Santa Fe Institute Collaboration Platform

COMPLEX TIME: Adaptation, Aging, & Arrow of Time

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Contact: Caitlin Lorraine McShea, Program Manager, cmcshea@santafe.edu

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A
A Major Role of the Macrophage in Quantitative Genetic Regulation of Immunoresponsiveness and Antiinfectious Immunity  +
A Neural Network Model of Retrieval-Induced Forgetting  +
A Period2 Phosphoswitch Regulates and Temperature Compensates Circadian Period  +
A Simpler Model of the Human Circadian Pacemaker  +
A Tissue Engineered Model of Aging: Interdependence and Cooperative Effects in Failing Tissues  +
A communal catalogue reveals Earth's multiscale microbial diversity  +
A high-bias low-variance introduction to machine learning for physicists  +
A model comparison approach shows stronger support for economic models of fertility decline  +
A quantitative model for the effects of light on the amplitude and phase of the deep circadian pacemaker based on human data  +
A robust measure of food web intervality  +
A theory of age-dependent mutation and senescence  +
A truer measure of our ignorance  +
A two process model of sleep regulation  +
Abnormal Locus Coeruleus Sleep Activity Alters Sleep Signatures of Memory Consolidation and Impairs Place Cell Stability and Spatial Memory  +
Adaptive foraging allows the maintenance of biodiversity of pollination networks  +
Addition of a non-photic component to a light-based mathematical model of the human circadian pacemaker  +
Age-structured and stage-structured population dynamics  +
Ageing and the circadian and homeostatic regulation of human sleep during forced desynchrony of rest, melatonin and temperature rhythms  +
Aging and measures of processing speed  +
Aging in complex interdependency networks  +
Aging, Rejuvenation, and Epigenetic Reprogramming: Resetting the Aging Clock  +
Aging, mortality, and the fast growth trade-off of Schizosaccharomyces pombe  +
S
A
Altered avalanche dynamics in a developmental NMDAR hypofunction model of cognitive impairment  +
Amplification or suppression: Social networks and the climate change-migration association in rural Mexico  +
An Optimization-Based Approach to Understanding Sensory Systems  +
An opposite role for tau in circadian rhythms revealed by mathematical modeling  +
Antidepressant suppression of non-REM sleep spindles and REM sleep impairs hippocampus-dependent learning while augmenting striatum-dependent learning  +
Are Individual Differences in Sleep and Circadian Timing Amplified by Use of Artificial Light Sources?  +
Are There too Many Farms in the World? Labor-Market Transaction Costs, Machine Capacities and Optimal Farm Size  +
Asking the Right Questions in Alzheimer’s Research  +
Available energy fluxes drive a transition in the diversity, stability, and functional structure of microbial communities  +
B
Brain disorders? Not really: Why network structures block reductionism in psychopathology research  +
Brain state stability during working memory is explained by network control theory, modulated by dopamine D1/D2 receptor function, and diminished in schizophrenia  +
C
CD4 memory T cell levels predict life span in genetically heterogeneous mice.  +
Cholinergic modulation of cognitive processing: Insights drawn from computational models  +
Choosing Prediction Over Explanation in Psychology: Lessons From Machine Learning  +
Circadian pacemaker interferes with sleep onset at specific times each day: Role in insomnia  +
Circadian phenotype impacts the brain's resting-state functional connectivity, attentional performance, and sleepiness  +
Circadian regulation dominates homeostatic control of sleep length and prior wake length in humans  +
Circadian temperature and melatonin rhythms, sleep, and neurobehavioral function in humans living on a 20-h day  +
Climate shocks and rural-urban migration in Mexico: exploring nonlinearities and thresholds  +
Climate shocks and the timing of migration from Mexico  +
Cognitive neuroscience of sleep  +
Coherence potentials: Loss-less, all-or-none network events in the cortex  +
Communication dynamics in complex brain networks  +
Community of the Self  +
Comparing the Morningness-Eveningness Questionnaire and Munich ChronoType Questionnaire to the dim light melatonin onset  +
R
Context-dependent computation by recurrent dynamics in prefrontal cortex  +
C
Control of Mammalian Circadian Rhythm by CKI -Regulated Proteasome-Mediated PER2 Degradation  +
Coordinated reset vibrotactile stimulation shows prolonged improvement in Parkinson's disease  +
Correlation between genetic regulation of immune responsiveness and host defence against infections and tumours  +
Correlation between interaction strengths drives stability in large ecological networks  +
Cortically coordinated NREM thalamocortical oscillations play an essential, instructive role in visual system plasticity  +
Critical dynamics of gene networks is a mechanism behind ageing and Gompertz law  +
Critical networks exhibit maximal information diversity in structure-dynamics relationships  +
Critical slowing down as early warning for the onset and termination of depression  +
Critical slowing down as early warning for the onset and termination of depression  +
