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Results for “functional network connectivity”

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At least 577 records · Page 32Linked to original sources

PubMed2004

Neurotrophic effects of antidepressant drugs.

The past decade has witnessed a growing interest in the trophic effects of antidepressant drugs. Antidepressants stimulate the production and signaling of plasticity-related proteins such as neurotrophins and cAMP response element binding protein, and neurotrophin signaling appears to be both sufficient and necessary for antidepressant action in rodents. Furthermore, several different antidepressant treatments increase neurogenesis in rodent hippocampus and this effect correlates with the behavioral effects produced by these drugs. These data suggest that antidepressants facilitate activity-dependent selection of functional synaptic connections in brain and, through their neurotrophic effects, improve information processing within neuronal networks compromised in mood disorders.

Animals↗

PubMed2001

Sediment filled fractures in the Permo-Triassic sandstones of the Cheshire basin: observations and implications for pollutant transport.

Fracture mapping in a tunnel system and at nearby outcrop on the Runcorn Penninsula, UK, suggests the need for a review of the potential pathways for pollutant transport in Permo-Triassic sandstone aquifers. Sediment infilling is pervasive in the largest sub-vertical multi-layer fractures in the study area, both at the surface and to a depth of about 40 m below ground level. Sediment infill is inferred to have formed in situ. The conventional models of pollutant transport in fracture networks assume that they comprise open fractures, with pollutant mobility depending on fracture connectivity (a function of density, length, orientation and intersection) and aperture. The presence of extensive sediment fills in fractures will materially change their permeability, thereby reducing pollutant flux, and be of significance in the assessment of risks arising from chemical spillages. There has been little or no substantive evidence for such fills in Permo-Triassic sandstones in the UK, apart from observations at outcrop and anecdotes of sand being pumped from boreholes. Here, we report surface and rare, but complementary, subsurface observations of extensive fills in the Cheshire basin, and argue that they will only act as preferential pathways where they crosscut low-permeability horizons such as mudstones.

Geologic Sediments↗

PubMed2001

TelePresence Confocal Laser Scanning Microscopy.

The advent of the Internet has allowed the development of remote access capabilities to a growing variety and number of microscopy systems. To date, the confocal microscope has not been included among these systems. At the California State University (CSU) Confocal Microscopy Core Facility, we have established a remote access confocal laser scanning microscope facility that allows users with virtually any type of computer platform to connect to our system. Our Leica TCS NT confocal system is accessible to any authorized user via the Internet by using a free software program called VNC (Virtual Network Computing). Once connectivity is established, remote users are able to control virtually all the functions to conduct real-time image analysis and quantitative assessments of their specimen. They can also move the motorized stage to view different regions of their specimen by using a software program associated with the stage. At the end of the session, all files generated during the session can be downloaded to the user's computer from a link on the CSU confocal website. A number of safeguard features have been developed to ensure security and privacy of data acquired during a remote session.

Journal Article↗

PubMed2001

The biologically crucial C terminus of cholecystokinin and the non-peptide agonist SR-146,131 share a common binding site in the human CCK1 receptor. Evidence for a crucial role of Met-121 in the activation process.

