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.
- The positive-negative mode link between brain connectivity, demographics, and behavior: A pre-registered replication of Smith et al. 2015. (arXiv:2201.10598v1 [q-bio.NC])
- A probabilistic latent variable model for detecting structure in binary data. (arXiv:2201.11108v1 [stat.ML])
- FastRemap: A Tool for Quickly Remapping Reads between Genome Assemblies. (arXiv:2201.06255v2 [q-bio.GN] UPDATED)
- Generating 3D Molecules Conditional on Receptor Binding Sites with Deep Generative Models. (arXiv:2110.15200v2 [q-bio.QM] UPDATED)
- Data-based stochastic modeling reveals sources of activity bursts in single-cell TGF-$\beta$ signaling. (arXiv:2107.11770v2 [q-bio.MN] UPDATED)
- Machine Learning Characterization of Cancer Patients-Derived Extracellular Vesicles using Vibrational Spectroscopies. (arXiv:2107.10332v7 [q-bio.OT] UPDATED)
- When to end a lock down? How fast must vaccination campaigns proceed in order to keep health costs in check?. (arXiv:2103.15544v4 [q-bio.PE] UPDATED)
- Non-equilibrium, weak-field induced magnetism: a mechanism for magnetobiology. (arXiv:2102.00481v2 [cond-mat.stat-mech] UPDATED)
- What makes us humans: Differences in the critical dynamics underlying the human and fruit-fly connectome. (arXiv:2201.11084v1 [q-bio.NC])
- Do Neural Networks for Segmentation Understand Insideness?. (arXiv:2201.10664v1 [cs.CV])
- Rhythm of The Night (and Day): Predictive metabolic modeling of circadian growth in Chlamydomonas
- Theoretical Principles of Enhancer-Promoter Communication in Transcriptional Bursting
- Inference and Uncertainty Quantification of Stochastic Gene Expression via Synthetic Models
- Mathematical Modeling of Thyroid Homeostasis: Implications for the Allan-Herndon-Dudley Syndrome
- Population dynamics of epithelial-mesenchymal heterogeneity in cancer cells
- Probabilistic Edge Weights Fine-tune Boolean Network Dynamics
- Scale-Dependent Coherence of Terrestrial Vertebrate Biodiversity with Environment
- Computational Model of Heterogeneity in Melanoma: Designing Therapies and Predicting Outcomes
- A unified Method for assessing the Observability of Dynamic Complex Systems in Biology
- Factors affecting post-breeding endometritis, pregnancy rate and embryonic/fetal death in sport mares in two French commercial stud farms: special focus on age, parity and lactating status effects
- Seroepidemiological and genomic investigation of COVID-19 spread in North East region of India
- The Epidemiology of Hundreds of Individuals Infected with Omicron BA.1 in Middle-Eastern Jordan
- Hepatitis B virus infection in the Lao PDR: A systematic review
- Learnings from the Australian First Few X Household Transmission Project for COVID-19
- Population-based sequencing of Mycobacterium tuberculosis reveals how current population dynamics are shaped by past epidemics
- The Choice of Response Alternatives in COVID-19 Social Science Surveys
- Rapid emergence of SARS-CoV-2 Omicron variant is associated with an infection advantage over Delta in vaccinated persons
- Projection of Healthcare Demand in Germany and Switzerland Urged by Omicron Wave (January-March 2022)
- Development and validation of personalised risk prediction models for early detection and diagnosis of primary liver cancer among the English primary care population using the QResearch database: research protocol and statistical analysis plan
- Empirical Calibration of a Simulation Model of Opioid Use Disorder
- Scalable reaction network modeling with automatic validation of consistency in Event-B
- Systematic decomposition of sequence determinants governing CRISPR/Cas9 specificity
- T cell subtype profiling measures exhaustion and predicts anti-PD-1 response
- Intelligent problem-solving as integrated hierarchical reinforcement learning
- Stepwise slime mould growth as a template for urban design
- A social perspective on perceived distances reveals deep community structure [Applied Mathematics]
- A multiscale biophysical model gives quantized metachronal waves in a lattice of beating cilia [Applied Mathematics]
- Modeling for COVID-19 college reopening decisions: Cornell, a case study [Population Biology]
- Theoretical evidence of osteoblast self-inhibition after activation of the genetic regulatory network controlling mineralization
- How optimal allocation of limited testing capacity changes epidemic dynamics
- On the Fourier transform of a quantitative trait: Implications for compressive sensing
- Mathematical modeling of tumor-immune system interactions: the effect of rituximab on breast cancer immune response
- Evolution of enzyme levels in metabolic pathways: A theoretical approach
- Can the lack of fibrillar form of alpha-synuclein in Lewy bodies be explained by its catalytic activity?