Critical slowing down as early warning for the onset and termination of depression  +
Critical slowing down as early warning for the onset and termination of depression  +
D
Data analysis using regression and multilevel/hierarchical models  +
Decline of long-range temporal correlations in the human brain during sustained wakefulness  +
Decreased segregation of brain systems across the healthy adult lifespan  +
Demography of dietary restriction and death in Drosophila  +
Differential and enhanced response to climate forcing in diarrheal disease due to rotavirus across a megacity of the developing world  +
Diversity of ageing across the tree of life  +
Diversity, Stability, and Reproducibility in Stochastically Assembled Microbial Ecosystems  +
Domestic and International Climate Migration from Rural Mexico  +
Dynamical Resilience Indicators in Time Series of Self-Rated Health Correspond to Frailty Levels in Older Adults  +
Dynamical indicators of resilience in postural balance time series are related to successful aging in high-functioning older adults  +
E
Early-warning signals for critical transitions  +
Eco-Evolutionary Theory and Insect Outbreaks  +
Ecosystem tipping points in an evolving world  +
C
Editorial overview: Neurobiology of cognitive behavior: Complexity of neural computation and cognition  +
E
Editorial overview: Neurobiology of cognitive behavior: Complexity of neural computation and cognition  +
Effects of Thermoregulation on Human Sleep Patterns: A Mathematical Model of Sleep–Wake Cycles with REM–NREM Subcircuit  +
Effects of meditation experience on functional connectivity of distributed brain networks  +
Elevated success of multispecies bacterial invasions impacts community composition during ecological succession  +
Emancipatory catastrophism: What does it mean to climate change and risk society?  +
Emergence of complex dynamics in a simple model of signaling networks  +
Emergent Functional Network Effects in Parkinson Disease  +
Emergent simplicity in microbial community assembly  +
Entrainment of the human circadian clock to the natural light-dark cycle  +
Environmental Dimensions of Migration  +
Evidence of strain structure in Plasmodium falciparum var gene repertoires in children from Gabon, West Africa  +
Evolution and climate variability  +
Experience-dependent phase-reversal of hippocampal neuron firing during REM sleep  +
Exposure to room light before bedtime suppresses melatonin onset and shortens melatonin duration in humans  +
Extended Twilight among Isogenic C. elegans Causes a Disproportionate Scaling between Lifespan and Health  +
F
Fisher's geometrical model and the mutational patterns of antibiotic resistance across dose gradients  +
Fisher's geometrical model emerges as a property of complex integrated phenotypic networks  +
Five Years of Experimental Warming Increases the Biodiversity and Productivity of Phytoplankton  +
Fractal dynamics in physiology: Alterations with disease and aging  +
Frequency-dependent selection in vaccine-associated pneumococcal population dynamics  +
Functional Brain Networks Are Dominated by Stable Group and Individual Factors, Not Cognitive or Daily Variation  +
G
Genetic control of immune responsiveness, aging and tumor incidence  +
Genetic regulation of the specific and non-specific component of immunity  +
H
Health beliefs and the politics of Cree well-being  +
Heuristic segmentation of a nonstationary time series  +
Hierarchy theory: the challenge of complex systems  +
Hierarchy theory: the challenge of complex systems  +
B
High performance communication by people with paralysis using an intracortical brain-computer interface  +
H
High performance communication by people with paralysis using an intracortical brain-computer interface  +
High sensitivity and interindividual variability in the response of the human circadian system to evening light  +
Hippocampal network oscillations rescue memory consolidation deficits caused by sleep loss  +
Homer1a drives homeostatic scaling-down of excitatory synapses during sleep  +
How the World Survived the Population Bomb: Lessons From 50 Years of Extraordinary Demographic History  +
Human cortical excitability increases with time awake  +
Human information processing in complex networks  +
I
In Vivo Amelioration of Age-Associated Hallmarks by Partial Reprogramming Cellular reprogramming by transient expression of Yamanaka factors ameliorates age-associated symptoms, prolongs lifespan in progeroid mice, and improves tissue homeostasis in older  +
In defence of repugnance  +
Increased Network Interdependency Leads to Aging  +
Indirect genetic effects clarify how traits can evolve even when fitness does not  +
Inferring network structure from cascades  +
Inheritance of immune responsiveness, life span, and disease incidence in interline crosses of mice selected for high or low multispecific antibody production  +
Input source and strength influences overall firing phase of model hippocampal CA1 pyramidal cells during theta: Relevance to REM sleep reactivation and memory consolidation  +
Interdependence theory of tissue failure: Bulk and boundary effects  +
Intergenerational resource transfers with random offspring numbers  +
International Climate Migration: Evidence for the Climate Inhibitor Mechanism and the Agricultural Pathway  +