The cholecystokinin (CCK) receptor-1 (CCK1R) is a G protein-coupled receptor, which mediates important central and peripheral cholecystokinin actions. Our aim was to progress in mapping of the CCK1R binding site by identifying residues that interact with the methionine and phenylalanine residues of the C-terminal moiety of CCK because these are crucial for its binding and biological activity, and to determine whether CCK and the selective non-peptide agonist, SR-146,131, share a common binding site. Identification of putative amino acids of the CCK1R binding site was achieved by dynamics-based docking of the ligand CCK in a refined three-dimensional model of the CCK1R using, as constraints, previous results that identified contact points between residues of CCK and CCK1R (Kennedy, K., Gigoux, V., Escrieut, C., Maigret, B., Martinez, J., Moroder, L., Frehel, D., Gully, D., Vaysse, N., and Fourmy, D. (1997) J. Biol. Chem. 272, 2920-2926 and Gigoux, V., Escrieut, C., Fehrentz, J. A., Poirot, S., Maigret, B., Moroder, L., Gully, D., Martinez, J., Vaysse, N., and Fourmy, D. (1999) J. Biol. Chem. 274, 20457-20464). By this approach, a series of residues forming connected hydrophobic clusters were identified. Pharmacological and functional analysis of mutated receptors indicated that a network of hydrophobic residues including Cys-94, Met-121, Val-125, Phe-218, Ile-329, Phe-330, Trp-326, Ile-352, Leu-356, and Tyr-360, is involved in the binding site for CCK and in the activation process of the CCK1R. Within this hydrophobic network, the physico-chemical nature of residue 121 seems to be essential for CCK1R functioning. Finally, the biological properties of mutants together with dynamic docking of SR-146,131 in the CCK1R binding site demonstrated that SR-146,131 occupies a region of CCK1R binding site which interacts with the C-terminal amidated tripeptide of CCK, i.e. Met-Asp-Phe-NH(2). These new and important insights will serve to better understand the activation process of CCK1R and to design or optimize ligands.

Amino Acid Sequence↗

PubMed2002

Electro-optic response and switchable Bragg diffraction for liquid crystals in colloid-templated materials.

We report optical switching studies on nematic liquid crystal incorporated into structures based on self-assembled colloids. We compare the electro-optic responses of liquid crystal imbibed into colloid-templated polymers, liquid crystal imbibed in the interstitial space of colloid crystals, and conventional polymer-dispersed liquid crystals. We characterize the Bragg diffraction of our templated liquid-crystal/polymer composites as a function of electric field and measure switching times. The response of liquid crystal in connected networks differs qualitatively from that of liquid crystal in isolated cavities.

Journal Article↗

PubMed2003

Homecare: a telemedical application.

The advent of telecommunication and information technologies and the miniaturisation of technologies have enabled the evolution of telemonitoring systems. Early systems for hospitals and clinics, which usually required the patients to be wired to desktop devices, have evolved into homecare that requires devices to be lighter and simpler to use. In addition to miniaturisation and extended autonomy, further requirements for the telemonitoring system include local intelligence (that is, the system can take decisions without referring to external advice) and no moving parts to allow the patient to move freely during measurement periods. Body and local communication networks can prolong the connection of the homecare patient with a monitoring centre through the public networks. Additional medical functions and processing have been added to homecare equipment for telemedicine and patient discomfort is decreasing because of miniaturisation, autonomy and increased versatility of new systems. The applications have evolved rapidly from manually triggered alarms and single physiological parameter monitors to autonomous telemedical monitoring tailored to complete needs. This will eventually make telemedicine beneficial to patients, doctors and society.

Home Care Services↗

PubMed2005

Dendritic spines and linear networks.

The function of the cortical microcircuitry is still mysterious. Using a bottom-up analysis based on the biophysics and connectivity of cortical neurons, we propose the hypothesis that the neocortex is essentially a linear integrator of inputs. Dendritic spines would slow the neuron and contribute to linearize input summation. Since excitatory axons are relatively straight, they appeared designed to help disperse information to a large number of recipient neurons, generating a distributed circuit. A linear summation regime will ensure the full benefit of a distributed connectivity matrix. Linear integration could also help the neocortex decode the sensory world and may have additional computational advantages. In this view, spines would be the anatomical signature of linear networks.

Action Potentials↗

PubMed2004

Visual attention as a multilevel selection process.

