A two-stage model for concurrent sequences

Schneider and Davison [Schneider, S.M., Davison, M., 2005. Demarcated response sequences and the generalised matching law. Behav. Proc. 70, 51–61] showed that the generalised matching law applied to concurrent free-operant two-response sequences. When sufficient temporal spacing is required between the responses, however, neither the response-level nor the sequence-level forms of the generalised matching law provide good fits. An alternative “two-stage sensitivity” model with fewer free parameters features two types of sensitivity to the reinforcement contingencies on sequences. When temporal spacing between the responses is long, the “response distribution sensitivity” parameter describes sensitivity only of the individual responses to the sequence-level contingencies. At a threshold level, this sensitivity reaches a maximum. When spacing is shorter than threshold, the “response order sensitivity” parameter reflects a new sensitivity to the order of the responses within sequences. As this sensitivity approaches its maximum, sequence matching is achieved. For both stages, a changeover parameter describes bias against sequences that require changeovers between the two responses. The model fit data ranging from near-response matching with long minimum inter-response times (IRTs) to sequence matching with no minimum IRTs, using two species and a variety of sequence reinforcer distributions. Rats differed from pigeons in achieving sequence matching only at a nonzero minimum IRT. In a comparison based on pigeon data with no minimum IRT, the two-stage sensitivity model was more efficient than the generalised matching law according to the Akaike criterion. The logic of the model suggests a new way of understanding the mechanisms underlying behavioural units.     

Matching and ideal free distributions

Ideal free distributions characterise how a group of animals should be distributed between sources of food. In a simple case, the ratio of the number of animals matches the ratio of input rates, a result known as input matching. The matching law characterises how an animal should allocate responses to sources of food. If matching holds then the ratio of behaviour allocated to the sources matches the ratio of rewards obtained. Several authors have drawn attention to the analogy between input matching and the matching law. I present a critical review of this topic, and go on to investigate the claim that the distribution of animals should be analyzed in the same way that the generalized matching law is analyzed. This involves assuming that the relationship between the ratio of animals and the ratio of resources obeys a power law with two parameters, one corresponding to bias and the other to sensitivity. On this view, a plot of the log of the ratio of animals against the log of the ratio of input rates will be a straight line and its intercept and slope will provide estimates of bias and sensitivity. I show that this approach can give a good fit even when the underlying model does not result in a power law. A consequence is that the parameters estimated cannot be interpreted as bias and sensitivity. I conclude that there are no compelling reasons for analyzing the distribution of animals using log-log plots, and the method has the disadvantage of encouraging the mistaken view that deviations from input matching follow a power law.     

Quantitative analyses of observing and attending

We review recent experiments examining whether simple models of the allocation and persistence of operant behavior are applicable to attending. In one series of experiments, observing responses of pigeons were used as an analog of attending. Maintenance of observing is often attributed to the conditioned reinforcing effects of a food-correlated stimulus (i.e., S+), so these experiments also may inform our understanding of conditioned reinforcement. Rates and allocations of observing were governed by rates of food or S+ delivery in a manner consistent with the matching law. Resistance to change of observing was well described by behavioral momentum theory only when rates of primary reinforcement in the context were considered. Rate and value of S+ deliveries did not affect resistance to change. Thus, persistence of attending to stimuli appears to be governed by primary reinforcement rates in the training context rather than conditioned reinforcing effects of the stimuli. An additional implication of these findings is that conditioned "reinforcers" may affect response rates through some mechanism other than response-strengthening. In a second series of experiments, we examined the applicability of the matching law to the allocation of attending to the elements of compound stimuli in a divided-attention task. The generalized matching law described performance well, and sensitivity to relative reinforcement varied with sample duration. The bias and sensitivity terms of the generalized matching law may provide measures of stimulus-driven and goal-driven control of divided attention. Further application of theories of operant behavior to performance on attention tasks may provide insights into what is referred to variously as endogenous, top-down, or goal-directed control of attention.     

基因外显子连接序列与相应内含子序列的相互作用

剪接后的内含子与相应mRNA序列的相互作用在基因表达调控过程中起着非常重要的作用。基于27个物种的核糖核蛋白基因序列,采用Smith—Waterman局域比对方法得到外显子连接序列与相应内含子序列的最佳匹配片段,分析了外显子连接序列上的匹配频率分布和匹配片段的序列特征。发现一些低等真核生物EJC结合区域的匹配频率明显低于其它区域,所有物种EJC结合区域的序列构成呈现出相对低的结构序。最佳匹配片段的平均长度和配对率分布与siRNA和miRNA的结合特征相同。推测EJC和内含子在与外显子序列结合的过程中存在相互竞争和相互协作的关系,内含子中部序列在基因表达调控过程中起着重要的作用。     

Biphasic response of the human nervous system to geomagnetic storms studied by EEG

In two subjects: a male phlegmatic, 56, and a female melancholic, 22, the EEG was recorded at resting. The EEG patterns were juxtaposed with the geomagnetic activity index Ar and the solar activity index SF, as well as between themselves. The results revealed qualitatively similar biphasic responses: a generalised diminishing of the EEG spatial synchronisation and, on the next day, a generalised augmentation of the phenomenon, as compared with a prolonged quiet period. A general unspecific stress response is supposed to underlie the aforementioned dynamics, whereas a reduced cortical tone during a magnetic storm and an enhanced one after its cessation correspond to the two phases observed. Specifics of responses in both subjects corresponded to their individual profiles of interhemisphere asymmetry.     

