Comparing the generalized matching law and contingency discriminability model as accounts of concurrent schedule performance using residual meta-analysis

To compare the generalized matching law (Baum, W.M., 1974b. On two types of deviation from the matching law: bias and undermatching. J. Exp. Anal. Behav. 22, 231-242) and contingency discriminability model (Davison, M., Jenkins, P.E., 1985. Stimulus discriminability, contingency discriminability, and schedule performance. Anim. Learn. Behav. 13, 77-84) as accounts of concurrent schedule performance, we conducted a residual meta-analysis of response- and time-allocation data from 20 studies (n's=886 and 774, respectively). Both models were fitted to the individual-subject data from each study, and residuals were obtained. Polynomial regressions were then performed on the pooled residuals to determine whether systematic trends were present as a function of predicted values. For the contingency discriminability model, the cubic coefficients were positive and statistically significant for both response- and time-allocation data. By contrast, no statistically significant systematic trend was obtained in the residuals for the generalized matching law. These results suggest that the relationship between log response allocation and log reinforcer allocation does not deviate significantly from linearity over an approximate range of +1.25 to -1.25 log units, consistent with the generalized matching law. Although qualitative criteria are also important in comparing models of behavioral phenomena, residual meta-analysis provides a powerful quantitative methodology for model selection and should prove useful in future research.     

Contingency discriminability and the generalized matching law describe choice on concurrent ratio schedules of wheel-running reinforcement

Belke (2010) showed that on concurrent ratio schedules, the difference in ratio requirements required to produce near exclusive preference for the lower ratio alternative was substantively greater when the reinforcer was wheel running than when it was sucrose. The current study replicated this finding and showed that this choice behavior can be described by the matching law and the contingency discriminability model. Eight female Long Evans rats were exposed to concurrent VR schedules of wheel-running reinforcement (30s) and the schedule value of the initially preferred alternative was systematically increased. Two rats rapidly developed exclusive preference for the lower ratio alternative, but the majority did not - even when ratios differed by 20:1. Analysis showed that estimates of slopes from the matching law and the proportion of reinforcers misattributed from the contingency discriminability model were related to the ratios at which near exclusive preference developed. The fit of these models would be consistent with misattribution of reinforcers or poor discrimination between alternatives due to the long duration of wheel running.     

The stay/switch model describes choice among magnitudes of reinforcers

The stay/switch model is an alternative to the generalized matching law for describing choice in concurrent procedures. The purpose of the present experiment was to extend this model to choice among magnitudes of reinforcers. Rats were exposed to conditions in which the magnitude of reinforcers (number of food pellets) varied for staying at alternative 1, switching from alternative 1, staying at alternative 2 and switching from alternative 2. A changeover delay was not used. The results showed that the stay/switch model provided a good account of the data overall, and deviations from fits of the generalized matching law to response allocation data were in the direction predicted by the stay/switch model. In addition, comparisons among specific conditions suggested that varying the ratio of obtained reinforcers, as in the generalized matching law, was not necessary to change the response and time allocations. Other comparisons suggested that varying the ratio of obtained reinforcers was not sufficient to change response allocation. Taken together these results provide additional support for the stay/switch model of concurrent choice.     

Effect of contingent auditory stimuli on concurrent schedule performance: an alternative punisher to electric shock

This study explored whether load auditory stimuli could be used as functional punishing stimuli in place of electric shock. Three experiments examined the effect of a loud auditory stimulus on rats’ responding maintained by a concurrent reinforcement schedule. In Experiment 1, overall response rate decreased when a concurrent 1.5 s tone presentation schedule was superimposed on the concurrent variable interval (VI) 180-s, VI 180-s reinforcement schedule. On the contrary, response rate increased when a click presentation schedule was added. In Experiment 2, the extent of the response suppression with a 1.5 s tone presentation varied as a function of the frequency of the reinforcement schedule maintaining responses; the leaner the schedule employed, the greater the response suppression. In Experiment 3, response suppression was observed to be inversely related to the duration of the tone; response facilitation was observed when a 3.0-s tone was used. In Experiments 1 and 2, a preference shift towards the alternative with richer reinforcement was observed when the tone schedule was added. In contrast, the preference shifted towards the leaner alternative when the click or longer duration stimulus was used. These results imply that both the type and duration of a loud auditory stimulus, as well as the reinforcement schedule maintaining responses, have a critical role in determining the effect of the stimuli on responding. They also suggest that a loud auditory stimulus can be used as a positive punisher in a choice situation for rats, when the duration of the tone is brief, and the reinforcement schedule maintaining responses is lean.     

