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Interaction of modeling and experimental approaches to understanding renal salt and water balance.

Understanding of renal function has profited greatly from quantitative and modeling approaches throughout this century. One of the most salient examples is the concentration and dilution of the urine--a fundamental characteristic of the mammalian kidney. Only in the last three decades have the necessary components of this and other renal mechanisms been confirmed at the molecular level, but there have also been surprises. For example, the high water permeability of the proximal tubule has been shown to be imparted by the water channel, aquaporin AQP1; however, genetic knockout of this water channel is at least partially compensated by intrarenal feedback mechanisms. Also, the critical role played by the fine regulation of Na+ reabsorption in the collecting duct for the maintenance of normal blood pressure presents challenges to our understanding of the integrated interaction among systems. As a first step in placing the kidney in the physiome paradigm, we need to integrate our currently restricted mathematical models, to develop accessible databases of critical parameter values together with indices of their degrees of reliability and variability, and to describe regulatory mechanisms and their interactions from the molecular to the interorgan level. However, even greater will be the challenge to anticipate, and hopefully predict, the subtle ways in which the organism typically adapts to aberrations in these normal functional parameters, but sometimes does not.

Animals↗

Motion integration over space: interaction of the center and surround motion.

Motion integration occurs over a restricted range of visual space. However, there have been studies suggesting interactions among motion detectors operating on widely separated spatial regions. To understand these lateral spatial interactions beyond motion pooling regions, we examined the effect of surrounding motion on the direction of the center stimulus under several stimulus conditions. We have found that there is a motion direction shift of the center stimulus caused by surrounding motion depending on its motion direction, spatial proximity to the center stimulus, contrast, speed, and the extent of motion area. This effect was observed both for monocular and dichoptic presentations of the pattern. However, the perceived direction shift decreased when the spatial frequency ratio of the center and surround stimuli varied, or a non-Fourier motion pattern was used for both center and surround stimuli. We present a model consisting of lateral inhibitory interactions between pattern motion unit networks to explain the direction shift observed in the experiments.

Contrast Sensitivity↗

Ontogenesis of transcallosal responses in cats: II. Formation of interhemispheric asymmetry.

Experiments were performed on 59 kittens of both sexes at the age of 1 to 30 days after birth, anaesthesized by nembutal and immobilized by diplacinum, using the technique of multiple topographical TCR recording. TCRs being recorded from symmetrical points of the right and left hemispheres, interhemispheric asymmetry of their amplitude time parameters was revealed, which arose immediately following TCR appearance. In the kittens' sensorimotor cortex TCR asymmetry was individual, whereas in the parietal cortex it was species-specific. One-hemisphere dominance in kittens possessed a partial character. During interhemispheric asymmetry formation, the callosal and the extracallosal systems participated. Asymmetry dynamism was revealed in asymmetry changing with kittens' age according to form (individual/species-specific) and magnitude (intensification/weakening up to changing its sign), and it was conditioned by differences in mechanisms of hemispheric interaction in the course of the cat's ontogenesis. The process of TCR asymmetry formation was characterized by zonal specificity. The general tendency of asymmetry development during ontogenesis in the cat was intensification, with age, of the integrative interaction of those systems which supported it.

Animals↗

Membrane-association properties of avian encephalomyelitis virus protein 3A.

