Statistical Signs of Synaptic Interaction in Neurons

The influence of basic open-loop synaptic connections on the firing of simultaneously recorded neurons has been investigated with auto- and cross-correlation histograms, using experimental records and computer simulations. The basic connections examined were direct synaptic excitation, direct synaptic inhibition, and shared synaptic input. Each type of synaptic connection produces certain characteristic features in the cross-correlogram depending on the properties of the synapse and statistical features in the firing pattern of each neuron. Thus, empirically derived cross-correlation measures can be interpreted in terms of the underlying physiological mechanisms. Their potential uses and limitations in the detection and identification of synaptic connections between neurons whose extracellularly recorded spike trains are available are discussed.     

Raised Intracellular Calcium Contributes to Ischemia-Induced Depression of Evoked Synaptic Transmission

Oxygen-glucose deprivation (OGD) leads to depression of evoked synaptic transmission, for which the mechanisms remain unclear. We hypothesized that increased presynaptic [Ca²⁺]_i during transient OGD contributes to the depression of evoked field excitatory postsynaptic potentials (fEPSPs). Additionally, we hypothesized that increased buffering of intracellular calcium would shorten electrophysiological recovery after transient ischemia. Mouse hippocampal slices were exposed to 2 to 8 min of OGD. fEPSPs evoked by Schaffer collateral stimulation were recorded in the stratum radiatum, and whole cell current or voltage clamp recordings were performed in CA1 neurons. Transient ischemia led to increased presynaptic [Ca²⁺]_i, (shown by calcium imaging), increased spontaneous miniature EPSP/Cs, and depressed evoked fEPSPs, partially mediated by adenosine. Buffering of intracellular Ca²⁺ during OGD by membrane-permeant chelators (BAPTA-AM or EGTA-AM) partially prevented fEPSP depression and promoted faster electrophysiological recovery when the OGD challenge was stopped. The blocker of BK channels, charybdotoxin (ChTX), also prevented fEPSP depression, but did not accelerate post-ischemic recovery. These results suggest that OGD leads to elevated presynaptic [Ca²⁺]_i, which reduces evoked transmitter release; this effect can be reversed by increased intracellular Ca²⁺ buffering which also speeds recovery.     

Precise-Spike-Driven Synaptic Plasticity: Learning Hetero-Association of Spatiotemporal Spike Patterns

A new learning rule (Precise-Spike-Driven (PSD) Synaptic Plasticity) is proposed for processing and memorizing spatiotemporal patterns. PSD is a supervised learning rule that is analytically derived from the traditional Widrow-Hoff rule and can be used to train neurons to associate an input spatiotemporal spike pattern with a desired spike train. Synaptic adaptation is driven by the error between the desired and the actual output spikes, with positive errors causing long-term potentiation and negative errors causing long-term depression. The amount of modification is proportional to an eligibility trace that is triggered by afferent spikes. The PSD rule is both computationally efficient and biologically plausible. The properties of this learning rule are investigated extensively through experimental simulations, including its learning performance, its generality to different neuron models, its robustness against noisy conditions, its memory capacity, and the effects of its learning parameters. Experimental results show that the PSD rule is capable of spatiotemporal pattern classification, and can even outperform a well studied benchmark algorithm with the proposed relative confidence criterion. The PSD rule is further validated on a practical example of an optical character recognition problem. The results again show that it can achieve a good recognition performance with a proper encoding. Finally, a detailed discussion is provided about the PSD rule and several related algorithms including tempotron, SPAN, Chronotron and ReSuMe.     

Statistical Patterns in Movie Rating Behavior

Currently, users and consumers can review and rate products through online services, which provide huge databases that can be used to explore people’s preferences and unveil behavioral patterns. In this work, we investigate patterns in movie ratings, considering IMDb (the Internet Movie Database), a highly visited site worldwide, as a source. We find that the distribution of votes presents scale-free behavior over several orders of magnitude, with an exponent very close to 3/2, with exponential cutoff. It is remarkable that this pattern emerges independently of movie attributes such as average rating, age and genre, with the exception of a few genres and of high-budget films. These results point to a very general underlying mechanism for the propagation of adoption across potential audiences that is independent of the intrinsic features of a movie and that can be understood through a simple spreading model with mean-field avalanche dynamics.     