Rapid acquisition of preference in concurrent schedules: effects of reinforcement amount

Four pigeons were trained on concurrent variable-interval 30-s schedules. Relative reinforcer amounts arranged across the two alternatives were varied across sessions according to a pseudorandom binary sequence [cf., Hunter, I., Davison, M., 1985. Determination of a behavioral transfer function: white-noise analysis of session-to-session response-ratio dynamics on concurrent VI schedules. J. Exp. Anal. Behav. 43, 43-59]; the ratios (left/right) were either 1/7 or 7/1. Reinforcer amount was manipulated by varying the number of 1.2s hopper presentations. Sessions ended after 30 reinforcers (15 for each alternative). After approximately 30 sessions, response ratios for all pigeons began to track the changes in amount ratio (i.e., subjects' responding showed a moderate increase in sensitivity of responding to reinforcer amount). Characteristics of responding were similar to procedures in which reinforcer rate and immediacy have been manipulated, although sensitivity estimates for amount were lower than those previously obtained with rate and immediacy. This procedure may serve as a useful method for studying the effects of certain environmental manipulations (e.g., drug administration) on sensitivity to reinforcer amount.     

Temporal generalization accounts for response resurgence in the peak procedure

The peak interval (PI) procedure is commonly used to evaluate animals' ability to produce timed intervals. It consists of presenting fixed interval (FI) schedules in which some of the trials are replaced by extended non-reinforced trials. Responding will often resume (resurge) at the end of the non-reinforced trials unless precautions are taken to prevent it. Response resurgence was replicated in rats and pigeons. Variation of the durations of the FI and the non-reinforced probe trials showed it to be dependent on the time when reinforcement is expected. Timing of both the normal time to reinforcement, and the subsequent time to reinforcement during the probe trials followed Weber's law. A quantitative model of resurgence is described, suggesting how animals respond to the signaling properties of reinforcement omission. Model results were simulated using a stochastic binary counter.     

The matching law and effects of reinforcer rate and magnitude on choice in transition

Four pigeons responded in a concurrent-schedule procedure in which reinforcer rates and magnitudes changed unpredictably across sessions according to independent random series. Programmed relative reinforcement rates and magnitudes were always either 2:1 or 1:2. Pigeons' response allocation tended to stabilize within sessions and multiple regression analyses showed that it was determined by rates and magnitudes from the current session. Sensitivity coefficients were positive and statistically significant for current-session reinforcement and magnitude ratios. Although there were individual differences in sensitivity to rate and magnitude, their interaction was not significant across subjects. Rate and magnitude both controlled responding in single sessions and individual interreinforcer intervals. Analyses of responding within sessions showed that preference was more extreme when the richer rate and larger magnitude were associated with the same alternative than when they were associated with different alternatives. Overall, results support the concatenated generalized matching law's assumptions of additivity and independence as applied to choice in transition.     

A further application of the active time model to multiple concurrent variable-interval schedules

In this experiment we show that the active time model (ATM) accurately predicts probe data from multiple concurrent VI VI schedules. Subjects were trained under a concurrent VI 30-s VI 60-s and a concurrent VI 60-s VI 120-s schedule. Two types of unreinforced probes were then conducted. The first paired the two VI 60-s stimuli. These stimuli, while equivalent in their associated absolute rates of reinforcement, differed in their relative rates of reinforcement. The second probe paired the VI 30-s stimulus with the relatively rich VI 60-s stimulus. In contrast with the first probe, these stimuli differed in their absolute rates of reinforcement, while being similar in their relative rates. During the first set of probes, birds preferred the VI 60-s stimulus trained with the VI 120-s schedule. During the second set of probes, birds were indifferent to the two stimuli. These results are less extreme than others reported in the literature. Nonetheless, we found that ATM accurately fit individual subject data in both sets of probes. In contrast a variant of scalar expectancy theory did not fit the data at either the individual or group level.     

Spiking neural network model for memorizing sequences with forward and backward recall

We present an oscillatory network of conductance based spiking neurons of Hodgkin–Huxley type as a model of memory storage and retrieval of sequences of events (or objects). The model is inspired by psychological and neurobiological evidence on sequential memories. The building block of the model is an oscillatory module which contains excitatory and inhibitory neurons with all-to-all connections. The connection architecture comprises two layers. A lower layer represents consecutive events during their storage and recall. This layer is composed of oscillatory modules. Plastic excitatory connections between the modules are implemented using an STDP type learning rule for sequential storage. Excitatory neurons in the upper layer project star-like modifiable connections toward the excitatory lower layer neurons. These neurons in the upper layer are used to tag sequences of events represented in the lower layer. Computer simulations demonstrate good performance of the model including difficult cases when different sequences contain overlapping events. We show that the model with STDP type or anti-STDP type learning rules can be applied for the simulation of forward and backward replay of neural spikes respectively.     

SWORDS: A statistical tool for analysing large DNA sequences

In this article, we present some simple yet effective statistical techniques for analysing and comparing large DNA sequences. These techniques are based on frequency distributions of DNA words in a large sequence, and have been packaged into a software called SWORDS. Using sequences available in public domain databases housed in the Internet, we demonstrate how SWORDS can be conveniently used by molecular biologists and geneticists to unmask biologically important features hidden in large sequences and assess their statistical significance.     

A protocol for rapid isolation of flanking regions from short known sequences

We present a method for rapid isolation of flanking regions from amplified fragment length polymorphism (AFLP) fragments based on thermal asymmetric interlaced (TAIL)-PCR, in which one sequence-specific primer and one degenerate primer derived from an conserved motif found in homologies of the known sequence were used. The final result showed this to be a simple and efficient strategy, especially for short known sequences containing coding regions. Moreover this protocol was especially useful for species with little available genome information such as Hongkong Kumquat (Fortunella hindsii), since most of their genes have known homologies in other species such asArabidopsis and rice.     

