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Results for “functional network connectivity”

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PubMed2006

Neural correlates of epigenesis.

The effect of life stress on depression is moderated by a repeat length variation in the transcriptional control region of the serotonin transporter gene, which renders carriers of the short variant vulnerable for depression. We investigated the underlying neural mechanisms of these epigenetic processes in individuals with no history of psychopathology by using multimodal magnetic resonance-based imaging (functional, perfusion, and structural), genotyping, and self-reported life stress and rumination. Based on functional MRI and perfusion data, we found support for a model by which life stress interacts with the effect of serotonin transporter genotype on amygdala and hippocampal resting activation, two regions involved in depression and stress. Life stress also differentially affected, as a function of serotonin transporter genotype, functional connectivity of the amygdala and hippocampus with a wide network of other regions, as well as gray matter structural features, and affected individuals' level of rumination. These interactions may constitute a neural mechanism for epigenetic vulnerability toward, or protection against, depression.

Adult↗

PubMed2001

Dynamic imaging of coherent sources: Studying neural interactions in the human brain.

Functional connectivity between cortical areas may appear as correlated time behavior of neural activity. It has been suggested that merging of separate features into a single percept ("binding") is associated with coherent gamma band activity across the cortical areas involved. Therefore, it would be of utmost interest to image cortico-cortical coherence in the working human brain. The frequency specificity and transient nature of these interactions requires time-sensitive tools such as magneto- or electroencephalography (MEG/EEG). Coherence between signals of sensors covering different scalp areas is commonly taken as a measure of functional coupling. However, this approach provides vague information on the actual cortical areas involved, owing to the complex relation between the active brain areas and the sensor recordings. We propose a solution to the crucial issue of proceeding beyond the MEG sensor level to estimate coherences between cortical areas. Dynamic imaging of coherent sources (DICS) uses a spatial filter to localize coherent brain regions and provides the time courses of their activity. Reference points for the computation of neural coupling may be based on brain areas of maximum power or other physiologically meaningful information, or they may be estimated starting from sensor coherences. The performance of DICS is evaluated with simulated data and illustrated with recordings of spontaneous activity in a healthy subject and a parkinsonian patient. Methods for estimating functional connectivities between brain areas will facilitate characterization of cortical networks involved in sensory, motor, or cognitive tasks and will allow investigation of pathological connectivities in neurological disorders.

Algorithms↗

PubMed2006

Bridges between nervous and immune systems: their disconnection and clinical consequences.

Nervous and immune systems are connected by several mutual links, thus constituting a diffuse functional network in the body. In particular, neurohormones, neuropeptides, and cytokines represent the major mediators of the so-called psychoneuroendocrinoimmune axis. In this review, special emphasis is placed on certain pathologies characterized by a disconnection of the existing bridges between nervous and immune systems. For instance, spinal cord injury (SCI) is a clinical condition in which loss of neurons and very poor axon growth represent the main features. The role played by infiltrating and resident immunocompetent cells is still debated in SCI. However, to enhance axon growth in SCI, current therapeutic attempts are based on the stimulation of the immune response within the central nervous system, thus triggering either cell-mediated or humoral immune responsiveness.

Animals↗

PubMedDate not supplied

Axonal processes and neural plasticity.I: Ocular dominance columns.

We present two related computational models of ocular dominance column formation. Both address nervous system plasticity in terms of sprouting and retraction of axonal processes rather than changes in synaptic strength implied by synapse-specific Hebbian models. We employ statistical mechanics to simulate changes in the pattern of network connectivity. Our formalism uses the concept of an energy function, which we interpret as related to the levels of target-generated neurotrophins for which afferents compete. In contrast, synapse-specific Hebbian models impose synaptic normalization, for which there is little experimental evidence, in order to induce competition. Our models make many predictions which require experimental investigation. We suggest that the absence of monocular deprivation effects in the optic tectum may be due to a tendency of amphibian retinal ganglion cells to preserve the complexity of their terminal arbors. One model raises the possibility that boundaries separating columns in the mammalian cortex are poorly innervated if they have been formed by complete but asynchronous retinal activation. Both models exhibit a phase transition, suggesting a discontinuity in the transition from a binocular cortex to one possessing ocular dominance columns. Finally, our other model could account for the perpendicularity of ocular dominance columns to the boundary of the primary visual cortex while admitting of less ordered central patterns.

Animals↗

PubMed2005

Vulnerability and protection of infrastructure networks.

