yusuke1997/dblp-id-title huggingface dataset:
Mathematical model of tumor immune microenvironment with application to the combined therapy targeting the PD-1/PD-L1 pathway and IL-10 cytokine antibody
Stability of density-dependent model with indirect feedback and biomass inhibition
Neural model of gene regulatory network: a survey on supportive meta-heuristics
"Cladus" and clade: a taxonomic odyssey
Evolutionary synthesis from a cosmopolitan point of view: a commentary on the ideas of Reif, Junker and Hossfeld
French tradition and the rise of Evo-devo
Topological determination of early morphogenesis in Metazoa
Top-down anticipatory control in prefrontal cortex
Information theory, gene expression, and combinatorial regulation: a quantitative analysis
Alfred Russel Wallace's world of final causes
Normalizing need not be the norm: count-based math for analyzing single-cell data
Comments on "Gene and genon concept" by K. Scherrer and J. Jost
Epidemic threshold : a Laplacian spectral and structural approach of prediction
Threshold dynamics of a non-autonomous SEIRS model with quarantine and isolation
Radioresistance and radiosensitivity: a biophysical approach on bacterial cells robustness
Average Fitness Differences on NK Landscapes
Introduction to the second special issue in commemoration of Olaf Breidbach
Self-complementary circular codes in coding theory
An introduction to the mathematical structure of the Wright-Fisher model of population genetics
Optimal dispersal and diffusion-enhanced robustness in two-patch metapopulations: origin's saddle-source nature matters
Evolutionary patterns of non-coding RNAs
Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples
Defining genes: a computational framework
An objective view of biological diversity: how history and epistemology shaped current treatment
Evolution, reproduction and definition of life
A mathematical solution to Peto's paradox using Polya's urn model: implications for the aetiology of cancer in general
The reception of Haeckel in pre-revolutionary Russia and his impact on evolutionary theory
Guided self-organization: perception-action loops of embodied systems
Haeckel and du Bois-Reymond: rival German Darwinists
Tunable kinetic proofreading in a model with molecular frustration
How can evolutionary theory accommodate recent empirical results on organismal senescence?
Quantification of phase coupling and information transfer between electroencephalographic (EEG) signals: Analysis strategies, models and simulations
Simulation of Rapoport's rule for latitudinal species spread
A model of bi-mode transmission dynamics of hepatitis C with optimal control
Analytic derivation of bacterial growth laws from a simple model of intracellular chemical dynamics
Sympatric speciation as intrinsic property of the expanding population
3D Multi-agent models for protein release from PLGA spherical particles with complex inner morphologies
Epigenetic contribution to age distribution of mortality within the Penna model
The synthetic theory of evolution: general problems and the German contribution to the synthesis
A model-based strategy to investigate the role of microRNA regulation in cancer signalling networks
Guest-editorial: "Organism" - Historical and philosophical issues
Randomness and multilevel interactions in biology
Selection for male-enforced uniparental cytoplasmic inheritance
Biological information
Hox genes, homology and axis formation - The application of morphological concepts to evolutionary developmental biology
The historical nature of biological complexity and the ineffectiveness of the mathematical approach to it
Design specifications for cellular regulation
Neuroevolution and complexifying genetic architectures for memory and control tasks
On the gestalt concept
Information theory unveils the evolution of tRNA identity elements in the three domains of life
Biological organicism and the ethics of the human-nature relationship
A simple derivation of the Gompertz law for human mortality
How symbiogenic is evolution?
