Model Board
Each subheading shows the most recent computational models published in each journal or preprint server. As journals publish, this page is autonomously updated and clicking the links will send you to the article.
- Extinction in complex communities as driven by adaptive dynamics. (arXiv:2104.10191v1 [q-bio.PE])
- How individuals change language. (arXiv:2104.10210v1 [cs.CL])
- Extraction of Hierarchical Functional Connectivity Components in human brain using Adversarial Learning. (arXiv:2104.10255v1 [cs.LG])
- Modelling the Spread of an Epidemic in Presence of Vaccination using Cellular Automata. (arXiv:2104.10456v1 [q-bio.PE])
- A topological selection of folding pathways from native states of knotted proteins. (arXiv:2104.10530v1 [q-bio.BM])
- Optimal ergodic harvesting under ambiguity. (arXiv:2104.10626v1 [math.OC])
- A Note on Relative Consciousness. (arXiv:2104.10670v1 [q-bio.NC])
- Cost Effective Reproduction Number Based Strategies for Reducing Deaths from COVID-19. (arXiv:2104.10678v1 [q-bio.PE])
- Statistical power for cluster analysis. (arXiv:2003.00381v2 [stat.ML] UPDATED)
- An approach to synaptic learning for autonomous motor control. (arXiv:2006.13471v2 [q-bio.NC] UPDATED)
- Scalable total-evidence inference from molecular and continuous characters in a Bayesian framework
- Daily rhythms in the transcriptomes of the human parasite Schistosoma mansoni
- Deep time course proteomics of SARS-CoV and SARS-CoV-2-infected human lung epithelial cells (Calu-3) reveals strong induction of interferon-stimulated gene (ISG) expression by SARS-CoV-2 in contrast to SARS-CoV
- A push-pull system of repressors matches levels of glucose transporters to extracellular glucose in budding yeast
- Exploring Extreme Signaling Failures in Intracellular Molecular Networks
- The non-redundant nature of the Axin2 regulatory network in the canonical Wnt signaling pathway
- Alterations in protein translation and carboxylic acid catabolic processes in diabetic kidney disease
- Network controllability enrichment analysis reveals that SARS-CoV-2 infection tends to target indispensable nodes of a directed human protein-protein interaction network
- Gene clustering coordinates transcriptional output of disparate biological processes in eukaryotes
- Design of time-delayed safety switches for CRISPR gene therapy
- Epidemic Models and Protective Mutations
- Impact of social distancing measures on the daily number of new COVID-19 cases in Cote d'Ivoire: a retrospective cohort study
- When can we safely return to normal? A novel method for identifying safe levels of NPIs in the context of COVID-19 vaccinations
- Do sex hormones confound or mediate the effect of chronotype on breast and prostate cancer? A Mendelian randomization study.
- Characterization of the Second Wave of COVID-19 in India
- Forecast of the covid19 epidemic in France
- Survival analysis methods for analysis of hospitalization data: Application to COVID-19 patient hospitalization experience
- Emergence of the SARS-CoV-2 B.1.1.7 lineage and its characteristics at an outpatient testing site in Berlin, Germany, January-March 2021
- The relationship between human mobility measures and SAR-Cov-2 transmission varies by epidemic phase and urbanicity: results from the United States
- Access to palivizumab among children at high risk of respiratory syncytial virus complications in English hospitals
- Leveraging community mortality indicators to infer COVID-19 mortality and transmission dynamics in Damascus, Syria
- Modelling the potential impact of mask use in schools and society on COVID-19 control in the UK
- Transcriptome integrated metabolic modeling of carbon assimilation underlying storage root development in cassava
- Image-based personalization of computational models for predicting response of high-grade glioma to chemoradiation
- Gene expression rearrangements denoting changes in the biological state
- A tale of two rhythms: Locked clocks and chaos in biology
- Gβγ signaling from an eponymous past to a specific future
- SIGNAL: A web-based iterative analysis platform integrating pathway and network approaches optimizes hit selection from genome-scale assays
- Modeling the complete kinetics of coxsackievirus B3 reveals human determinants of host-cell feedback
- Consciousness depends on integration between parietal cortex, striatum, and thalamus
- Olfactory encoding within the insect antennal lobe: The emergence and role of higher order temporal correlations in the dynamics of antennal lobe spiking activity
- Temperate and chronic virus competition leads to low lysogen frequency
- Cerebrospinal fluid flow driven by arterial pulsations in axisymmetric perivascular spaces: analogy with Taylor’s swimming sheet
- Modelling uniaxial non-uniform yeast colony growth: comparing an agent-based model and continuum approximations
- Spatial distribution of gut microbes along the intestinal duct
- Likelihood function for estimating parameters in multistate disease process with Laplace-transformation-based transition probabilities
- The role of viral infectivity in oncolytic virotherapy outcomes: A mathematical study
- Spatially localized cluster solutions in inhibitory neural networks
- Lockdown measures and their impact on single- and two-age-structured epidemic model for the COVID-19 outbreak in Mexico
- Corrigendum to: “Application of the Goodwin model to autoregulatory feedback for stochastic gene expression” [Math. Biosci. 327 (2020) 108413]
- Unraveling the mechanisms of surround suppression in early visual processing
- Correction: An antigenic diversification threshold for falciparum malaria transmission at high endemicity