Infrastructure systems are a key ingredient of modern society. We discuss a general method to find the critical components of an infrastructure network, i.e., the nodes and the links fundamental to the perfect functioning of the network. Such nodes, and not the most connected ones, are the targets to protect from terrorist attacks. The method, used as an improvement analysis, can also help to better shape a planned expansion of the network.

Journal Article↗

PubMed2006

Pore size distributions of ion exchangers and relation to protein binding capacity.

The pore structure of chromatographic media directly influences macromolecular transport and adsorption, and consequently separation resolution and loading capacity in chromatographic separations. The pore size distribution (PSD) is therefore a central structural characteristic of chromatographic materials and a critical determinant of chromatographic behavior. In this work the PSDs of a set of commercial anion exchangers were determined by inverse size-exclusion chromatography (ISEC). The PSDs were further utilized to develop relations to functional properties of adsorbents, such as intraparticle diffusivity, and static and dynamic binding capacities. We find that the detailed PSD is useful in semi-quantitative understanding of chromatographic behavior. However, more accurate prediction of column behavior requires more thorough knowledge of the pore structure, specifically the connectivity of the pore network, as well as improved understanding of the function of grafted resins.

Chromatography, Gel↗

PubMed2005

[Localisation of brain function, 125 years after the thesis of Aletta Jacobs, the first Dutch female physician].

Aletta H. Jacobs was the first female physician in the Netherlands. In 1879, she defended her thesis which addressed the subject of localising brain functions. In it she described three neurological patients using systematic conventions highly resembling those in use today. Moreover, she discussed whether or not functions were regionally represented. Her discussion concluded in favour of localisation. These days, the concept of distributed networks goes beyond simple topographical representation. This is illustrated in the cerebral organisation of vision. It is possible to discern visual centres that are specialised in processing specific qualities such as colour or visual motion. An additional feature of such segregated processing streams is the presence of underlying connections to specific brain areas at a distance. Functioning as a node in multiple networks, one single brain region may potentially be involved in multiple functions. This depends on the interactions with other regions and on the actual dominance of information processing within such networks.

Brain↗

PubMed2004

Orbitofrontal cortical dysfunction in akinetic catatonia: a functional magnetic resonance imaging study during negative emotional stimulation.

Catatonia is a psychomotor syndrome characterized by concurrent emotional, behavioral, and motor anomalies. Pathophysiological mechanisms of psychomotor disturbances may be related to abnormal emotional-motor processing in prefrontal cortical networks. We therefore investigated prefrontal cortical activation and connectivity patterns during emotional-motor stimulation using functional magnetic resonance imaging (FMRI). We investigated 10 akinetic catatonic patients in a postacute state and compared them with 10 noncatatonic postacute psychiatric controls (age-, sex-, diagnosis-, and medication-matched) and 10 healthy controls. Positive and negative pictures from the International Affective Picture System were used for emotional stimulation. FMRI measurements covered the whole frontal lobe, activation signals in various frontal cortical regions were obtained, and functional connectivity between the different prefrontal cortical regions was investigated using structural equation modeling. Catatonic patients showed alterations in the orbitofrontal cortical activation pattern and in functional connectivity to the premotor cortex in negative and positive emotions compared to psychiatric and healthy controls. Catatonic behavioral and affective symptoms correlated significantly with orbitofrontal activity, whereas catatonic motor symptoms were rather related to medial prefrontal activity. It is concluded that catatonic symptoms may be closely related to dysfunction in the orbitofrontal cortex and consequent alteration in the prefrontal cortical network during emotional processing. Because we investigated postacute patients, orbitofrontal cortical alterations may be interpreted as a trait marker predisposing for development of catatonic syndrome in schizophrenic or affective psychosis.

Acute Disease↗

PubMed2001

Serial regulation of transcriptional regulators in the yeast cell cycle.

Genome-wide location analysis was used to determine how the yeast cell cycle gene expression program is regulated by each of the nine known cell cycle transcriptional activators. We found that cell cycle transcriptional activators that function during one stage of the cell cycle regulate transcriptional activators that function during the next stage. This serial regulation of transcriptional activators forms a connected regulatory network that is itself a cycle. Our results also reveal how the nine transcriptional regulators coordinately regulate global gene expression and diverse stage-specific functions to produce a continuous cycle of cellular events. This information forms the foundation for a complete map of the transcriptional regulatory network that controls the cell cycle.

Cell Cycle↗

PubMed2005

Structural and functional properties of homologous electrical synapses between retinal amacrine cells.