Avian encephalomyelitis virus (AEV) protein 3A is a membrane-interacting protein containing a stretch of 21 hydrophobic amino acid residues. Membrane-association property was assayed using chick embryo brain (CEB) cells transfected with the fusion GFP-3A and its various deletion mutants demonstrate that 3A is integrally interacted with membranes by its hydrophobic domain and further defines that the motif of amino acid residues 45-51, the most C-terminal hydrophobic domain essential for this feature. Expression of 3A in transfected CEB cells results in membrane permeability modifications through association of the third motif with membranes, which can be demonstrated by release of lactate dehydrogenase (LDH) into the medium. Furthermore, the localization of the protein 3A in transfected CEB and Cos-7 cells exhibited an overlapping staining pattern with an endoplasmic reticulum (ER) and involved in the disassembly of the Golgi apparatus under double-staining and confocal microscopic observations, whereas the 3A mutants lacking amino acids 45-51 could not localize to the ER and display an intact Golgi morphology as seen in the mutant devoid of the complete hydrophobic domain after transfection. Taken together, our results demonstrate that the motif (aa 45-51) of the transmembrane domain might be fundamental for the stable interaction of the protein 3A with the ER membrane regardless of the cell types. Although this motif was deleted, the resultant protein did not localize to the ER, which directly results in the loss of the ability to block the ER-to-Golgi transport by 3A protein and hence makes the morphology of the Golgi apparatus return to normal.

Amino Acid Motifs↗

Imaging neural crest cell dynamics during formation of dorsal root ganglia and sympathetic ganglia.

The neural crest is a migratory population of cells that produces many diverse structures within the embryo. Trunk neural crest cells give rise to such structures as the dorsal root ganglia (DRG) and sympathetic ganglia (SG), which form in a metameric pattern along the anterior-posterior axis of the embryo. While static analyses have provided invaluable information concerning the development of these structures, time-lapse imaging of neural crest cells navigating through their normal environment could potentially reveal previously unidentified cellular and molecular interactions integral to DRG and SG development. In this study, we follow fluorescently labeled trunk neural crest cells using a novel sagittal explant and time-lapse confocal microscopy. We show that along their dorsoventral migratory route, trunk neural crest cells are highly motile and interact extensively with neighboring cells and the environment, with many cells migrating in chain-like formations. Surprisingly, the segregated pattern of crest cell streams through the rostral somite is not maintained once these cells arrive alongside the dorsal aorta. Instead, neural crest cells disperse along the ventral outer border of the somite, interacting extensively with each other and their environment via dynamic extension and retraction of filopodia. Discrete sympathetic ganglia arise as a consequence of intermixing and selective reorganization of neural crest cells at the target site. The diverse cell migratory behaviors and active reorganization at the target suggest that cell-cell and cell-environment interactions are coordinated with dynamic molecular processes.

Animals↗

Three-dimensional simulation and prediction of craniofacial surgery.

The treatment of patients with complex facial deformities is one of the most challenging multidisciplinary tasks in plastic surgery. Due to advancements in medical technology and surgical techniques in the last 20 years correction of severe malformations has become possible and is performed by highly specialized teams frequently in a single operation. Recent developments in three-dimensional (3-D) imaging techniques have already greatly facilitated diagnosis of complex craniofacial deformities. Computer-based simulation methods for surgical procedures that are based on imaging data have the potential to improve surgical treatment by providing the ability to perform 'virtual surgery' preoperatively and thus reduce patient risk and morbidity intraoperatively. A method is presented for interactive computer-assisted craniofacial plastic surgery planning and visualization, especially simulation of soft tissue changes using an experimental Craniofacial Surgery Planner. The system computes non-linear soft-tissue deformation because of bone realignment. It is capable of simulating bone cutting and bone realignment with integrated interactive collision detection. Furthermore, soft-tissue deformation and cutting due to surgical instruments can be visualized. Simulation processes are based on an individual patient's preoperative 3-D computed tomography and on a 3-D, photo-realistic model of the patient's preoperative appearance obtained by a laser range scanner. Very fast and robust prediction of non-linear soft-tissue deformation is computed by optimizing a non-linear cost function.

Computer Simulation↗

Sex as a modifier of genetic risk for type 1 diabetes.