Stochastic Penna model for biological aging
Methodological notes on pandemic virus SARS-CoV-2 research
A mathematical model of avian influenza with half-saturated incidence
Consistency principle in biological dynamical systems
Bioenergetics of life, disease and death phenomena
Sexual selection under parental choice: a revision to the model
Towards understanding the immune system
Longevity of orders is related to the longevity of their constituent genera rather than genus richness
Molecular phylogeny of selected predaceous leeches with reference to the evolution of body size and terrestrialism
The failure of morphology to contribute to the modern synthesis
Innovations are disproportionately likely in the periphery of a scientific network
Measurement of statistical evidence on an absolute scale following thermodynamic principles
Optimal control therapy and vaccination for special HIV-1 model with delay
On biological individuation
Thomas S. Kuhn: key to a better understanding of the extended evolutionary synthesis
Mathematical modeling for mutator phenotype and clonal selection advantage in the risk analysis of lung cancer
A "lookup table" schema for synthetic biological patterning
The meaning of character combination for the separation of EEG-data
Role of integrated noise in pathway-specific signal propagation in feed-forward loops
Process analysis of carcinogenesis: concept derivation of the tissue function "preservation of a homogeneous gene expression"
Geometry and phenomenology of the living: Limits and possibilities of mathematization, complexity and individuation in biological sciences
Homologies in phylogenetic analyses - concept and tests
Self-organised criticality in a genetic model of species-species interaction
How geometration reduces the velocity of DNA in gel electrophoresis
Biology as involving laws and inconceivable without them
Investigation of memory influences on bio-heat responses of skin tissue due to various thermal conditions
Generalized Allee effect model
Biologically inspired control of physically simulated bipeds
The influence of the medical care on the human life expectancy in 20 th century and the Penna ageing model
On estimating similarity of artificial and real organisms
ERG signal analysis using wavelet transform
The evolution of parental care in freshwater leeches
Approximating the stabilization of cellular metabolism by compartmentalization
Alfred Russel Wallace and the destruction of island life: the Iguana tragedy
Hominid sexual nature
Information transmission in a two-step cascade: interplay of activation and repression
Kin term mimicry hypothesis
Assessing the effects of drug misuse on HIV/AIDS prevalence
Prediction of lethal and synthetically lethal knock-outs in regulatory networks
Epistemology of living organisms in Aristotle's philosophy
Gene-mating dynamic evolution theory: fundamental assumptions, exactly solvable models and analytic solutions
Are spliced ncRNA host genes distinct classes of lncRNAs?
The break-up between Darwin and Haeckel
Ernst Haeckel's "ecology" in Russia of the first half of the twentieth century
From Haeckel to event-pairing: the evolution of developmental sequences
Smart and smarter: improving on a classic egg shape model
Behavioural plasticity in evolving robots
Spectral plots and the representation and interpretation of biological data
Quality management for biomedical research in Germany
Descriptive versus causal morphology: gynandromorphism and intersexuality
Mathematical computations on epidemiology: a case study of the novel coronavirus (SARS-CoV-2)
Goethe's "Comparirte Anatomy" as a foundation for the growth of theoretical and applied biomedical sciences in Jena
Competing with oneself: introducing self-interaction in a model of competitive learning
Modeling invasive species spread in Lake Champlain via evolutionary computations
Introduction to the special issue in commemoration of Olaf Breidbach
The invariance of production per unit of food consumed in fish populations
Edge-based analysis of networks: curvatures of graphs and hypergraphs
The free energy method and the Wright-Fisher model with 2 alleles
A hypothesis for the evolution of sex
Acute hepatitis B virus infection model within the host incorporating immune cells and cytokine responses
Quantifying simultaneous innovations in evolutionary medicine
The emergence of dynamic networks from many coupled polar oscillators: a paradigm for artificial life
Ernst Haeckel's contribution to Evo-Devo and scientific debate: a re-evaluation of Haeckel's controversial illustrations in US textbooks in response to creationist accusations
Selective advantage for sexual reproduction with random haploid fusion
Connected pretopology in recombination space
Modeling stress-induced responses: plasticity in continuous state space and gradual clonal evolution
The evolution of multicellularity in animals as a shift in biological autonomy
Systems biology of eukaryotic superorganisms and the holobiont concept
Results of the oxygen Fick method in a closed blood circulation model including "total arteriovenous diffusive shunt of oxygen"
Saltational evolution: hopeful monsters are here to stay
Aristotle's lobster: the image in the text
New insights into molecular evolution: prospects from the Barcode of Life Initiative (BOLI)
Information processing in echo state networks at the edge of chaos
Nutritional regulation of gene expression
Scherrer and Jost's symposium: the gene concept in 2008
Effects of water currents on fish migration through a Feynman-type path integral approach under $\sqrt{8/3}$ Liouville-like quantum gravity surfaces
What makes some species of milk snakes more attractive to humans than others?