Retinal amacrine cells regulate activities of retinal ganglion cells, the output neurons to higher visual centers, through cellular mechanism of lateral inhibition in the inner plexiform layer (IPL). Electrical properties of gap junction networks between amacrine cells in the IPL were investigated using combined techniques of intracellular recordings, Lucifer yellow and Neurobiotin injection, dual patch-clamp recordings and high voltage electron microscopy in isolated retinas of cyprinid fish. Six types of gap-junctionally connected amacrine cells were classified after their light-evoked responses to light flashes were recorded. Among them, gap junction networks of three types of amacrine cells were studied with structure-function correlation analysis. Cellular morphology of intercellular connections between three homologous cell classes was characterized. The interconnections between laterally extending dendrites in the IPL were localized at dendritic tip terminals. Three types of cells presented the dendrodendritic connections of tip-contact manner in the homologous cell population. High voltage as well as conventional electron microscopy revealed gap junctions between the dendritic tips of Neurobiotin-coupled cells. Receptive field properties of these amacrine cells were examined, displacing a slit of light along the distance from recording sites in the dorsal intermediate region of the retina. Receptive field size, space length constant, response latency and conduction velocity were measured. Spatial and temporal properties of receptive fields were symmetric along horizontally expanding dendrites in the dorsal retina. Simultaneous dual patch-clamp recordings revealed that the lateral gap junction connections between homologous amacrine cells expressed bidirectional electrical synapses passing Na(+) spikes. These results demonstrate that bidirectional electrical transmission in gap junction networks of these amacrine cells is symmetric along the lateral gap junction connections between horizontally extending dendrites. Lateral inhibition regulated by amacrine cells in the IPL appears to be associated with the directional extension of the dendrites and the orientation of dendrodendritic gap junctions.

Action Potentials↗

PubMed2005

Do cortical maps depend on the timing of sensory input? Experimental evidence and computational model.

Fast adaptations in the functional organization of primary sensory cortex are generally assumed to result from changes of network connectivity. However, the effects of intrinsic neuronal excitability alterations due to the activation of neighboring cortical representational zones, which might as well account for the changes of cortical representative maps, have been paid little attention to. In a recent experiment (Braun et al. 2000b) we showed by neuromagnetic source imaging that random or fixed sequence stimulation of three digits of both hands led to stimulation-timing-induced changes in primary somatosensory (SI) cortical maps. The distance between the cortical representation of thumb and middle finger became significantly shorter during the fixed sequence stimulation. The analysis on the time course of the cortical map changes revealed that these reorganizations occurred within minutes and were fully reversible. The previously reported results were interpreted as the involvement of a superordinate center responsible for detecting and activating the appropriate maps. Here we present an alternative parsimonious explanation that is supported by a computational model. Based on the experimental evidence, we developed a simple model that took intrinsic neuronal excitability together with subthreshold activation into account and assumed partial cortical overlap of the representational zones of neighboring digits. Furthermore, in the model the neuronal excitability decayed slowly with respect to the stimulation frequency. The observed cortical map changes in the experiment could be reproduced by the two-layer feed-forward computational network. Our model thus suggests that the dynamic shifts of cortical maps can be explained by the state and time course of intrinsic neuronal excitability and subthreshold activation, without involving changes in network connectivity.

Adult↗

PubMed2001

Network formalism for modeling functionally gradient piezoelectric plates and stacks and simulations of RAINBOW ceramic actuators.

A simple network representation is given for a stack of thin, homogeneous piezoelectric plates, executing a single thickness mode of motion. All plates may differ in thickness and material properties, including dielectric loss, ohmic conductivity, and viscous loss. Each plate is driven by a thickness-directed electric field, and all stack elements are connected electrically in series. Functionally gradient single plates and composites are readily modeled by the network, to a desired precision, using a sequence of circuit elements representing stepwise variations in material properties and layer thicknesses. Simulations of RAINBOW (Reduced And Internally Biased Oxide Wafer) ceramics are given.

Journal Article↗

PubMed2005

The evolution of signaling complexity suggests a mechanism for reducing the genomic search space in human association studies.