The Statistical Significance of Mutation Frequencies

TRAUT has proposed a method for determining the statistical significance between a mutation frequency observed after treatment with a potential mutagen and a control frequency. The method is developed further by us for an easier practical use. A table for the minimal sample size in the region of interest for the sex-linked recessive lethal test in Drosophila melanogaster has been calculated. TRACT'S test is compared with FISHER'S exact test and the KASTENBAUM -BOWMAN test. TRAUT'S test turns out to be more sensitive than the other tests. This observation strongly supports TRAUT'S conclusion that his test should only be used if very accurate determinations of the spontaneous frequencies are available.     

Intracellular Trafficking and Synaptic Function of APL-1 in Caenorhabditis elegans

Background

Alzheimer''s disease (AD) is a neurodegenerative disorder primarily characterized by the deposition of β-amyloid plaques in the brain. Plaques are composed of the amyloid-β peptide derived from cleavage of the amyloid precursor protein (APP). Mutations in APP lead to the development of Familial Alzheimer''s Disease (FAD), however, the normal function of this protein has proven elusive. The organism Caenorhabditis elegans is an attractive model as the amyloid precursor-like protein (APL-1) is the single ortholog of APP, and loss of apl-1 leads to a severe molting defect and early larval lethality.

Methodology/Principal Findings

We report here that lethality and molting can be rescued by full length APL-1, C-terminal mutations as well as a C-terminal truncation, suggesting that the extracellular region of the protein is essential for viability. RNAi knock-down of apl-1 followed by drug testing on the acetylcholinesterase inhibitor aldicarb showed that loss of apl-1 leads to aldicarb hypersensitivity, indicating a defect in synaptic function. The aldicarb hypersensitivity can be rescued by full length APL-1 in a dose dependent fashion. At the cellular level, kinesins UNC-104/KIF-1A and UNC-116/kinesin-1 are positive regulators of APL-1 expression in the neurons. Knock-down of the small GTPase rab-5 also leads to a dramatic decrease in the amount of apl-1 expression in neurons, suggesting that trafficking from the plasma membrane to the early endosome is important for apl-1 function. Loss of function of a different small GTPase, UNC-108, on the contrary, leads to the retention of APL-1 in the cell body.

Conclusions/Significance

Our results reveal novel insights into the intracellular trafficking of APL-1 and we report a functional role for APL-1 in synaptic transmission.     

Multi-Image Colocalization and Its Statistical Significance

Accurately localizing molecules within the cell is one of main tasks of modern biology, and colocalization analysis is one of its principal and most often used tools. Despite this popularity, interpretation is often uncertain because colocalization between two or more images is rarely analyzed to determine whether the observed values could have occurred by chance. To address this, we have developed a robust methodology, based on Monte Carlo randomization, to measure the statistical significance of a colocalization. The method works with voxel-based, intensity-based, object-based, and nearest-neighbor metrics. We extend all of these to measure colocalization in images with three colors. We also introduce three new metrics; blob colocalization, where the blob consists of a local maximum surrounded by a three-dimensional group of voxels; cluster diameter, to measure the clustering of fluorophores in three or more images; and the intercluster distance to measure the distance between these clusters. The robustness of these metrics was tested by varying the image thresholds over a broad range, which produced no change in the statistical significance of the colocalizations. A comparison of blob colocalization with voxel and Manders colocalization metrics shows that the different measures produce consistent results with similar values for significance and nonsignificance. Using our methodology, we are able to determine not only whether the labeled molecules colocalize with a probability greater than chance, but also whether they are sequestrated into different compartments. The program, written in C++, is freely available as source, as well as in a Linux version.     