Natural visual scenes are cluttered and contain many different objects that cannot all be processed simultaneously. Therefore, attentional mechanisms are needed to select relevant and to filter out irrelevant information. Evidence from functional brain imaging reveals that attention operates at various processing levels within the visual system and beyond. First, the lateral geniculate nucleus appears to be the first stage in the processing of visual information that is modulated by attention, consistent with the idea that it may play an important role as an early gatekeeper in controlling neural gain. Second, areas at intermediate cortical-processing levels, such as V4 and TEO, appear to be important sites at which attention filters out unwanted information by means of receptive field mechanisms. Third, the attention mechanisms that operate in the visual system appear to be controlled by a distributed network of higher order areas in the frontal and parietal cortex, which generate top-down signals that are transmitted via feedback connections to the visual system. And fourth, the pulvinar of the thalamus may operate by integrating and coordinating attentional functions in concert with the fronto-parietal network, although much needs to be learned about its functional properties. The overall view that emerges from the studies reviewed in this article is that neural mechanisms of selective attention operate at multiple stages in the visual system and beyond and are determined by the visual processing capabilities of each stage. In this respect, attention can be considered in terms of a multilevel selection process.

Attention↗

PubMed1988

Organization and functions of cytoskeleton in metazoan ciliated cells.

Ciliated cells are characterized by a highly organized cytoskeleton which is connected with the ciliary apparatus. The organization of microtubules, microfilaments, and cytokeratin filaments is described and the relationships of each network with the ciliary apparatus are emphasized. Possible functions of such a complex cytoskeleton are discussed.

Actin Cytoskeleton↗

PubMed2001

Ion channels of importance for the locomotor pattern generation in the lamprey brainstem-spinal cord.

The intrinsic function of the spinal network that generates locomotion can be studied in the isolated brainstem-spinal cord of the lamprey, a lower vertebrate. The motor pattern underlying locomotion can be elicited in the isolated spinal cord. The network consists of excitatory glutamatergic and inhibitory glycinergic interneurones with known connectivity. The current review addresses the different subtypes of ion channels that are present in the cell types that constitute the network. In particular the roles of the different subtypes of Ca2+ channels and potassium channels that regulate integrated neuronal functions, like frequency regulation, spike frequency adaptation and properties that are important for generating features of the motor pattern (e.g. burst termination), are reviewed. By knowing the role of an ion channel at the cellular level, we also, based on previous knowledge of network connectivity, can understand which effect a given ion channel may exert at the different levels from molecule and cell to network and behaviour.

Animals↗

PubMedDate not supplied

Reentry and the problem of integrating multiple cortical areas: simulation of dynamic integration in the visual system.

Studies of the cerebral cortex, particularly those of the visual system, demonstrate the existence of multiple, anatomically segregated and functionally specialized cortical areas. There is no evidence that these areas, which are linked by a network of reciprocal connections, are coordinated by a higher-order center. The visual image that we perceive, however, seems to be unified and coherent. In this article, we address the problem of integration posed by these observations. In an extension of our previous work, we develop a dynamic model of reentry. Reentry is a process of parallel and recursive signaling along ordered anatomical connections that achieves integration by giving rise to constructive and correlative properties within and among maps. We present and test a computer model simulating nine functionally segregated visual areas organized into three streams for form, color, and motion. The model receives visual input consisting of camera images of objects of different shapes and colors. We show the specialized response properties of the areas in the three streams. A computational strategy involving a phase variable is introduced to represent explicitly the dynamics of short-term temporal correlations among thousands of units distributed across different areas. We then illustrate constructive and correlative consequences of reentry within a system of reciprocal intra- and interareal connections by two examples taken from psychophysics: generation of form from motion and motion capture. The model solves the so-called "binding problem" through short-term correlations, which serve to link similar object features within a simulated cortical area and to bind multiple attributes of one or more objects across several areas, including a nontopographic one. Integration emerges from cooperative effects within and among the specialized areas. These effects lead to a simple output, a simulated foveation response, that is used as a basis for conditioning. Reward is mediated by the activation of a saliency system that is modeled on diffuse projection systems in the brain. As a result, the visual cortical model carries out foveation responses to input stimuli that require the dynamic conjunction and discrimination of form, color, and location for successful performance.