The size complexity of the human genome has been traditionally viewed as an obstacle that frustrates efforts aimed at identifying the genetic correlates of complex human phenotypes. As such complex phenotypes are attributed to the combined action of numerous genomic loci, attempts to identify the underlying multi-locus interactions may produce a combinatorial sum of false positives that drown out the real signal. Faced with such grim prospects for successfully identifying the genetic basis of complex phenotypes, many geneticists simply disregard epistatic interactions altogether. However, the emerging picture from systems biology is that the cellular programs encoded by the genome utilize nested signaling hierarchies to integrate a number of loosely coupled, semiautonomous, and functionally distinct genetic networks. The current view of these modules is that connections encoding inter-module signaling are relatively sparse, while the gene-to-gene (protein-to-protein) interactions within a particular module are typically denser. We believe that each of these modules is encoded by a finite set of discontinuous, sequence-specific, genomic intervals that are functionally linked to association rules, which correlate directly to features in the environment. Furthermore, because these environmental association rules have evolved incrementally over time, we explore theoretical models of cellular evolution to better understand the role of evolution in genomic complexity. Specifically, we present a conceptual framework for (1) reducing genomic complexity by partitioning the genome into subsets composed of functionally distinct genetic modules and (2) improving the selection of coding region SNPs, which results in an increased probability of identifying functionally relevant SNPs. Additionally, we introduce the notion of 'genomic closure,' which provides a quantitative measure of how functionally insulated a specific genetic module might be from the influence of the rest of the genome. We suggest that the development and use of theoretical models can provide insight into the nature of biological systems and may lead to significant improvements in computational algorithms designed to reduce the complexity of the human genome.

Epistasis, Genetic↗

PubMed1999

A Jacksonian and biopsychosocial hypothesis concerning borderline and related phenomena.

OBJECTIVE: The aim of this paper is to develop an aetiological model for borderline personality disorder. METHOD: The postulates of Hughlings Jackson are used to provide a preliminary explanatory framework for borderline phenomena. As a necessary background to this discussion, the findings concerning abuse in the early history of borderline personality disorder (BPD) and other conditions, notably somatisation disorder and dissociative states, are briefly reviewed. Other data, including family studies, which might have significance in the aetiology of BPD are also reviewed. RESULTS: The hypothesis is put forward that the symptoms of BPD are due to the failure of 'experience-dependent' maturation of a cascade of neural networks, with prefrontal connections, which become active relatively late in development and which coordinate disparate elements of central nervous system function. These networks subserve higher psychological functions, including attentional focus and affect regulation. They also underpin the reflective function necessary to the emergence of self as the stream of consciousness, which appears at about the age of 4 years. CONCLUSION: Adverse developmental circumstances may produce an interrelated set of symptom clusters, with associated neural network disturbances that are amenable to investigation with psychometric and brain imaging techniques. Since these disturbances are seen as 'experience-dependent', they are considered reversible, at least in part.

Adolescent↗

PubMed2005

Predictive models of molecular machines involved in Caenorhabditis elegans early embryogenesis.

Although numerous fundamental aspects of development have been uncovered through the study of individual genes and proteins, system-level models are still missing for most developmental processes. The first two cell divisions of Caenorhabditis elegans embryogenesis constitute an ideal test bed for a system-level approach. Early embryogenesis, including processes such as cell division and establishment of cellular polarity, is readily amenable to large-scale functional analysis. A first step toward a system-level understanding is to provide 'first-draft' models both of the molecular assemblies involved and of the functional connections between them. Here we show that such models can be derived from an integrated gene/protein network generated from three different types of functional relationship: protein interaction, expression profiling similarity and phenotypic profiling similarity, as estimated from detailed early embryonic RNA interference phenotypes systematically recorded for hundreds of early embryogenesis genes. The topology of the integrated network suggests that C. elegans early embryogenesis is achieved through coordination of a limited set of molecular machines. We assessed the overall predictive value of such molecular machine models by dynamic localization of ten previously uncharacterized proteins within the living embryo.

Algorithms↗

PubMed1996

CD9, CD63, CD81, and CD82 are components of a surface tetraspan network connected to HLA-DR and VLA integrins.