Intrinsic period and light intensity determine the phase relationship between melatonin and sleep in humans  +
Irregular spiking of pyramidal neurons organizes as scale-invariant neuronal avalanches in the awake state  +
K
K-complex, a reactive EEG graphoelement of NREM sleep: An old chap in a new garment  +
L
Life-Span, tumor incidence, and natural killer cell activity in mice selected for high or low antibody responsiveness  +
Limits of Prediction in thermodynamic systems: a review  +
Longevity Among Hunter- Gatherers: A Cross-Cultural Examination  +
Loss of Consciousness Is Associated with Stabilization of Cortical Activity  +
Loss of Consciousness Is Associated with Stabilization of Cortical Activity  +
Lost in translation  +
Lotka-Volterra pairwise modeling fails to capture diverse pairwise microbial interactions  +
M
Macroscopic Models for Human Circadian Rhythms  +
Maintenance, reserve and compensation: the cognitive neuroscience of healthy ageing  +
Mammalian sleep dynamics: How diverse features arise from a common physiological framework  +
Markov mortality models: Implications of quasistationarity and varying initial distributions  +
Mathematical model of the human circadian system with two interacting oscillators.  +
Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics  +
Metabolic traits predict the effects of warming on phytoplankton competition  +
Metabolic traits predict the effects of warming on phytoplankton  +
Microbial interactions lead to rapid micro-scale successions on model marine particles  +
Modeling life expectancy and surplus production of dynamic pre-contact territories in leeward Kohala, Hawai'i  +
Modeling the temporal architecture of rat sleep-wake behavior.  +
Modeling transformations of neurodevelopmental sequences across mammalian species  +
Modulations of the experience of self and time  +
Mortality experience of Tsimane Amerindians of Bolivia: Regional variation and temporal trends  +
Multi-day rhythms modulate seizure risk in epilepsy  +
Multilevel Analysis  +
Multitrait successional forest dynamics enable diverse competitive coexistence  +
N
Natural speech reveals the semantic maps that tile human cerebral cortex  +
Network measures predict neuropsychological outcome after brain injury  +
Networks of genetic similarity reveal non-neutral processes shape strain structure in Plasmodium falciparum  +
Neuronal avalanches and coherence potentials  +
Neutral theory for life histories  +
Niche partitioning due to adaptive foraging reverses effects of nestedness and connectance on pollination network stability  +
O
On Nonstable and Stable Population Momentum  +
On mixed-effect Cox models, sparse matrices, and modeling data from large pedigrees  +
On the decline of biodiversity due to area loss  +
On the low dimensionality of behavioral deficits and alterations of brain network connectivity after focal injury  +
Open problems in artificial life  +
P
Paradoxical timing of the circadian rhythm of sleep propensity serves to consolidate sleep and wakefulness in humans  +
Parvalbumin-expressing interneurons coordinate hippocampal network dynamics required for memory consolidation  +
Peak of circadian melatonin rhythm occurs later within the sleep of older subjects  +
Physical Resilience: Not Simply the Opposite of Frailty  +
Physical resilience in older adults: Systematic review and development of an emerging construct  +
PhysioBank, PhysioToolkit, and PhysioNet : Components of a New Research Resource for Complex Physiologic Signals  +
Population and prehistory I: Food-dependent population growth in constant environments  +
Population and prehistory II: Space-limited human populations in constant environments.  +
Population and prehistory III: Food-dependent demography in variable environments  +
Population axiology  +
Population momentum across the demographic transition  +
Precision Functional Mapping of Individual Human Brains  +
Predicting biodiversity change and averting collapse in agricultural landscapes  +
Predicting maximum tree heights and other traits from allometric scaling and resource limitations  +
Predicting the stability of large structured food webs  +
Prediction of post-vaccine population structure of Streptococcus pneumoniae using accessory gene frequencies  +
Probabilistic sleep architecture models in patients with and without sleep apnea  +
Process-Specific Alliances (PSAs) in Cognitive Neuroscience  +
Provinciali et al 2009  +
Q
Quantifying Human Circadian Pacemaker Response to Brief, Extended, and Repeated Light Stimuli over the Phototopic Range  +
Quantifying Systemic resilience of humans and other animals  +
Quantitative, dynamic models to integrate environment, population, and society  +
R
REM restriction persistently alters strategy used to solve a spatial task  +
REM sleep selectively prunes and maintains new synapses in development and learning  +
REM sleep–active MCH neurons are involved in forgetting hippocampus-dependent memories  +
REM sleep–active MCH neurons are involved in forgetting hippocampus-dependent memories  +
Reactivation, retrieval, replay and reconsolidation in and out of sleep: Connecting the dots  +
Reduced lifespan and increased ageing driven by genetic drift in small populations  +
Reliability Theory of Aging and Longevity  +