Animals↗

PubMed2002

Topological equivalences between organic and coordination polymer crystal structures: an organic ladder formed with three-connected molecular and supramolecular synthons.

[structure: see text] Crystal engineering of an organic ladder can be achieved with a T-shaped molecule, 4,4-bis(4'-hydroxyphenyl)-1-cyclohexanol, having three hydroxyl functionalities that can form O-H...O hydrogen-bonded helices. The topology of this network structure finds a parallel in three-connected coordination polymers.

Journal Article↗

PubMed1997

The molecular environment of the Na+ binding site of thrombin.

When Na+ binds to thrombin, a conformational change is induced that renders the enzyme kinetically faster and more specific in the activation of fibrinogen. Two Na+ binding sites have here been identified crystallographically by exchanging Na+ with Rb+. One is intermolecular, found on the surface between two symmetry-related thrombin molecules. Since it is not present in thrombin crystal structures having different crystal systems, the other Na+ site is the functionally relevant one. The second site has octahedral coordination with the carbonyl oxygen atoms of Arg221A and Lys224 and four conserved water molecules. It is located near Asp189 of the S1 specificity site in an elongated solvent channel (8 x 18 A) formed by four antiparallel beta-strands between Cys182-Cys191 and Val213-Tyr228. This channel, extending from the active site to the opposite surface of the enzyme, was first noted in the hirudin-thrombin structure and contains about 20 conserved water molecules linked together by a hydrogen bonding network that connects to the main chain of thrombin. Although the antiparallel beta-strand interactions of the functional Na+ binding site are the same in prethrombin2, the loops between the strands are very different, so that Asp189 and Arg221A are not positioned properly for either substrate or Na+ binding in prethrombin2. A water molecule with octahedral coordination has also been identified in factor Xa at the topologically equivalent Na+ site position of thrombin. Since activated protein C shows enhanced activity with monovalant cation binding, the same position is probably utilized by Na+. Since thrombin crystals could not be grown in the absence of Na+, the cation was leached from Na(+)-bound thrombin crystals by diffusion/exchange. Although both Na+ and their coordinating water molecules were removed from the Na+ binding sites, the remainder of the thrombin structure was, unexpectedly, the same. The lack of an allosteric change is most likely attributable to crystal packing effects. Thus, the structure of the slow form remains to be established crystallographically.

Binding Sites↗

PubMed2002

Specificity and stability in topology of protein networks.

Molecular networks guide the biochemistry of a living cell on multiple levels: Its metabolic and signaling pathways are shaped by the network of interacting proteins, whose production, in turn, is controlled by the genetic regulatory network. To address topological properties of these two networks, we quantified correlations between connectivities of interacting nodes and compared them to a null model of a network, in which all links were randomly rewired. We found that for both interaction and regulatory networks, links between highly connected proteins are systematically suppressed, whereas those between a highly connected and low-connected pairs of proteins are favored. This effect decreases the likelihood of cross talk between different functional modules of the cell and increases the overall robustness of a network by localizing effects of deleterious perturbations.

Cell Nucleus↗

PubMed2006

Functional magnetic resonance imaging and cognition at the very early stage of MS.

Dysfunction of high controlled information processing is present in patients with multiple sclerosis (MS) right at the beginning of the disease. One hypothesis is that disruption of communication inside large-scale cortical networks, occurring as a consequence of white matter damage, may constitute the anatomical substrate of cognitive impairment at the very early stage of MS. Disturbance of interregional synchronization might be the main pathogenic factor in controlled information processing deficiency in early MS. Preliminary functional MRI studies (fMRI) have provided important clues to corroborate the connectivity hypotheses. First, brain connectivity assessed by fMRI has brought new data about the influence of diffuse white matter damage on connectivity efficiency inside large-scale networks. These studies have suggested that connectivity disturbances occur inside the working memory network in patients at the very early stage of MS and appear related to the extent of structural white matter damage. Also, fMRI studies have suggested that patients may partially compensate for connectivity impairment by a greater cognitive control. Such a compensatory mechanism could limit the determinant functional impact of diffuse white matter damage on high controlled information processing.

