of repolarisation impairment, validated against in vitro and clinical recordings. …”
Journal article -
8778
Novel fingerprinting method characterises the necessary and sufficient structural connectivity from deep brain stimulation electrodes for a successful outcome
Published 2015“…Ultimately, our novel fingerprinting method could be combined with advanced whole-brain computational modelling of the spontaneous dynamics arising from the structural changes in disease, to provide new insights and potentially new targets for hitherto impenetrable neuropsychiatric disorders.…”
Journal article -
8779
Effective connectivity of the subthalamic nucleus-globus pallidus network during Parkinsonian oscillations.
Published 2014“…We recorded the activities of STN, Type-I GP (GP-TI) and Type-A GP (GP-TA) neurons in anaesthetised Parkinsonian rats during such oscillations to constrain a series of computational models that systematically explored the effective connections and physiological parameters underlying neuronal rhythmic firing and phase preferences in vivo. …”
Journal article -
8780
The short-term plasticity of VIP interneurons in motor cortex
Published 2024“…Surprisingly, unlike VIP IN outputs, E → VIP IN synapses exhibited heterogeneous short-term dynamics, which we attributed to the target VIP IN cell rather than the input. Computational modeling furthermore linked the diversity in short-term dynamics at VIP IN inputs to a wide variability in probability of release. …”
Journal article