Cyclooxygenase-2 Induction in Cerebral Cortex: An Intracellular Response to Synaptic Excitation

Abstract: We have characterised the induction of the mitogen-inducible form of cyclooxygenase, COX-2, in the rat cerebral cortex in response to excitotoxin injection into the nucleus basalis. This model is associated with intense stimulation of the ascending pathway to the cerebral cortex, seizure activity, and subsequent ipsilateral cortical induction of various immediate early genes (IEGs), including c-fos, c-jun, and zif268, and ornithine decarboxylase enzyme activity and mRNA, all of which processes are sensitive to treatment with the N-methyl-d -aspartate (NMDA) receptor antagonist MK-801. In this study we show that excitotoxin injection also causes a marked induction of COX-2 mRNA in ipsilateral cortex detectable at 1 h and peaking at 4 h, where COX-2 mRNA levels were 19 times those in unoperated animals. Levels of COX-2 mRNA remained significantly elevated at 24 h. The early induction of COX-2 at 1 h was also seen in sham-operated animals, but at 4 h the COX-2 mRNA level was significantly increased (4.4-fold) in animals injected with excitotoxin compared with sham-operated animals. The induction at this time point (4 h) was explored pharmacologically and found to be significantly attenuated by treatment with MK-801 (1.5 mg/kg), lamotrigine (10 mg/kg), which prevents presynaptic glutamate release by blocking voltage-sensitive Na⁺ channels, and the glucocorticoid dexamethasone (3 mg/kg), which has an indirect inhibitory effect on phospholipase A₂ and COX activity. These results demonstrate that the induction of COX-2 mRNA occurs by two distinct mechanisms: the rapid and transient response to tissue damage and a second delayed and more substantial response, which is initiated by excitotoxin stimulation and is mediated by presynaptic glutamate release, NMDA receptor activation, and subsequent phospholipase A₂ activity. We propose a model to demonstrate the similarities between COX-2 and IEG mRNA induction and highlight possible mechanistic differences in the nature of the induction by the phospholipase A₂ pathway.     

Novel Bursting Patterns Emerging from Model Inhibitory Networks with Synaptic Depression

Studies show that short-term synaptic plasticity plays important roles in neural coding and the normal operation of the synapse. Basket cells in the hippocampus demonstrate this plasticity in the form of synaptic depression, and recent in vivo work indicates that basket cell activities contribute significantly to hippocampal output associated with different behavioural states. Thus it is essential to understand the generation and synchronization of patterns produced by basket cell networks with depression. We study two-cell model inhibitory networks with depression and obtain alternating bursting patterns and synchronous activity occurring between bursts. We describe mechanisms for how these patterns emerge by performing several simulations in the plane of different depression time constants, tauD. Such patterns might contribute significantly to various population activities observed in the hippocampus.     

The Statistical Analysis of Multi-Voxel Patterns in Functional Imaging

The goal of multi-voxel pattern analysis (MVPA) in BOLD imaging is to determine whether patterns of activation across multiple voxels change with experimental conditions. MVPA is a powerful technique, its use is rapidly growing, but it poses serious statistical challenges. For instance, it is well-known that the slow nature of the BOLD response can lead to greatly exaggerated performance estimates. Methods are available to avoid this overestimation, and we present those here in tutorial fashion. We go on to show that, even with these methods, standard tests of significance such as Students’ T and the binomial tests are invalid in typical MRI experiments. Only a carefully constructed permutation test correctly assesses statistical significance. Furthermore, our simulations show that performance estimates increase with both temporal as well as spatial signal correlations among multiple voxels. This dependence implies that a comparison of MVPA performance between areas, between subjects, or even between BOLD signals that have been preprocessed in different ways needs great care.     

Adaptational Significance of the Patterns of Ophiuroid Development

There is only limited information on ophiuroid developmentalpatterns, larvae being known for only 4% of the 2000 livingophiuroids. Three modes of development are distinguished (planktotrophic,direct, abbreviated) on the basis of egg size and number, larvalform and life span, and post-larval size. This generalizationis applied to an analysis of the larval form(s) of deep-seaophiuroids and the ancestral ophiuroid larva. Quantitative informationon rate of development and reproductive period, which has beenlacking for viviparous ophiuroids, is presented for Axiognathus( = Amphipholis) squamatus on the basis of original size-frequencydata. Reproduction is seasonal in the population studied anddevelopment to metamorphosis takes no longer than for planktotrophicspecies though the brooding period ranges from 3 to 7 months.Additional data indicate post-larvae of planktotrophic specieshave fewer arm segments than newly-hatched viviparous young,supporting the hypothesis that large size of juveniles is characteristicand selectively advantageous for viviparous ophiuroids.     