Sex differences influence the pathogenesis of type 1 diabetes (T1D), yet most genetic studies have treated sex as a control covariate rather than a dynamic effect modifier. Sex influences immune cell behaviour, including CD4+ and CD8+ T cell activation, regulatory T cell stability, B cell autoantibody production, dendritic cell priming and monocyte/macrophage inflammation. Underlying mechanisms include hormone-responsive enhancers, X-escape gene dosage and sex-biassed chromatin states, intersecting with T1D-associated variants to produce sex-specific immune phenotypes. These insights help explain regional variation in sex ratios of T1D incidence, such as male predominance in high-risk populations and female excess in low-risk populations. Biological sex shapes T1D risk across multiple layers, including polygenic load; environmental exposures such as vitamin D deficiency and enteroviral infection; and sex-specific hormonal, chromosomal and epigenetic influences. An integrative G × E × S (genetic × environmental × sex-specific) liability-threshold framework is thus supported. Clinical and translational implications include developing sex-specific polygenic risk scores, biomarker panels and interventional strategies targeting pathways such as hormone signalling, vitamin D metabolism and the microbiome. Future multi-omic, longitudinal studies are warranted to test genotype-sex interactions, integrate sex as a core effect modifier and enable precision prevention and treatment of T1D in both males and females.

Humans↗

Unraveling transcription regulatory networks by protein-DNA and protein-protein interaction mapping.

Metazoan genomes contain thousands of protein-coding and noncoding RNA genes, most of which are differentially expressed, i.e., at different locations or at different times during development, function, or pathology of the organism. Differential gene expression is achieved in part by the action of regulatory transcription factors (TFs) that bind to cis-regulatory elements that are often located in or near their target genes. Each TF likely regulates many targets in the context of intricate transcription regulatory networks. Up to 10% of a genome may encode TFs, but only a handful of these have been studied in detail. Here, I will discuss the different steps involved in the mapping and analysis of transcription regulatory networks, including the identification of network nodes (TFs and their target sequences) and edges (TF-TF dimers and TF-DNA target interactions), integration with other data types, and network properties and emerging principles that provide insights into differential gene expression.

Animals↗

Therapeutic drug monitoring databases for postmarketing surveillance of drug-drug interactions.

Drug-drug interactions can be associated with patient morbidity due to either increased toxicity or a potentially ineffective concentration. Because interactions cannot always be anticipated during drug development and actual patients receiving a drug for therapeutic use often differ from those included in clinical trials, postmarketing surveillance is essential. Therapeutic drug monitoring (TDM) databases offer a unique opportunity in this respect. Prerequisites for TDM databases to provide valid information in a pharmacoepidemiological perspective include the following: precise description of exposure to the potentially interacting drugs; measurement of parent compound and active metabolites through accurate and precise analytical techniques; documentation of relevant patient characteristics that may act as confounding factors (e.g. gender, age, smoking habits); repeated assessments over time if possible; and sound pharmacokinetic framework for data selection, analysis and interpretation. The contribution of TDM to the documentation of drug-drug interactions takes advantage of different possible study designs, discussed on the basis of recently published studies. The single case report plays an important role as an alert signal. It is illustrated for a patient on long-term treatment, who displayed an unexpectedly high clozapine concentration after the introduction of ciprofloxacin comedication. The prospective on and off comedication panel study shows advantages in terms of carefully selected inclusion criteria and control of treatment modalities. A study of the thioridazine-fluvoxamine interaction is presented, with patients followed on thioridazine monotherapy, after introduction of fluvoxamine and after its discontinuation. The main advantage of the retrospective large-scale TDM database screen is representativeness of patients actually treated, whereas drawbacks are related to quality of data and suitability for valid interpretation. Such an approach is illustrated by a review of data collected over 10 years of routine TDM that allowed documenting induction of nortriptyline metabolism by carbamazepine and inhibition by several phenothiazines. Finally, population pharmacokinetics is well suited to observational data collected for TDM purpose, provided quality is ascertained. Focus is placed on interindividual variability and relationship between pharmacokinetic parameters and patient characteristics, including comedication. The population approach is discussed with respect to a study that documented a 32% increase of haloperidol clearance associated with anticonvulsant comedication, in addition to effects of age and bodyweight. Among factors to consider for improved effectiveness in the use of TDM databases for postmarketing surveillance of drug-drug interactions, integration of efficacy and safety data in future studies and communication of expert recommendations to prescribing physicians are essential.