Species and paleoanthropology
The history of the homology concept and the "Phylogenetisches Symposium"
Self-organization of self-clearing beating patterns in an array of locally interacting ciliated cells formulated as an adaptive Boolean network
Identification of MFS proteins in sorghum using semantic similarity
Consciousness, decision making, and volition: freedom beyond chance and necessity
The emerging structure of the Extended Evolutionary Synthesis: where does Evo-Devo fit in?
Information transfer in moving animal groups
Coherent information structure in complex computation
Tumor growth dynamics under adaptive therapy: a multi-scale computational approach
Methylotrophic bacteria on the surfaces of field-grown sunflower plants: a biogeographic perspective
Correction to: The biological Maxwell's demons: exploring ideas about the information processing in biological systems
Symmetrical distributions of aminoacyl-tRNA synthetases during the evolution of the genetic code
Addition to "Special Issue in Commemoration of Olaf Breidbach-Part II"
Spaces of mathematical chemistry
SIRI+Q model with a limited capacity of isolation
Matrix stability and bifurcation analysis by a network-based approach
External and internal complexity of complex adaptive systems
Post-Haeckelian comparative biology - Adolf Naef's idealistic morphology
Diploidy and the selective advantage for sexual reproduction in unicellular organisms
Stability and performance of ant queue inspired task partitioning methods
Vigor of survival determinism: subtle evolutionary gradualism interspersed with robust phylogenetic leaping
Flow analysis of Carreau fluid model induced by the ciliary cells, smooth muscle cells and pressure gradient at the ampullar region entrance
Symmetry breaking and mismatch in the torsional mechanism of ATP synthesis by F O F 1 -ATP synthase: mathematical number theory proof and its chemical and biological implications
A new symbiotic, holistic and gradualist model proposal for the concept of "living organism"
Comments by Ernst Mayr
Sexual selection and the opportunity cost of free mate choice
A self-referential model for the formation of the genetic code
Equilibrium correlations in a model for multidimensional epistasis
On quantitative effects of RNA shape abstraction
In-silico search of virus-specific host microRNAs regulating avian influenza virus NS1 expression
Sensory exploitation and cultural transmission: the late emergence of iconic representations in human evolution
A biological and a mathematical model of SLE treated by mesenchymal stem cells covering all the stages of the disease
Exploring dynamical patterns and optical solutions of space-time fractional-order double-chain deoxyribonucleic acid model with Atangana's conformable derivative
Long-term evolution of an ecosystem with spontaneous periodicity of mass extinctions
Leibnizian organisms, nested individuals, and units of selection
Perception-action loops of multiple agents: informational aspects and the impact of coordination
The phylotypic stage as a boundary of modular memory: non mechanistic perspective
Modelling and optimal control for Chikungunya disease
Path integral control of a stochastic multi-risk SIR pandemic model
The biological Maxwell's demons: exploring ideas about the information processing in biological systems
Uexküllian Umwelt as science and as ideology: the light and the dark side of a concept
Self-replication: spelling it out in a chemical background
Stability of a diffusive-delayed HCV infection model with general cell-to-cell incidence function incorporating immune response and cell proliferation
A stochastic differential game approach toward animal migration
Human evolution and cognition
Evo-devo and the search for homology ("sameness") in biological systems
The Big Bang, Superstring Theory and the origin of life on the Earth
A mathematical and numerical study of a SIR epidemic model with time delay, nonlinear incidence and treatment rates
Mathematical modeling and analysis of anemia during pregnancy and postpartum
On Carl Gegenbaur's theory on head metamerism and the selection of taxa for comparisons
Modelling survival and allele complementation in the evolution of genomes with polymorphic loci
Semetic rings: towards the new concept of mimetic resemblances
Pattern recognition by primary and secondary response of an Artificial Immune System
Interaction rates, vital rates, background fitness and replicator dynamics: how to embed evolutionary game structure into realistic population dynamics
The conceptual framework of evolutionary morphology in the studies of Ernst Haeckel and Fritz Müller
Sex and recombination in the Hötzel aging model
Network representation and analysis of energy coupling mechanisms in cellular metabolism by a graph-theoretical approach
Behavior reuse and virtual sensors in the evolution of complex behavior architectures
The former synthesis - Some remarks on the typological background of Haeckel's ideas about evolution
A comparative analysis of the Darwin-Wallace papers and the development of the concept of natural selection
Tetz's theory and law of longevity
Character identification in evolutionary biology: The role of the organism
Swarms of particle agents with harmonic interactions
Molecular characterization of chilli leaf curl Ahmedabad virus: homology modelling and evaluation of viral proteins interacting with host protein SnRK1 and docking against flavonoids - an in silico approach
Introduction to the autobiography of Julius Schaxel
How should we measure proportionality on relative gene expression data?
