Tackling the subsampling problem to infer collective properties from limited data

Levina, Anna; Priesemann, Viola; Zierenberg, Johannes

doi:10.1038/s42254-022-00532-5

Cited by 17 publications

(9 citation statements)

References 147 publications

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“…We performed avalanche analysis on the model population activity, as we did for the experiments. We analyzed the dynamics of a subset of only 200 units, neglecting the rest, to account for subsampling effects that are certainly present in our experiments and may be important for assessing critical dynamics (65)(66)(67). We note that our primary results are robust to different degrees of subsampling (fig.…”

Section: Theory Of Critical Dynamics Confirms Experimental Resultsmentioning

confidence: 99%

Low-dimensional criticality embedded in high-dimensional awake brain dynamics

Fontenele,

Sooter,

Norman

et al. 2024

Sci. Adv.

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Whether cortical neurons operate in a strongly or weakly correlated dynamical regime determines fundamental information processing capabilities and has fueled decades of debate. We offer a resolution of this debate; we show that two important dynamical regimes, typically considered incompatible, can coexist in the same local cortical circuit by separating them into two different subspaces. In awake mouse motor cortex, we find a low-dimensional subspace with large fluctuations consistent with criticality—a dynamical regime with moderate correlations and multi-scale information capacity and transmission. Orthogonal to this critical subspace, we find a high-dimensional subspace containing a desynchronized dynamical regime, which may optimize input discrimination. The critical subspace is apparent only at long timescales, which explains discrepancies among some previous studies. Using a computational model, we show that the emergence of a low-dimensional critical subspace at large timescales agrees with established theory of critical dynamics. Our results suggest that the cortex leverages its high dimensionality to multiplex dynamical regimes across different subspaces.

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Section: Theory Of Critical Dynamics Confirms Experimental Resultsmentioning

confidence: 99%

Low-dimensional criticality embedded in high-dimensional awake brain dynamics

Fontenele,

Sooter,

Norman

et al. 2024

Sci. Adv.

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“…Limited sampling poses a challenge when trying to access properties of various complex dynamical systems [46,47]. Furthermore, undersampling may introduce systematic bias to observations that need to be corrected [48][49][50]. This can happen, for example, when assessing collective properties, like graph structures in a network or activity clusters spanning large fractions of the system.…”

Section: Discussionmentioning

confidence: 99%

Model-based assessment of sampling protocols for infectious disease genomic surveillance

Contreras,

Oróstica,

Daza-Sanchez

et al. 2023

Preprint

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Genomic surveillance of infectious diseases allows monitoring circulating and emerging variants and quantifying their epidemic potential. However, due to the high costs associated with genomic sequencing, only a limited number of samples can be analysed. Thus, it is critical to understand how sampling impacts the information generated. Here, we combine a compartmental model for the spread of COVID-19 (distinguishing several SARS-CoV-2 variants) with different sampling strategies to assess their impact on genomic surveillance. In particular, we compare adaptive sampling, i.e., dynamically reallocating resources between screening at points of entry and inside communities, and constant sampling, i.e., assigning fixed resources to the two locations. We show that adaptive sampling uncovers new variants up to five weeks earlier than constant sampling, significantly reducing detection delays and estimation errors. This advantage is most prominent at low sequencing rates. Although increasing the sequencing rate has a similar effect, the marginal benefits of doing so may not always justify the associated costs. Consequently, it is convenient for countries with comparatively few resources to operate at lower sequencing rates, thereby profiting the most from adaptive sampling. Finally, our methodology can be readily adapted to study undersampling in other dynamical systems.

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“… 16 for a complete derivation of the method. Furthermore, we were still required to decrease the system’s variables and thus calculated the measure across repeated stochastic subsamples ( 68 ) of the neuronal activity (

) into 169 neurons repeated 100 times, and the mean

is presented. Briefly,

, where I is the mutual information

, with

the entropy of the past states and

the conditional entropy of the past states given the current state has about its past—at a time lag of τ = 1 ms, and

(disconnected I ) is the mismatched information that cannot be partitioned into independent parts.…”

Section: Methodsmentioning

confidence: 99%

A thalamocortical substrate for integrated information via critical synchronous bursting

Munn,

Müller,

Aru

et al. 2023

Proc. Natl. Acad. Sci. U.S.A.

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Understanding the neurobiological mechanisms underlying consciousness remains a significant challenge. Recent evidence suggests that the coupling between distal–apical and basal–somatic dendrites in thick-tufted layer 5 pyramidal neurons (L5 PN ), regulated by the nonspecific-projecting thalamus, is crucial for consciousness. Yet, it is uncertain whether this thalamocortical mechanism can support emergent signatures of consciousness, such as integrated information. To address this question, we constructed a biophysical network of dual-compartment thick-tufted L5 PN , with dendrosomatic coupling controlled by thalamic inputs. Our findings demonstrate that integrated information is maximized when nonspecific thalamic inputs drive the system into a regime of time-varying synchronous bursting. Here, the system exhibits variable spiking dynamics with broad pairwise correlations, supporting the enhanced integrated information. Further, the observed peak in integrated information aligns with criticality signatures and empirically observed layer 5 pyramidal bursting rates. These results suggest that the thalamocortical core of the mammalian brain may be evolutionarily configured to optimize effective information processing, providing a potential neuronal mechanism that integrates microscale theories with macroscale signatures of consciousness.

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Tackling the subsampling problem to infer collective properties from limited data

Cited by 17 publications

References 147 publications

Low-dimensional criticality embedded in high-dimensional awake brain dynamics

Low-dimensional criticality embedded in high-dimensional awake brain dynamics

Model-based assessment of sampling protocols for infectious disease genomic surveillance

A thalamocortical substrate for integrated information via critical synchronous bursting

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