Databases, Factual↗

An interaction site model integral equation study of molecular fluids explicitly considering the molecular orientation.

We implemented an interaction site model integral equation for rigid molecules based on a density-functional theory where the molecular orientation is explicitly considered. In this implementation of the integral equation, multiple integral of the degree of freedom of the molecular orientation is performed using efficient quadrature methods, so that the site-site pair correlation functions are evaluated exactly in the limit of low density. We apply this method to Cl(2), HCl, and H(2)O molecular fluids that have been investigated by several integral equation studies using various models. The site-site pair correlation functions obtained from the integral equation are in good agreement with the one from a simulation of these molecules. Rotational invariant coefficients, which characterize the microscopic structure of molecular fluids, are determined from the integral equation and the simulation in order to investigate the accuracy of the integral equation.

Journal Article↗

Functional diffusive/convective interaction determining maximal oxygen uptake in humans: its modeling perspective.

In this short review, the frame of current understandings concerning what determines the upper limit of oxygen flow from the ambient air to the muscular mitochondria during maximal dynamic exercise in humans (i.e., VO2max), was summarized mainly from its modeling perspective. Several models and experimental evidences which appeared repeatedly in the recent debates regarding the factors limiting VO2max, were adopted and criticized. In conclusion, VO2max is determined in particular by the integrated interaction between the diffusive and convective factors both to lung O2-loading and muscular O2-unloading in the pathway for O2 flow, although all experimental observations cannot be satisfactorily explained at the present time.

Exercise↗

Developing therapeutics for schizophrenia and other psychotic disorders.

Although the second-generation or atypical antipsychotic drugs have been breakthrough medicines for the treatment of schizophrenia and other psychotic conditions, cognitive dysfunction and to some extent negative symptoms of the disease continue to be the main cause of poor vocational status of the patients. Thus, the majority of investigational drug development efforts today target these unmet medical needs. This review postulates that the field of schizophrenia research has advanced sufficiently to develop biochemical hypotheses of the etiopathology of the disease and target the same for revolutionary disease modifying therapy. This postulate is based on recent studies that have begun to provide a testable etiopathology model that integrates interactions between genetic vulnerability factors, neurodevelopmental anomalies, and neurotransmitter systems. This review begins with a brief overview of the nosology and etiopathology of schizophrenia and related psychotic disorders to establish a context for subsequent detailed discussions on drug discovery and development for psychotic disorders. Particular emphasis is placed on recent advances in genetic association studies of schizophrenia and how this can be integrated with evidence supporting neurodevelopmental abnormalities associated with the disease to generate a testable model of the disease etiopathology. An in-depth review of the plethora of new targets and approaches targeting the unmet medical need in the treatment of schizophrenia exemplify the challenges and opportunities in this area. We end the review by offering an approach based on emerging genetic, clinical, and neurobiological studies to discover and validate novel drug targets that could be classified as disease modifying approaches.

Animals↗

Antibodies against highly purified B-subunit of the chick oviduct progesterone receptor.

A rabbit was immunized with the highly purified B-subunit (110kDa) (20 to 50 micrograms per injection) of the chick oviduct progesterone receptor (PR). Specific antibodies (IgG-RB) were observed 2 weeks after the first booster injection and high antibody titers in the serum were found after the second and third booster injections (with Kdeq of interaction integral of 2 nM). IgG-RB were tested by immunoprecipitation, immunoblotting, density gradient ultracentrifugation and protein A-sepharose assay methods. They recognized not only the B-subunit but also the A-subunit (79K), the nuclear PR, the mero-receptor (proteolytic cleavage product) and the "non-activated" molybdate-stabilized "8S" PR. However, IgG-RB did not interact with the 90K non hormone-binding component of this 8S-PR. IgG-RB did not affect the binding of the hormone to PR, whether incubated with the receptor before or after labelling with tritiated progesterone. They did not cross-react with glucocorticosteroid receptor of the chick oviduct. Weak interaction was observed with estrogen receptor of the chick oviduct and with KC1 activated "4S" forms of the rabbit and human uterus PR.