Speciation, natural selection, and networks: three historians versus theoretical population geneticists
Optimal allocation in annual plants with density-dependent fitness
Prebiotic chemical refugia: multifaceted scenario for the formation of biomolecules in primitive Earth
Prediction of the human life expectancy
Realistic threshold policy with hysteresis to control predator-prey continuous dynamics
Hox cluster duplication in the basal teleost Hiodon alosoides (Osteoglossomorpha)
Darwin without borders? Looking at 'generalised Darwinism' through the prism of the 'hourglass model'
Myths of past biases and progress in biology
A life dedicated to research and ideal: Johannes Müller between empirical universality and idealistic vitalism mirrored in lecture notes from 1851
On technomorphic modelling and classification of biological joints
Inherent size constraints on prokaryote gene networks due to "accelerating" growth
Formal verification confirms the role of p53 protein in cell fate decision mechanism
A semi-analytical approach and theoretical investigation to multi-dimensional DNA models
Defining and simulating open-ended novelty: requirements, guidelines, and challenges
Fluctuation of population in penna model
Habiline variation: A new approach using STET
Photosynthesis research on yellowtops: Macroevolutionn in progress
A kinetic approach to assess oxidative metabolism related features in the bivalve Mya arenaria
Integrating heterogeneous gene expression data for gene regulatory network modelling
Introduction to special issue ECCS'09 in Theory in Biosciences
Dynamics of a non-smooth epidemic model with three thresholds
Short peptide sequence identity between human viruses and HLA-B27-binding human 'self' peptides
Possible import routes of proteins into the cyanobacterial endosymbionts/plastids of Paulinella chromatophora
On some historical and theoretical foundations of the concept of chordates
Hierarchical analysis of piecewise affine models of gene regulatory networks
The role of self-organization in developmental evolution
Guiding the self-organization of random Boolean networks
An almost periodic model to describe phenology mismatches in mutualistic interactions
Johannes Reinke (1839-1931) and his "Dominaten" theory - An early concept of gene regulation and morphogenesis
Editorial: Haeckel and modern biology
Comments on the paper by K. Scherrer and J. Jost "Gene and genon" concept: coding versus regulation
Random deaths in a computational model for age-structured populations
Russian editions of E. Haeckel's works and the evolution of their perception
Vertebrate head development: Segmentation, novelties, and homology
Armin von Tschermak-Seysenegg (1870-1952): Physiologist and Co-'Rediscoverer' of Mendel's laws
Seeing beyond the average cell: branching process models of cell proliferation, differentiation, and death during mouse brain development
Homosemiosis, mimicry and superficial similarity: notes on the conceptualization of independent emergence of similarity in biology
Metagenomics and the niche concept
A neural-network technique to learn concepts from electroencephalograms
The information theory of individuality
Informational architecture across non-living and living collectives
Autopolyploidy leads to rapid genomic changes in Arabidopsis thaliana
Behavioral selection in structured populations
The organism: A crucial genomic context in molecular epigenetics?