A Robust In Vivo-Like Persistent Firing Supported by a Hybrid of Intracellular and Synaptic Mechanisms

Persistent firing is believed to support short-term information retention in the brain. Established hypotheses make use of the recurrent synaptic connectivity to support persistent firing. However, this mechanism is known to suffer from a lack of robustness. On the other hand, persistent firing can be supported by an intrinsic cellular mechanism in multiple brain areas. However, the consequences of having both the intrinsic and the synaptic mechanisms (a hybrid model) on persistent firing remain largely unknown. The goal of this study is to investigate whether a hybrid neural network model with these two mechanisms has advantages over a conventional recurrent network based model. Our computer simulations were based on in vitro recordings obtained from hippocampal CA3 pyramidal cells under cholinergic receptor activation. Calcium activated non-specific cationic (CAN) current supported persistent firing in the Hodgkin-Huxley style cellular models. Our results suggest that the hybrid model supports persistent firing within a physiological frequency range over a wide range of different parameters, eliminating parameter sensitivity issues generally recognized in network based persistent firing. In addition, persistent firing in the hybrid model is substantially more robust against distracting inputs, can coexist with theta frequency oscillations, and supports pattern completion.     

Differential Patterns of Constitutive Intracellular Laccases of the Vegetative Phase of Pleurotus Species

The constitutive intracellular laccase activity of ten strains of Pleurotus spp. was determined in vitro and by zymograms, using different substrates. Differences in the in vitro activities were observed between all the strains; however, zymogram patterns were only similar for strains within same species, independently of any of the three substrate (2,6-dimethoxyphenol, p-anisidine or o-tolidine) used. The differences observed in the number and positions of the isoforms in the gel suggest that laccase zymograms can be used to differentiate species of this organism.     

Quantifying Significance of Topographical Similarities of Disease-Related Brain Metabolic Patterns

Multivariate analytical routines have become increasingly popular in the study of cerebral function in health and in disease states. Spatial covariance analysis of functional neuroimaging data has been used to identify and validate characteristic topographies associated with specific brain disorders. Voxel-wise correlations can be used to assess similarities and differences that exist between covariance topographies. While the magnitude of the resulting topographical correlations is critical, statistical significance can be difficult to determine in the setting of large data vectors (comprised of over 100,000 voxel weights) and substantial autocorrelation effects. Here, we propose a novel method to determine the p-value of such correlations using pseudo-random network simulations.     

Statistical Significance of Mutation Frequencies,and the Power of Statistical Testing,Using the Poisson Distribution

The Poisson distribution may be employed to test whether mutation frequencies differ from control frequencies. This paper describes how this testing procedure may be used for either one-tailed or two-tailed hypotheses. It is also shown how the power of the statistical test can be calculated, the power being the probability of correctly concluding the null hypothesis to be false.     

Significance of an Increase of Intracellular Adenosine Concentration for Dormancy in Starfish Blastulae

Adenosine at concentrations greater than 6 μg/ml halted embryonic development of the starfish Asterina pectinifera specifically at the 256-cell stage which corresponds to the onset of blastulation. When a fertilized egg was cultured continuously in sea water containing adenosine from fertilization, a gradual increase in intracellular concentrations of free adenosine was observed before a cessation of development took place. On the other hand, intracellular concentrations of ATP, ADP and AMP in the embryo cultured in sea water containing adenosine were nearly the same as those of an embryo cultured in sea water without adenosine. By returning the development-arrested embryo to normal sea water the embyro developed normally to the bipinnaria stage accompanied by a gradual decrease in the intracellular cencentration of adenosine.
Treatment of fertilized eggs with 9-β-d-arabinofuranosyl-9H-purine-6-amine (25 μg/ml) or 2'-deoxyadenosine (10 μg/ml) halted development specifically before the onset of blastulation in an irreversible manner. Embryos treated with 3'-deoxyadenosine (50 μg/ml) shortly after fertilization developed to healthy blastulae but hatching never occurred. These results exclude the possibilities that the action of adenosine is mediated by the inhibition of DNA synthesis or RNA polyadenylylation.