Animals↗

CareVis: integrated visualization of computerized protocols and temporal patient data.

OBJECTIVE: Currently, visualization support for patient data analysis is mostly limited to the representation of directly measured data. Contextual information on performed treatment steps is an important source to find reasons and explanations for certain phenomena in the measured patient data, but is mostly spared out in the analysis process. This work aims to fill this gap via integrating classical data visualization and visualization of treatment information. METHODS AND MATERIAL: We considered temporal as well as logical data aspects and applied a user-centered development approach that was guided by user input gathered via a user study, design reviews, and prototype evaluations. Furthermore, we investigated the novel PlanningLine glyph, that is used to represent plans in the temporal domain, via a comparative empirical user study. RESULTS: Our interactive visualization approach CareVis provides multiple simultaneous views to cover different aspects of the complex underlying data structure of treatment plans and patient data. The tightly coupled views use visualization methods well-known to domain experts and are designed to facilitate users' tasks. The views are based on the concepts of clinical algorithm maps and LifeLines which have been extended in order to cope with the powerful and expressive plan representation language Asbru. Initial feedback of physicians was encouraging and is accompanied by empirical evidence which verifies that PlanningLines are well suited to manage temporal uncertainty. CONCLUSION: The interactive integration of different visualization methods forms a novel way of combining, relating, and analyzing different kinds of medical data and information that otherwise would be separated.

Algorithms↗

Sex steroids, growth hormone, insulin-like growth factor-1: neuroendocrine and metabolic regulation in puberty.

UNLABELLED: The control of the onset of puberty involves the complex interaction of pituitary and gonadal hormones. At a preprogrammed time in a child's life there is an increase in the amplitude of GnRH pulses which triggers a cascade of events including increases in the amplitude of FSH and LH pulses, followed by marked increases in gonadal sex steroidal output, which in turn increases growth hormone (GH) and insulin-like growth factor-1 (IGF-1) production. Evidence suggests that there is an integral interaction between the endogenous opiate system and the hypothalamic-pituitary-gonadal axis, at least in the later stages of puberty in the male. Both androgenic and estrogenic hormones markedly increase GH production rates as measured by deconvolution models in the prepubertal human, and compelling data strongly suggest that it is indeed the estrogen which controls the feedback amplification of GH production during puberty even in the male. It appears that the prepubertal gonad is actively producing sex hormones which might be important in the control of GH production since early childhood. The translation of these neuroendocrine rhythms into distal metabolic actions is also reviewed. Utilizing isotopic tracer infusions of the essential amino acid leucine, studies clearly show a selective stimulation of whole body protein synthesis by both GH and IGF-1. GH, IGF-1 and androgenic hormones all increase in puberty, stimulating whole body protein anabolism during that period. However, we observed no protein-anabolic effect in the hypogonadal female given increasing doses of estrogen. The latter suggests that at least as it pertains to whole body protein effects, the action of androgens is probably mediated via the androgen and not the estrogen receptor, in clear distinction from the estrogen-mediated effects of androgens on the neuroendocrine axis. Calcium absorption and retention are also positively affected by the androgens as shown by significant increases in calcium absorption and retention after the administration of testosterone to the prepubertal male. This suggests an important role of sex steroidal hormones in the mineralization of the skeleton. IN CONCLUSION: GH, IGF-1 and sex steroids all markedly increase during puberty and their actions are amplified mutually as they control growth, increase muscle mass and affect the mineralization of the skeleton. The dichotomy of androgen and estrogen effects in the male and female may regulate the differential timing of the onset of puberty and final height in the two sexes. The synergistic actions of these anabolic hormones appear to be most significant during the finite years of puberty.