CD9, CD63, CD81, and CD82 are glycoproteins of unknown function which belong to the tetraspan superfamily. These molecules have short cytoplasmic sequences, four transmembrane domains and two unequal extracellular regions. Here, we show that these molecules are associated with each other on cell surface and with other glycoproteins such as very late antigen (VLA) integrins and HLA-DR antigens. Moreover, the VLA integrins and HLA-DR antigens were also found to be associated. The interactions of these molecules were analyzed by transfection experiments. It is demonstrated that overexpression of CD9 antigen in Raji cells leads to a lower efficiency of precipitation of CD81 and CD82, suggesting a direct interaction between these molecules. In these cells, the co-precipitation of CD81 and CD82 was not modified, suggesting that these tetraspans did not compete for association. However, in COS-7 cells, transfection of both CD81 and CD82 led to a marked reduction of the number of CD9/CD81 or CD9/CD82 complexes compared to single-transfected cells, and this was associated with the appearance of CD81/CD82 complexes. Therefore, in this cellular system, CD9 competes with CD81 and CD82 for association with the other tetraspan proteins. Finally, the tetraspans do not compete for the association with integrins or HLA-DR. Indeed, when CD9 was expressed in Raji cells, it was incorporated into the pre-existing complexes of these molecules with CD81 and CD82. These data suggest the existence of a tetraspan network which, by connecting several molecules, may organize the positioning of cell surface proteins and play a role in signal transduction, cell adhesion, and motility.

Animals↗

PubMed2006

Comparative study of morphometric properties characterizing the complexity of silicate pore networks probed by adsorption of nitrogen and methanol.

In this work, we compare the surface and morphometric properties of the pore networks in four silicas (code names Fr1428, Fr474, Fr1386, and MM1164) with different random porosities using the adsorption isotherms of two different probe adsorbents, nitrogen and methanol. The parent material Fr1428 was a pure silica 25 microm sample. The Fr474 sample was the same one with bonded electroneutral diol groups on its outer surface. Fr1386 was the parent material with bonded electroneutral diol groups on its outer surface and sulfonic groups on its inner surface, and the MM1164 sample was the original sample with external electroneutral diol groups and internal n-octadecyl groups. The properties examined were the specific surface area S(p) and the specific pore volume V(p), the pore connectivity c, the pore anisotropy b, the tortuosity tau, and the lacunarity lambda of the pore network as well as the percentage microporosity. These properties provide a complete characterization of complexity of the porous network. The surface areas of the solids were estimated via the traditional BET plots (S(BET)) and the I-point method (S(I)). The two sets of values S(BET) and S(I) were practically identical and they decrease as the size of the functional group increases. The values of percentage microporosity were also determined by the same I-point method using the variation of the C parameter of the BET equation. The total pore volume V(p) was found to be higher in the case of methanol adsorption, compared to nitrogen, which might be related to increase condensation. The networks of the pores were simulated using a dual site bond model (DSBM) and Monte Carlo (MC) techniques for achieving their proper arrangement into the solids. From the resulting simulating networks, the pore connectivity distributions (PCD) and their mean values c(mean) were estimated and favorably compared to the values of connectivity c(Seaton) determined according to the method of Seaton. Both values decrease with the size of the functional groups and are weakly affected by the adsorbent employed. From the simulation pore network, the mean values of tortuosity tau(mean) were also estimated and found to be lower when N2 was used as adsorbate compared to MeOH. The values of lacunarity lambda, estimated according to the method by Allain and Cloitre using the moving box technique in the DSBM/MC simulation matrix of the pore network, indicate that the distribution of the poreless mass into the matrix increases with the size of the functional group. Finally, the internal relationships observed between the pore anisotropy b and the percentage microporosity as well as between the tortuosity tau and the pore connectivity c are discussed.

Journal Article↗

PubMed2003

[Research advances on p53 gene network].

The p53 tumor suppressor gene integrates numerous signals to control cell life and death. p53 and its function-related genes consists of a complicated gene network. When a highly connected node in the network breaks down, the disruption of p53 has severe consequences. p53 gene locates in human chromosome 17q13.1. Its encoding wild-type p53 protein is composed of four parts: N-terminal activation domain, DNA-binding domain, oligomerization domain, and C-terminal regulation domain. As the gene structures of p73, p51, p63 are similar with p53, they are regarded as members of p53 gene family. p53 play an intermediate role connecting varied stress signals with the reactions of cells. DNA damage caused by ionizing radiation, aberrant growth signals, or chemotherapeutic drugs may activate the p53 network. When expression of p53 elevated, p53-mdm2 and p14(ARF)-mdm2 feedback loops can accurately regulate the expression level of p53, and the cooperation of p33ING1b gene is also needed in the process of p53 exerting normal function. Phosphorylation and acelylation are two important mechanisms to modulate p53 activity in vivo. Several dozen downstream genes are controlled directly by p53, and the activity of p53 falls into four categories: cell cycle inhibition, apoptosis, genetic stability, and inhibition of blood vessel formation. Elucidation of the function of p53 gene network will help to clarify the interaction mechanisms of p53 gene and its function-related genes.

DNA-Binding Proteins↗