- Machine learning for mathematical models of HCV kinetics during antiviral therapy
- Mathematical modeling and analysis of the heat shock protein response during thermal stress in fish and HeLa cells
- Editorial Board
- Variant-specific interventions to slow down replacement and prevent outbreaks
- Machine learning-driven identification of drugs inhibiting cytochrome P450 2C9
- Dose-dependent thresholds of dexamethasone destabilize CAR T-cell treatment efficacy
- AIME: Autoencoder-based integrative multi-omics data embedding that allows for confounder adjustments
- Efficient ReML inference in variance component mixed models using a Min-Max algorithm
- McComedy: A user-friendly tool for next-generation individual-based modeling of microbial consumer-resource systems
- The Heterogeneous Severity of COVID-19 in African Countries: A Modeling Approach
- A Variational Approach to Morphogenesis
- Effects of Sterile Males and Fertility of Infected Mosquitoes on Mosquito-Borne Disease Dynamics
- Mechanical Torque Promotes Bipolarity of the Mitotic Spindle Through Multi-centrosomal Clustering
- Vaccination and Quarantine Effect on COVID-19 Transmission Dynamics Incorporating Chinese-Spring-Festival Travel Rush: Modeling and Simulations
- The impact of natural disasters on the spread of COVID-19: a geospatial, agent-based epidemiology model
- The effect of men who have sex with men (MSM) on the spread of sexually transmitted infections
- Assessing countermeasures during a hepatitis A virus outbreak among men who have sex with men
- Analysis of international traveler mobility patterns in Tokyo to identify geographic foci of dengue fever risk
- On the relationship between inhibition and receptor occupancy by nondepolarizing neuromuscular blocking drugs
- Modeling the MreB-CbtA Interaction to Facilitate the Prediction and Design of Candidate Antibacterial Peptides
- Energy Bilocalization Effect and the Emergence of Molecular Functions in Proteins
- Computational Insights Into the Effects of the R190K and N121Q Mutations on the SARS-CoV-2 Spike Complex With Biliverdin
- Unveiling the Gating Mechanism of CRAC Channel: A Computational Study
- RIGI, TLR7, and TLR3 Genes Were Predicted to Have Immune Response Against Avian Influenza in Indigenous Ducks
- Explainable deep learning in healthcare: A methodological survey from an attribution view
- The crucial role of model systems in understanding the complexity of cell signaling in human neurocristopathies
- Seven challenges in the multiscale modeling of multicellular tissues
- Transferability of tigecycline resistance: Characterization of the expanding Tet(X) family
- An integrative multiscale view of early cardiac looping
- Lessons from metabolic perturbations in lysosomal storage disorders for neurodegeneration
- Lipid metabolism in metastasis and therapy
- Multi-input biocomputer gene circuits for therapeutic application
- Control of mammalian cell-based devices with genetic programming
- Culturing pluripotent stem cells: State of the art, challenges and future opportunities
- The effect of viscoelasticity of the tissue on the magneto-responsive drug delivery system
- Spatiotemporal patterns of a diffusive prey-predator model with spatial memory and pregnancy period in an intimidatory environment
- Strong stochastic persistence of some Lévy-driven Lotka–Volterra systems
- Local asymptotic stability of a system of integro-differential equations describing clonal evolution of a self-renewing cell population under mutation
- Structural identifiability analysis of age-structured PDE epidemic models
Twitter Bio Models
Hey #MathBio folks! What are some of your favorite Theoretical and/or #MathematicalBiology books/resources/tools/videos/blogs, etc? Any good #MathematicalModeling materials that helped you throughout your training/education/career? *free/open access educational recs to the front*
**Special Issue** Celebrating J.D. Murray’s Contributions to Mathematical Biology
by PK Maini, MAJ Chaplain @mcapellanus, MA Lewis & JA Sherratt
"tackling an astonishingly diverse range of subjects with vision" - thanks Jim, for #mathbio itself!