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.     

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.     

Perceptual expertise in forensic facial image comparison

Forensic facial identification examiners are required to match the identity of faces in images that vary substantially, owing to changes in viewing conditions and in a person''s appearance. These identifications affect the course and outcome of criminal investigations and convictions. Despite calls for research on sources of human error in forensic examination, existing scientific knowledge of face matching accuracy is based, almost exclusively, on people without formal training. Here, we administered three challenging face matching tests to a group of forensic examiners with many years'' experience of comparing face images for law enforcement and government agencies. Examiners outperformed untrained participants and computer algorithms, thereby providing the first evidence that these examiners are experts at this task. Notably, computationally fusing responses of multiple experts produced near-perfect performance. Results also revealed qualitative differences between expert and non-expert performance. First, examiners'' superiority was greatest at longer exposure durations, suggestive of more entailed comparison in forensic examiners. Second, experts were less impaired by image inversion than non-expert students, contrasting with face memory studies that show larger face inversion effects in high performers. We conclude that expertise in matching identity across unfamiliar face images is supported by processes that differ qualitatively from those supporting memory for individual faces.     

Body masses,functional responses and predator–prey stability

The stability of ecological communities depends strongly on quantitative characteristics of population interactions (type‐II vs. type‐III functional responses) and the distribution of body masses across species. Until now, these two aspects have almost exclusively been treated separately leaving a substantial gap in our general understanding of food webs. We analysed a large data set of arthropod feeding rates and found that all functional‐response parameters depend on the body masses of predator and prey. Thus, we propose generalised functional responses which predict gradual shifts from type‐II predation of small predators on equally sized prey to type‐III functional‐responses of large predators on small prey. Models including these generalised functional responses predict population dynamics and persistence only depending on predator and prey body masses, and we show that these predictions are strongly supported by empirical data on forest soil food webs. These results help unravelling systematic relationships between quantitative population interactions and large‐scale community patterns.     

Pattern matching between two non-aligned random sequences

Given two independent sequences of letters, we seek the probability distribution of the length of the longest matching word. This word can be in different positions in the two sequences and we consider both perfect and nearly perfect matching. We derive bounds and approximations for the probability and compare them with other bounds and approximations. The results can be applied to DNA sequences in molecular biology and generalized matching between two independent random sequences.     

The mixed xylem sap proteome of Fusarium oxysporum-infected tomato plants

Secreted proteins are known to play decisive roles in plant–fungus interactions. To study the molecular details of the interaction between the xylem-colonizing, plant-pathogenic fungus Fusarium oxysporum and tomato, the composition of the xylem sap proteome of infected tomato plants was investigated and compared with that of healthy plants. Two-dimensional gel separation and mass spectrometry yielded peptide masses and peptide sequences of 33 different proteins. Despite the absence of complete genome sequences of either tomato or F. oxysporum , 21 proteins were identified as tomato proteins and seven as fungal proteins. Thirteen of the tomato proteins were specific for infected plants. Sixteen tomato proteins were found in xylem sap for the first time, four of which were identified based on matches to expressed sequences only. Coding sequences for new proteins from F. oxysporum were identified through either direct matching to a database sequence, matching of peptide sequences to genome or expressed sequence tag databases of other Fusarium species, or PCR with degenerate primers on cDNA derived from infected plants followed by screening of a F. oxysporum BAC library. Together, these findings provide an excellent basis for further exploration of the interaction between xylem-colonizing pathogens and their hosts.     

Momentary maximizing and optimal foraging theories of performance on concurrent VR schedules

Optimal foraging theory proposes that animals obtain the highest rate of reinforcers for the least effort and momentary maximizing theory proposes that animals make the response that at that instant is most likely to be reinforced. While each theory may account for matching on concurrent schedules, the data supporting each theory are weak. Two experiments assessed these theories by considering concurrent choice as consisting of two pairs of stay and switch schedules. Symmetrical arrangements, which are equivalent to standard concurrent schedules, maintained behavior described by the generalized matching law. Weighted arrangements, in which the programmed rate of earning reinforcers was always greater at one alternative, maintained behavior that was biased towards the weighted alternative, yet the bias was less than that predicted by optimal foraging theory. Asymmetrical arrangements, in which the stay and switch schedules operating at an alternative are the same, maintained behavior that favored one alternative, even though momentary maximizing predicted indifference. The generalized matching law poorly described each rat's pooled data from all conditions but these data were described by an equation based on the stay and switch reinforcers earned per-visit and included elements of optimal foraging and momentary maximizing theories of choice.     