- Vessel network extraction and analysis of mouse pulmonary vasculature via X-ray micro-computed tomographic imaging
- Estimating Transfer Entropy in Continuous Time Between Neural Spike Trains or Other Event-Based Data
- Hierarchical motor adaptations negotiate failures during force field learning
- Synchronized Tick Population Oscillations Driven by Host Mobility and Spatially Heterogeneous Developmental Delays Combined
- A Two-Dimensional Model of Potassium Signaling and Oscillatory Growth in a Biofilm
- Evolution and Adaptation of Anti-predation Response of Prey in a Two-Patchy Environment
- Mosquito Control Based on Pesticides and Endosymbiotic Bacterium Wolbachia
- Harnessing Social Media in the Modelling of Pandemics—Challenges and Opportunities
- Modelling the association between COVID-19 transmissibility and D614G substitution in SARS-CoV-2 spike protein: using the surveillance data in California as an example
- Correction to: Statistical field theory of the transmission of nerve impulses
- A mathematical model of circadian rhythms and dopamine
- Reconstructing the household transmission of influenza in the suburbs of Tokyo based on clinical cases
- Correction to: Required concentration index quantifies effective drug combinations against hepatitis C virus infection
- MD Simulations on a Well-Built Docking Model Reveal Fine Mechanical Stability and Force-Dependent Dissociation of Mac-1/GPIbα Complex
- Characterization of Weak Protein Domain Structure by Spin-Label Distance Distributions
- ThermoScan: Semi-automatic Identification of Protein Stability Data From PubMed
- Molecular Basis of Class B GPCR Selectivity for the Neuropeptides PACAP and VIP
- Perspectives on High-Throughput Ligand/Protein Docking With Martini MD Simulations
- Circadian rhythms and the HPA axis: A systems view
- Tools for computational analysis of moving boundary problems in cellular mechanobiology
- Thermoregulation: A journey from physiology to computational models and the intensive care unit
- Microbial metabolic noise
- The WNT/β‐catenin dependent transcription: A tissue‐specific business
- Kinetic Modeling of Metabolism: Present and Future
- Building synthetic multicellular systems using bottom–up approaches
- The adaptive immune receptor repertoire community as a model for FAIR stewardship of big immunology data
- Antigen discovery tools for adaptive immune receptor repertoire research
- Development of adaptive immune cells and receptor repertoires from infancy to adulthood
- Dynamics of epidemic spreading on connected graphs
- Dynamics of a new HIV model with the activation status of infected cells
- Spectral properties of a non-compact operator in ecology
- Multiscale modeling of glioma pseudopalisades: contributions from the tumor microenvironment
- Stochastic models of infectious diseases in a periodic environment with application to cholera epidemics
Twitter Bio Models
Prof. @ruth_baker starts her @mathonco seminar talk describing her approach to #mathbio modeling
3
New #MathBio paper out today in @KirschnerDenise's lab:
To Sobol or not to Sobol? The effects of sampling schemes in systems biology applications.
Several examples, including sensitivity analysis & calibration for an SIR model.
#MathTwitter #EpiTwitter
https://www.sciencedirect.com/science/article/pii/S0025556421000419
How to use deterministic, mechanistic models to capture heterogeneity within and across individuals.
Example: Prostate Cancer. #prostatecancer #immunotherapy #mathbio
https://www.mdpi.com/2072-6694/13/8/1872
Looks great @doyarzunrod! It will be a nice read for the weekend #synbio #compbio @SynthSysEd
Fresh out of the oven - our latest work on perfect adaptation circuits - following the steps of titans @KhammashLab #synbio #compbio #sysbio @SynthSysEd
https://www.biorxiv.org/content/10.1101/2021.04.18.440372v1
More to come this week
If you are thinking of taking up a course in computational biology, check out this webinar!
@iscbsc @ISCB_RSG_India
#Bioinformatics #computationalbiology #compbio
Was your transition from biology or computer science to Computational biology difficult?
iSCB RSG-India is delighted to invite you for a webinar on “Transition to Computational Biology”.
Registration at: https://forms.gle/oarKVNDuWwt5sFk59
@iscb
@iscbsc
@OpenAcademics
@AcademicChatter
Last but not least: The #datamanagement web platform @FAIRDOM_eu #SEEK of @HITStudies is introduced at the "#Tools for #Systemsbiology, #modeling and #dataexchange" workshop. For more information about #SEEK see: https://www.denbi.de/services/376-seek-a-software-platform-for-collaborative-projects-to-support-the-data-storage-and-data-exchange-between-project-partners
4Last day of the "#Tools for #Systemsbiology, #modeling and #dataexchange" workshop started with an introduction to SABIO-RK - a #bioinformatics #database for #biochemical #reactions and their #kinetic properties. For more information see: https://www.denbi.de/services/374-sabio-rk-a-database-for-biochemical-reactions-and-their-kinetic-properties
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My first video on #Diatoms https://youtu.be/5q1bB6xTvDw. Have just started making these #science videos. Will be looking forward for reviews and suggestions to improve them for future :)
Thanks for watching!
#algae #Bioinformatics #Systemsbiology #biology #ecology #research #Genomics
Reimagining #BigData storage - move over #Microchip, there's a new (older!) kid on the block... #DNA #SyntheticBiology #SystemsBiology #Bioinformatics #AWS #DigitalHealth #DigitalTransformation #LoveIrishResearch #CollaborateWithMTU @MTU_Cork https://www.tandfonline.com/doi/citedby/10.4161/bioe.24296#.YH_ZJWYPSzk.twitter