Cyclin/Forkhead-mediated coordination of cyclin waves: an autonomous oscillator rationalizing the quantitative model of Cdk control for budding yeast

Networks of interacting molecules organize topology, amount, and timing of biological functions. Systems biology concepts required to pin down ‘network motifs’ or ‘design principles’ for time-dependent processes have been developed for the cell division cycle, through integration of predictive computer modeling with quantitative experimentation. A dynamic coordination of sequential waves of cyclin-dependent kinases (cyclin/Cdk) with the transcription factors network offers insights to investigate how incompatible processes are kept separate in time during the eukaryotic cell cycle. Here this coordination is discussed for the Forkhead transcription factors in light of missing gaps in the current knowledge of cell cycle control in budding yeast. An emergent design principle is proposed where cyclin waves are synchronized by a cyclin/Cdk-mediated feed-forward regulation through the Forkhead as a transcriptional timer. This design is rationalized by the bidirectional interaction between mitotic cyclins and the Forkhead transcriptional timer, resulting in an autonomous oscillator that may be instrumental for a well-timed progression throughout the cell cycle. The regulation centered around the cyclin/Cdk–Forkhead axis can be pivotal to timely coordinate cell cycle dynamics, thereby to actuate the quantitative model of Cdk control.

Ripples reflect a spectrum of synchronous spiking activity in human anterior temporal lobe

Direct brain recordings have provided important insights into how high frequency activity captured through intracranial EEG (iEEG) supports human memory retrieval. The extent to which such activity is comprised of transient fluctuations that reflect the dynamic coordination of underlying neurons, however, remains unclear. Here, we simultaneously record iEEG, local field potential (LFP), and single unit activity in the human temporal cortex. We demonstrate that fast oscillations within the previously identified 80-120 Hz ripple band contribute to 70-200 Hz high frequency activity in the human cortex. These ripple oscillations exhibit a spectrum of amplitudes and durations related to the amount of underlying neuronal spiking. Ripples in the macro-scale iEEG are related to the number and synchrony of ripples in the micro-scale LFP, which in turn are related to the synchrony of neuronal spiking. Our data suggest that neural activity in the human temporal lobe is organized into transient bouts of ripple oscillations that reflect underlying bursts of spiking activity.

Form and Function in Information for Visual Perception

Visual perception involves spatially and temporally coordinated variations in diverse physical systems: environmental surfaces and symbols, optical images, electro-chemical activity in neural networks, muscles, and bodily movements—each with a distinctly different material structure and energy. The fundamental problem in the theory of perception is to characterize the information that enables both perceptual awareness and real-time dynamic coordination of these diverse physical systems. Gibson's psychophysical and ecological conception of this problem differed from that of mainstream science both then and now. The present article aims to incorporate Gibson's ideas within a general conception of information for visual perception. We emphasize the essential role of spatiotemporal form, in contrast with symbolic information. We consider contemporary understanding of surface structure, optical images, and optic flow. Finally, we consider recent evidence about capacity limitations on the rate of visual perception and implications for the ecology of vision.

An Approach to Aligning Categorical and Continuous Time Series for Studying the Dynamics of Complex Human Behavior

An emerging perspective on human cognition and performance sees it as a kind of self-organizing phenomenon involving dynamic coordination across the body, brain and environment. Measuring this coordination faces a major challenge. Time series obtained from such cognitive, behavioral, and physiological coordination are often complicated in terms of non-stationarity and non-linearity, and in terms of continuous vs. categorical scales. Researchers have proposed several analytical tools and frameworks. One method designed to overcome these complexities is recurrence quantification analysis, developed in the study of non-linear dynamics. It has been applied in various domains, including linguistic (categorical) data or motion (continuous) data. However, most previous studies have applied recurrence methods individually to categorical or continuous data. To understand how complex coordination works, an integration of these types of behavior is needed. We aimed to integrate these methods to investigate the relationship between language (categorical) and motion (continuous) directly. To do so, we added temporal information (a time stamp) to categorical data (i.e., language), and applied joint recurrence analysis methods to visualize and quantify speech-motion coordination coupling during a rap performance. We illustrate how new dynamic methods may capture this coordination in a small case-study design on this expert rap performance. We describe a case study suggesting this kind of dynamic analysis holds promise, and end by discussing the theoretical implications of studying complex performances of this kind as a dynamic, coordinated phenomenon.