Proteome analysis of the leukocytes from the American alligator (Alligator mississippiensis) using mass spectrometry

Mass spectrometry was used in conjunction with gel electrophoresis and liquid chromatography, to determine peptide sequences from American alligator (Alligator mississippiensis) leukocytes and to identify similar proteins based on homology. The goal of the study was to generate an initial database of proteins related to the alligator immune system. We have adopted a typical proteomics approach for this study. Proteins from leukocyte extracts were separated using two-dimensional gel electrophoresis and the major bands were excised, digested and analyzed by on-line nano-LC MS/MS to generate peptide sequences. The sequences generated were used to identify proteins and characterize their functions. The protein identity and characterization of the protein function were based on matching two or more peptides to the same protein by searching against the NCBI database using MASCOT and Basic Local Alignment Search Tool (BLAST). For those proteins with only one peptide matching, the phylum of the matched protein was considered. Forty-three proteins were identified that exhibit sequence similarities to proteins from other vertebrates. Proteins related to the cytoskeletal system were the most abundant proteins identified. These proteins are known to regulate cell mobility and phagocytosis. Several other peptides were matched to proteins that potentially have immune-related function.     

The occurrence in amino acid sequences of extensive informational symmetries based on possible codon-codon complementarity in the encoding polynucleotides.

1. A procedure is described for the detection and assessment of informational complementarity in an amino acid sequence; it is based on possible autocomplementarity in the mRNA, and involves codon-to-codon matching. 2. This procedure was applied to myelin basic protein, a variety of protamines, histone IV, silk fibroin, rat skin collagen alpha1 chain and a sheep keratin. A multiplicity of extensive low-probability informational symmetries, based on codon-to-codon matching, were detected. 3. These low-probability orderings, which are independent of the actual mRNA codons, are rationalized in terms of the evolutionary ordering of the amino acid sequences concerned, in such a way that constraints on the secondary structure of the coding polynucleotides were satisfied. This possible interpretation is supported by a number of significant common properties of the protein sequences analysed.     

Response sequence difficulty in an incremental repeated acquisition (learning) procedure

Incremental repeated acquisition (IRA) procedures require subjects to learn a different sequence of behavioral responses during each experimental session with required response sequences increasing incrementally in length as subjects demonstrate mastery of shorter response chains. The purpose of this study was to investigate whether some response sequences are more or less difficult to acquire than others. If true, then sequence difficulty must be considered as a potential confound when attempting to assess the effects of drugs and other experimental manipulations on learning. Accuracy for each response sequence was assessed using control data from two large rodent studies, and each sequence was classified as easy, moderate or hard. Sequences that required responses on adjacent levers were easier (characterized by higher accuracies) to acquire than those that required responses on non-adjacent levers. In addition, sequences that required responses on only two of three response levers were easier to acquire than those that required responses on all three levers. These results provide strong evidence for differing levels of response sequence difficulty in IRA procedures with sequence difficulty seeming to be dependent on whether or not responses are required on adjacent levers.     

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.     

Behavior as a social construction

Behavior analysis is examined from a social constructionist perspective. Constructionism is first defined and contrasted with a generic positivistic image of science. Behavior analysis, especially the matching law, is then viewed from both perspectives. The actual practice of behavior analysis (as opposed to the philosophy of radical behaviorism) more strongly resembles positivist than constructionist views. This alignment between behavior analysis and positivism emerges more sharply when positivist and constructionist perspectives are compared on the relation between science and music. Charles Rosen has identified how the classical style of musical composition and performance depended on 18th century keyboard technology, and a constructionist view sees the matching law as reflecting mid 20th century technology and culture in much the same way as it sees, say Mozart's 23rd piano concerto, as reflecting late 18th century culture. Behavior analysts, who often behave as though they see the matching law as an objective, impersonal, stable, hard, cold, incontrovertibly true fact, appear more inclined than constructionists to see a fundamental difference between the matching law and Mozart's 23rd piano concerto, to which they would attribute few if any of these characteristics. Possible implications are derived for tolerance in science.     

An efficient method for matching nucleic acid sequences.

A method of computing the fraction of matches between two nucleic acid sequences at all possible alignments is described. It makes use of the Fast Fourier Transform. It should be particularly efficient for very long sequences, achieving its result in a number of operations proportional to n ln n, where n is the length of the longer of the two sequences. Though the objective achieved is of limited interest, this method will complement algorithms for efficiently finding the longest matching parts of two sequences, and is faster than existing algorithms for finding matches allowing deletions and insertions. A variety of economies can be achieved by this Fast Fourier Transform technique in matching multiple sequences, looking for complementarity rather than identity, and matching the same sequences both in forward and reversed orientations.