Adolescent↗

A framework supporting the development of a Grid portal for analysis based on ROI.

OBJECTIVES: In our research on brain function analysis, users require two different simultaneous types of processing: interactive processing to a specific part of data and high-performance batch processing to an entire dataset. The difference between these two types of processing is in whether or not the analysis is for data in the region of interest (ROI). In this study, we propose a Grid portal that has a mechanism to freely assign computing resources to the users on a Grid environment according to the users' two different types of processing requirements. METHODS: We constructed a Grid portal which integrates interactive processing and batch processing by the following two mechanisms. First, a job steering mechanism controls job execution based on user-tagged priority among organizations with heterogeneous computing resources. Interactive jobs are processed in preference to batch jobs by this mechanism. Second, a priority-based result delivery mechanism that administrates a rank of data significance. RESULTS: The portal ensures a turn-around time of interactive processing by the priority-based job controlling mechanism, and provides the users with quality of services (QoS) for interactive processing. The users can access the analysis results of interactive jobs in preference to the analysis results of batch jobs. The Grid portal has also achieved high-performance computation of MEG analysis with batch processing on the Grid environment. CONCLUSION: The priority-based job controlling mechanism has been realized to freely assign computing resources to the users' requirements. Furthermore the achievement of high-performance computation contributes greatly to the overall progress of brain science. The portal has thus made it possible for the users to flexibly include the large computational power in what they want to analyze.

Brain Diseases↗

p63 Coordinates anogenital modeling and epithelial cell differentiation in the developing female urogenital tract.

p63 is a p53 homologue required for cutaneous development that is expressed in immature squamous epithelium and reserve cells of the cervix. Humans with p63 mutations exhibit defects in limb, accessory organ (skin appendage, breast, prostate), and genitourinary development. Because p63 expression patterns imply a strong role of the gene in the female genital tract development, newborn female p63-/-, +/-, and +/+ mice were examined in situ, dissected, and compared. Nuclear p63 protein was localized to the skin, vagina, bladder, urethra, and basal columnar cells of the caudal uterus in p63+/+ and +/- animals. p63-/- mice exhibited abnormal genital morphogenesis with hypoplastic genitalia, a single cloacal opening, and persistence of columnar epithelium at lower genital tract sites that normally undergo squamous and urothelial differentiation. The defects observed support p63-dependent pathways of genital tract development that permit externally, ectodermal basal cell replenishment integral to reciprocal epithelial stromal signaling, urorectal septation, and modeling of the external genitalia; and internally, the emergence of basal epithelial cell populations capable of divergent epithelial cell differentiation in the vagina, cervix, and urinary tract. Defects in the first pathway explain imperforate anus, vaginal septum, genital hypoplasia, and micropenis reported in humans with p63 mutations. The second is necessary for the generation of multipotential reserve cells in the cervix and may be operative in other epithelial stromal interactions integral to the emergence of uterine basal cells later in life.

Anal Canal↗

Parallel and serial processes in the human oculomotor system: bimodal integration and express saccades.

Saccadic reaction times (SRTs) were analyzed in the context of stochastic models of information processing (e.g., Townsend and Ashby 1983) to reveal the processing architecture(s) underlying integrative interactions between visual and auditory inputs and the mechanisms of express saccades. The results support the following conclusions. Bimodal (visual+auditory) targets are processed in parallel, and facilitate SRT to an extent that exceeds levels attainable by probability summation. This strongly implies neural summation between elements responding to spatially aligned visual and auditory inputs in the human oculomotor system. Second, express saccades are produced within a separable processing stage that is organized in series with that responsible for intersensory integration. A model is developed that implements this combination of parallel and serial processing. The activity in parallel input channels is summed within a sensory stage which is organized in series with a pre-motor and motor stage. The time course of each subprocess is considered a random variable, and different experimental manipulations can selectively influence different stages. Parallels between the model and physiological data are explored.

Cybernetics↗