Reliability Theory of Aging and Longevity  +
Remembering to forget: A dual role for sleep oscillations in memory consolidation and forgetting  +
Reorganization in Adult Primate Sensorimotor Cortex: Does It Really Happen?  +
Reproductive Mishaps and Western Contraception: An African Challenge to Fertility Theory  +
Reproductive Responses to Economic Uncertainty  +
Reproductive trade-offs in extant hunter-gatherers suggest adaptive mechanism for the Neolithic expansion  +
Reproductive value, the stable stage distribution, and the sensitivity of the population growth rate to changes in vital rates  +
Resilience Versus Robustness in Aging  +
Rethinking resilience from indigenous perspectives  +
Review: On mathematical modeling of circadian rhythms, performance, and alertness  +
Revisiting Lenneberg’s Hypotheses About Early Developmental Plasticity: Language Organization After Left-Hemisphere Perinatal Stroke  +
Revisiting spontaneous internal desynchrony using a quantitative model of sleep physiology  +
Risky business: Temporal and spatial variation in preindustrial dryland agriculture  +
Robustness in biological and social systems  +
Rural livelihoods and access to natural capital: Differences between migrants and non-migrants in Madagascar  +
S
Searching for rewards like a child means less generalization and more directed exploration  +
R
Segregated Systems of Human Brain Networks  +
S
Shearing in flow environment promotes evolution of social behavior in microbial populations  +
Shifts in metabolic scaling, production, and efficiency across major evolutionary transitions of life  +
Simulations of light effects on the human circadian pacemaker: Implications for assessment of intrinsic period  +
Single pollinator species losses reduce floral fidelity and plant reproductive function  +
Sleep contributes to dendritic spine formation and elimination in the developing mouse somatosensory cortex  +
Sleep is for forgetting  +
Sleep to remember  +
Social embeddedness in an online weight management programme is linked to greater weight loss  +
Social network- and community-level influences on contraceptive use: Evidence from rural poland  +
Social status alters immune regulation and response to infection in macaques  +
Socioeconomic status moderates age-related differences in the brain’s functional network organization and anatomy across the adult lifespan  +
Species interactions alter evolutionary responses to a novel environment  +
Species traits and network structure predict the success and impacts of pollinator invasions  +
Spindle Activity in the Waking EEG in Older Adults  +
Statistical physics of self-replication  +
Status competition, inequality, and fertility: Implications for the demographic transition  +
Stimulus-response paradigm for characterizing the loss of resilience in homeostatic regulation associated with frailty  +
Stimulus-response paradigm for characterizing the loss of resilience in homeostatic regulation associated with frailty  +
Stimulus-response paradigm for characterizing the loss of resilience in homeostatic regulation associated with frailty  +
Stressor interaction networks suggest antibiotic resistance co-opted from stress responses to temperature  +
Structure, function and diversity of the healthy human microbiome  +
Symmetry Breaking in Space-Time Hierarchies Shapes Brain Dynamics and Behavior  +
Systematic variation in the temperature dependence of physiological and ecological traits  +
T
Temperature dependence of the functional response  +
Temperature dependence of the functional response  +
Temperature dependence of trophic interactions are driven by asymmetry of species responses and foraging strategy  +
The Causal Relationship between Fertility and Infant Mortality: Prospective analyses of a population in transition  +
The Density of Social Networks and Fertility Decisions: Evidence From South Nyanza District, Kenya  +
The Diagnosis of Delirium Superimposed on Dementia: An Emerging Challenge  +
The Effects of APOE and ABCA7 on Cognitive Function and Alzheimer’s Disease Risk in African Americans: A Focused Mini Review  +
The Hidden Repertoire of Brain Dynamics and Dysfunction  +
The Island Where People Forget to Die - The New York Times  +
The McKendrick partial differential equation and its uses in epidemiology and population study  +
The Minimum Environmental Perturbation Principle: A New Perspective on Niche Theory  +
The Role of Body Size Variation in Community Assembly  +
The Utility of Fisher's Geometric Model in Evolutionary Genetics Phenotypic complexity: the number of statistically independent phenotypic traits an organism exposes to natural selection in a given environment  +
The application of statistical physics to evolutionary biology  +
The common patterns of nature  +
The community of the self  +
The community of the self  +
The community of the self  +
The effect of environmental change on human migration  +
The epidemiologic transition: A theory of the epidemiology of population change  +
The function of dream sleep  +
The future of human cerebral cartography: A novel approach  +
The heritability of general cognitive ability increases linearly from childhood to young adulthood  +
The human emotional brain without sleep - a prefrontal amygdala disconnect  +