一种基于关键路径法的DNA计算用寡核苷酸序列设计算法

在原有的生物大分子序列比对算法的基础上,结合图论中的关健路径法,提出了一种新的计算两寡核苷酸序列间最大配对程度的算法。采用此算法结合生成并测试的方法,能够寻找给定长度的一组适用于DNA计算的寡核苷酸序列。同时采用DNA芯片杂交方法验证了用该算法设计的一组序列的杂交特异性。     

A two-stage model for multiple time series data of counts

We propose a two-stage model for time series data of counts from multiple locations. This method fits first-stage model(s) using the technique of iteratively weighted filtered least squares (IWFLS) to obtain location-specific intercepts and slopes, with possible lagged effects via polynomial distributed lag modeling. These slopes and/or intercepts are then taken to a second-stage mixed-effects meta-regression model in order to stabilize results from various locations. The representation of the models from the stages into a combined mixed-effects model, issues of inference and choices of the parameters in modeling the lag structure are discussed. We illustrate this proposed model via detailed analysis on the effect of air pollution on school absenteeism based on data from the Southern California Children's Health Study.     

A rapid screening technique for the detection of repeated DNA sequences in plant tissues

Summary DNA sequences cloned from nuclear and mitochondrial chromosomes have been used as hybridisation probes to distinguish different plant genotypes. The probes are hybridised to squashed segments of tissue e.g. root tips. The squash-dot method is rapid and suitable for screening large numbers of individual plants. One probe, specific for a rye repeated sequence family, enables rye chromosomes to be detected in wheat plants. A probe for ribosomal DNA enables plants with high or low numbers of ribosomal RNA genes to be distinguished. A maize mitochondrial DNA probe is used to distinguish plants with N, T or S cytoplasms.     

A comparison of 18s ribosomal RNA and rubisco large subunit sequences for studying angiosperm phylogeny

Summary Partial sequences of 18s rRNA were obtained for 2 gymnosperms and 12 angiosperms from a wide range of families and these were analyzed with 5 other published sequences to form a phylogenetic tree. Using 16 published sequences of the large subunit of rubisco (rbcL), also from a wide range of angiosperm families, another phylogenetic tree was derived and the two approaches were compared. Both phylogenetic trees gave good grouping within families but in neither case was there resolution of the branching order of major taxa. Superficially the long rbcL sequences (whose base composition was homogeneous among all species) seemed very promising, but analysis showed that a large proportion of the variation did not affect the amino acid sequence. Although silent substitution contained some phylogenetic information, at the level required to order major taxa, much of it was random and obfuscating. It was concluded that neither macromolecule alone was likely to yield a solution to the problem of angiosperm phylogeny and therefore that studies of both, at least, will be required. For this reason, a method wa described for obtaining both DNA and RNA of good quality from the same preparation and which had been used successfully with a wide range of species including many with pungent leaves.     

A satiation model for the temporal organization of grazing in limpets

1. A compartmental model of the limpet alimentary system was designed to simulate the effects of functional constraints and substrate characteristics on the temporal patterning of grazing in these gastropods. Limitations are imposed by gut capacity and processing time. A maximum operating frequency is set for the radula activity, and a negative feedback on the grazing frequency is related to gut replenishment.
2. When holding constant the 'morphofunctional' parameters of the model, variations in the 'richness' of the substrate (i.e. in the amount of matter extracted per single rasp) generated different patterns of grazing activity, from constant grazing at different frequencies, to the appearance of distinct grazing–non-grazing subphases with a periodicity corresponding to the processing time. Moreover, when varying the digestibility of the matter (i.e. its processing time), temporary saturations were produced.
3. Automatic recording of radula activity in specimens of Patella caerulea L. collected from a Mediterranean boulder beach and transferred to tidal tanks showed that each activity phase (performed during the high-tide period) may be differently structured: from almost continuous grazing, with more or less pronounced and sometimes periodic oscillations, to alternation of grazing and non-grazing subphases. Continuous and non-continuous grazing patterns are shown also by the same specimen during subsequent activity phases.
4. The results of the model are consistent with empirical observations and suggest that satiation events related to the characteristics of the substrate encountered by the limpets when foraging, can produce highly variable grazing patterns with implications for the energetics of foraging in this group of grazers.     

A method for the simultaneous alignment of three or more amino acid sequences

Summary We describe an algorithm for the concurrent comparison of three or more amino acid sequences. The basis of the approach is a progressive evaluation of selected segments from each sequence. Only a small subset of all possible segments from each sequence is compared, and a minimum of information is retained for the trace-back of the alignment. As a result, this method has the advantage of being both rapid and minimally consumptive of computer memory when constructing an alignment. This being the case, there are no practical limits on the length of sequences that may be aligned. A computer program for the alignment of three sequences is described, and this method is compared with two three-sequence extensions of the Needleman and Wunsch variety, including a recently published approach. In addition, we have made simultaneous alignments of sets of four and five sequences with this selected-segment method.