Age of Onset↗

PubMed2006

Lateral excitation within the olfactory bulb.

Lateral inhibition is a common feature of cortical networks, serving such functions as contrast enhancement. In the olfactory bulb, inhibition is imbedded in the local connectivity at dendrodendritic synapses between mitral cells and interneurons. However, there is also evidence for excitatory interactions between mitral cells despite the lack of direct synaptic connections. This lateral excitation, although a less well recognized feature of the circuit, provides a potentially powerful mechanism to enhance coordinated activity. We examined lateral excitation in paired recordings between mitral cells projecting to the same glomerulus. Trains of action potentials in one mitral cell evoked autoexcitation in the stimulated cell and a prolonged depolarization in the second cell. This lateral excitation was absent in connexin36(-/-) mice, which lack mitral-mitral cell gap junctions. However, spillover of dendritically released glutamate contributed to lateral excitation during concerted mitral cell excitation or by single-cell activity if glutamate uptake was blocked. Our results suggest that electrical coupling and spillover create a lateral excitatory network within the glomerulus, thus markedly amplifying the sensitivity of each glomerulus to incoming sensory input.

Action Potentials↗

PubMed1999

Molecular interaction map of the mammalian cell cycle control and DNA repair systems.

Eventually to understand the integrated function of the cell cycle regulatory network, we must organize the known interactions in the form of a diagram, map, and/or database. A diagram convention was designed capable of unambiguous representation of networks containing multiprotein complexes, protein modifications, and enzymes that are substrates of other enzymes. To facilitate linkage to a database, each molecular species is symbolically represented only once in each diagram. Molecular species can be located on the map by means of indexed grid coordinates. Each interaction is referenced to an annotation list where pertinent information and references can be found. Parts of the network are grouped into functional subsystems. The map shows how multiprotein complexes could assemble and function at gene promoter sites and at sites of DNA damage. It also portrays the richness of connections between the p53-Mdm2 subsystem and other parts of the network.

Animals↗

PubMed2006

Unifying measures of gene function and evolution.

Recent genome analyses revealed intriguing correlations between variables characterizing the functioning of a gene, such as expression level (EL), connectivity of genetic and protein-protein interaction networks, and knockout effect, and variables describing gene evolution, such as sequence evolution rate (ER) and propensity for gene loss. Typically, variables within each of these classes are positively correlated, e.g. products of highly expressed genes also have a propensity to be involved in many protein-protein interactions, whereas variables between classes are negatively correlated, e.g. highly expressed genes, on average, evolve slower than weakly expressed genes. Here, we describe principal component (PC) analysis of seven genome-related variables and propose biological interpretations for the first three PCs. The first PC reflects a gene's 'importance', or the 'status' of a gene in the genomic community, with positive contributions from knockout lethality, EL, number of protein-protein interaction partners and the number of paralogues, and negative contributions from sequence ER and gene loss propensity. The next two PCs define a plane that seems to reflect the functional and evolutionary plasticity of a gene. Specifically, PC2 can be interpreted as a gene's 'adaptability' whereby genes with high adaptability readily duplicate, have many genetic interaction partners and tend to be non-essential. PC3 also might reflect the role of a gene in organismal adaptation albeit with a negative rather than a positive contribution of genetic interactions; we provisionally designate this PC 'reactivity'. The interpretation of PC2 and PC3 as measures of a gene's plasticity is compatible with the observation that genes with high values of these PCs tend to be expressed in a condition- or tissue-specific manner. Functional classes of genes substantially vary in status, adaptability and reactivity, with the highest status characteristic of the translation system and cytoskeletal proteins, highest adaptability seen in cellular processes and signalling genes, and top reactivity characteristic of metabolic enzymes.

Animals↗