https://link.springer.com/article/10.1007/s11538-021-00955-8
Bulletin of Mathematical Biology #BullMathBiol Jan 2022 (Volume 84, Issue 1) is available online now and it’s jam packed full of math bio! 👇
https://link.springer.com/journal/11538/volumes-and-issues/84-1
We are looking for amazing talents to join our group! Please forward this message to those who might be interested! #Mathbio #Biophysics #SystemsBiology #ComputationalBiology @ls_siam @SMB_MathBiology @ESMTBio @BiophysicalSoc
IBS Biomedical Math Group looks for passionate researchers (Due: Dec 31). Postdoc (2+1 years) and Senior researcher (2+3 years)! Great opportunity to solve real-world bio and med problems with math!
https://www.ibs.re.kr/bimag/hiring/
🔊 Are you going to @JointMath? We will be there and want to see you. Plus, we’ll have T-shirts for you! 🎉
Please email membership@smb.org if you are attending and interested in SMB swag and meeting other #MathBio folks.
Remarkably excited by this announcement, congrats! #compbio #biotech #tools the modern bio data stack must include #toolchest #SciTwitter
We're excited to announce that we're part of the @ycombinator W22 batch.
At @trytoolchest, our goal is to accelerate discoveries by letting researchers run computational biology tools in the cloud with a few lines of code.
http://trytoolchest.com
Para la gente haciendo genómica del cáncer, incluyendo #CompBio y #bioinformatics, este recurso está bueno...
The paper on the 7th release of the Network of Cancer Genes (NCGHD 7.0) is out in @GenomeBiology! It has been a huge group effort! Thanks to Scientific Computing @CRUKresearch @CRUKCOLcentre @crukkhp @ITN_CONTRA @KCLcancer_pharm for support. 1/6 https://genomebiology.biomedcentral.com/articles/10.1186/s13059-022-02607-z
Did you know? A receiver operating characteristic (ROC) curve is a plot illustrating the diagnostic ability of a binary classifier system. The method was developed in 1941 for operators of military radar receivers, hence its name. https://en.wikipedia.org/wiki/Receiver_operating_characteristic
#WikiWednesday #CompBio
Check out openings for Principal Investigator at @IGCiencia . A lot of interest in #BiologicalNetworks, #complexity, #SystemsBiology. #ComputationalBiology, #biophysics, #Evolutionarydynamics, #Machinelearning for the study of biological systems
https://gulbenkian.pt/ciencia/research/open-calls/
Free Webinar: Big Data, AI and Systems Medicine
Thu 27 JAN 2022, 10:30-12 CET
https://lnkd.in/deU546iw
#systemsbiology #bigdata #medicine #innovation #ai #networkscience #networkpharmacology #valuebasedmedicine #genetherapy https://lnkd.in/d8EiGEin
Contemplaining if my new fav mutant has issues in terms of #biomechanics or #mechanobiology....I am afraid both - I mean: great both :) #systemsbiology ...btw very good paper I am reading, esp the summary of #plantphysiology focus over time #plantsci #roots 👇
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