Pattern formation features might explain homoplasy: fertile surfaces in higher fungi as an example
The effect of ramet mortality on clonal plant growth
Alfred Russel Wallace (1823-1913): the forgotten co-founder of the Neo-Darwinian theory of biological evolution
Efficient modelling of foliage distribution and crown dynamics in monolayer tree species
On modelling of immune memory mechanisms
Application of network pharmacology in synergistic action of Chinese herbal compounds
Towards theoretical formalisms
Art Forms in Nature: radiolaria from Haeckel and Blaschka to 3D nanotomography, quantitative image analysis, evolution, and contemporary art
Wartime forced sex as a male mating strategy
Charles Robert Darwin and Alfred Russel Wallace: their dispute over the units of selection
Surrounding space the ontology of organism-environment relations
Evolution of a multi-agent system in a cyclical environment
Evolutionary transitions in heritability and individuality
Walter Garstang: a retrospective
Complexities in viral replication strategies as a potential explanation for prevalence of asymptomatic carriers in Covid-19 infections: analytical observation on SARS-Cov2 genome characteristics
The concept of the 'organic individual' in Haeckel's writings
Genes and homology in nervous system evolution: Comparing gene functions, expression patterns, and cell type molecular fingerprints
Transformative research: definitions, approaches and consequences
Growth modeling approach with the Verhulst coexistence dynamic properties for regulation purposes
A mechanistic model of metabolic symbioses in microbes recapitulates experimental data and identifies a continuum of symbiotic interactions
A model based criterion for gene expression calls using RNA-seq data
Polymer phosphorylases: clues to the emergence of non-replicative and replicative polymers
Ernst Haeckel and the philosophy of sponges
Variants of guided self-organization for robot control
Saltational symbiosis
Using views of Systems Biology Cloud: application for model building
Evolution by hybridisation. The influence of reticulate evolution on biosymmetrical patterns and processes in plants
A study on the stability behavior of an epidemic model with ratio-dependent incidence and saturated treatment
Stability and dynamics of a fractional-order three-species predator-prey model
Modeling influenza transmission and control: epidemic theory insights across Mexico, Italy, and South Africa
Correction to: Some theoretical insights into the hologenome theory of evolution and the role of microbes in speciation
Nontemplate-driven polymers: clues to a minimal form of organization closure at the early stages of living systems
Individual optimization efforts and population dynamics: a mathematical model for the evolution of resource allocation strategies, with applications to reproductive and mating systems
Biological ageing with birth rate controlled by mutations in the Penna model
Computing with bacterial constituents, cells and populations: from bioputing to bactoputing
MATH/CHEM/COMP 2004 Contributions
Complexity: against systems
Mathematical analysis of a modified Volterra-Leslie chemostat Model
Topology-based abstraction of complex biological systems: application to the Golgi apparatus
Influence of network topology on cooperative problem-solving systems
A model for the neuronal substrate of dead reckoning and memory in arthropods: a comparative computational and behavioral study
Preface. Between Ernst Haeckel and the homeobox: the role of developmental biology in explaining evolution
Ontogeny, anatomy, and the problem of homology: Carl Gegenbaur and the American tradition of cell lineage studies
Maintaining heritable variation via sex-limited temporally fluctuating selection: a phenotypic model accommodating non-Mendelian epigenetic effects
Tempos and modes of collectivity in the history of life
Plasmodial slime molds and the evolution of microbial husbandry
Molecular Recognition Theory of the complementary (antisense) peptide interactions
Altruism and antagonistic pleiotropy in Penna ageing model
Evolution of the vertebrate Y RNA cluster
Effects of viral mutation on cellular dynamics in a monte carlo simulation of HIV immune response model in three dimensions
Evolutionary concepts meet the neck of penguins (Aves: Sphenisciformes), towards a "survival strategy" for evo-devo
Relations and dependencies between morphological characters
Scientific traditions in conflict: the Rusconi-von Baer controversy on the embryology of frogs and the development of the cell theory
Ernst Mayr through time on the biological species concept - a conceptual analysis
Haeckel's scientific monism as theory of history
On some theoretical grounds for an organism-centered biology: Property emergence, supervenience, and downward causation
Stationary distribution and density function analysis of SVIS epidemic model with saturated incidence and vaccination under stochastic environments
Erich Wasmann, Ernst Haeckel, and the limits of science
The rate of opening and closing of the DNA gate for topoisomerase II
Hypothesis: functional age and onset of autosomal dominant genetic prion disease
American precursors of evo-devo: ecology, cell lineage, and pastimes unworthy of the Deity
Bijective codon transformations show genetic code symmetries centered on cytosine's coding properties
Endosymbiosis, cell evolution, and speciation
Critical periods as fundamental events in life
Two-species competing population dynamics with the population-dependent environmental capacities under random disturbance
An evolutionary game theory for event-driven ecological population dynamics
Didactics of molecular ecology