Physicochemical analysis of rotavirus segment 11 supports a 'modified panhandle' structure and not the predicted alternative tRNA-like structure (TRLS)

.Rotaviruses are a major cause of acute gastroenteritis, which is often fatal in infants. The viral genome consists of 11 double-stranded RNA segments, but little is known about their cis-acting sequences and structural elements. Covariation studies and phylogenetic analysis exploring the potential structure of RNA11 of rotaviruses suggested that, besides the previously predicted "modified panhandle" structure, the 5' and 3' termini of one of the isoforms of the bovine rotavirus UKtc strain may interact to form a tRNA-like structure (TRLS). Such TRLSs have been identified in RNAs of plant viruses, where they are important for enhancing replication and packaging. However, using tRNA mimicry assays (in vitro aminoacylation and 3'- adenylation), we found no biochemical evidence for tRNA-like functions of RNA11. Capping, synthetic 3' adenylation and manipulation of divalent cation concentrations did not change this finding. NMR studies on a 5'- and 3'-deletion construct of RNA11 containing the putative intra-strand complementary sequences supported a predominant panhandle structure and did not conform to a cloverleaf fold despite the strong evidence for a predicted structure in this conserved region of the viral RNA. Additional viral or cellular factors may be needed to stabilise it into a form with tRNA-like properties

Probabilities, causation, and logic programming in conditional reasoning: reply to Stenning and Van Lambalgen (2016)

Oaksford and Chater (2014, Thinking and Reasoning, 20, 269–295) critiqued the logic programming (LP) approach to nonmonotonicity and proposed that a Bayesian probabilistic approach to conditional reasoning provided a more empirically adequate theory. The current paper is a reply to Stenning and van Lambalgen's rejoinder to this earlier paper entitled ‘Logic programming, probability, and two-system accounts of reasoning: a rejoinder to Oaksford and Chater’ (2016) in Thinking and Reasoning. It is argued that causation is basic in human cognition and that explaining how abnormality lists are created in LP requires causal models. Each specific rejoinder to the original critique is then addressed. While many areas of agreement are identified, with respect to the key differences, it is concluded the current evidence favours the Bayesian approach, at least for the moment

The origins of belonging : Social motivation in infants and young children

Our reliance on our group members has exerted a profound influence over our motivation: successful group functioning requires that we are motivated to interact, and engage, with those around us. In other words, we need to belong. In this article, I explore the developmental origins of our need to belong. I discuss existing evidence that, from early in development, children seek to affiliate with others and to form long-lasting bonds with their group members. Furthermore, when children are deprived of a sense of belonging, it has negative consequences for their well-being. This focus on social motivation enables us to examine why and in what circumstances children engage in particular behaviours. It thus provides an important complement to research on social cognition. In doing so, it opens up important questions for future research and provides a much-needed bridge between developmental and social psychology

Probabilistic single function dual process theory and logic programming as approaches to non-monotonicity in human vs. artificial reasoning

In this paper, it is argued that single function dual process theory is a more credible psychological account of non-monotonicity in human conditional reasoning than recent attempts to apply logic programming (LP) approaches in artificial intelligence to these data. LP is introduced and among other critiques, it is argued that it is psychologically unrealistic in a similar way to hash coding in the classicism vs. connectionism debate. Second, it is argued that causal Bayes nets provide a framework for modelling probabilistic conditional inference in System 2 that can deal with patterns of inference LP cannot. Third, we offer some speculations on how the cognitive system may avoid problems for System 1 identified by Fodor in 1983. We conclude that while many problems remain, the probabilistic single function dual processing theory is to be preferred over LP as an account of the non-monotonicity of human reasoning

Ripples in a pond: Do social work students need to learn about terrorism?

In the face of heightened awareness of terrorism, however it is defined, the challenges for social work are legion. Social work roles may include working with the military to ensure the well-being of service-men and women and their families when bereaved or injured, as well as being prepared to support the public within the emergency context of an overt act of terrorism. This paper reviews some of the literature concerning how social work responds to confl ict and terrorism before reporting a smallscale qualitative study examining the views of social work students, on a qualifying programme in the UK, of terrorism and the need for knowledge and understanding as part of their education

Empirical Analysis of Factors Affecting Confirmation Bias Levels of Software Engineers

Confirmation bias is defined as the tendency of people to seek evidence that verifies a hypothesis rather than seeking evidence to falsify it. Due to the confirmation bias, defects may be introduced in a software product during requirements analysis, design, implementation and/or testing phases. For instance, testers may exhibit confirmatory behavior in the form of a tendency to make the code run rather than employing a strategic approach to make it fail. As a result, most of the defects that have been introduced in the earlier phases of software development may be overlooked leading to an increase in software defect density. In this paper, we quantify confirmation bias levels in terms of a single derived metric. However, the main focus of this paper is the analysis of factors affecting confirmation bias levels of software engineers. Identification of these factors can guide project managers to circumvent negative effects of confirmation bias, as well as providing guidance for the recruitment and effective allocation of software engineers. In this empirical study, we observed low confirmation bias levels among participants with logical reasoning and hypothesis testing skills

High prevalence of potential biases threatens the interpretation of trials in patients with chronic disease

BACKGROUND: The complexity of chronic diseases is a challenge for investigators conducting randomized trials. The causes for this include the often difficult control for confounding, the selection of outcomes from many potentially important outcomes, the risk of missing data with long follow-up and the detection of heterogeneity of treatment effects. Our aim was to assess such aspects of trial design and analysis for four prevalent chronic diseases. METHODS: We included 161 randomized trials on drug and non-drug treatments for chronic obstructive pulmonary disease, type 2 diabetes mellitus, stroke and heart failure, which were included in current Cochrane reviews. We assessed whether these trials defined a single outcome or several primary outcomes, statistically compared baseline characteristics to assess comparability of treatment groups, reported on between-group comparisons, and we also assessed how they handled missing data and whether appropriate methods for subgroups effects were used. RESULTS: We found that only 21% of all chronic disease trials had a single primary outcome, whereas 33% reported one or more primary outcomes. Two of the fifty-one trials that tested for statistical significance of baseline characteristics adjusted the comparison for a characteristic that was significantly different. Of the 161 trials, 10% reported a within-group comparison only; 17% (n = 28) of trials reported how missing data were handled (50% (n = 14) carried forward last values, 27% (n = 8) performed a complete case analysis, 13% (n = 4) used a fixed value imputation and 10% (n = 3) used more advanced methods); and 27% of trials performed a subgroup analysis but only 23% of them (n = 10) reported an interaction test. Drug trials, trials published after wide adoption of the CONSORT (CONsolidated Standards of Reporting Trials) statement (2001 or later) and trials in journals with higher impact factors were more likely to report on some of these aspects of trial design and analysis. CONCLUSION: Our survey showed that an alarmingly large proportion of chronic disease trials do not define a primary outcome, do not use appropriate methods for subgroup analyses, or use naïve methods to handle missing data, if at all. As a consequence, biases are likely to be introduced in many trials on widely prescribed treatments for patients with chronic disease

Physical Attractiveness and Altruism in Two Modified Dictator Games

Several studies find that male individuals are more altruistic toward attractive women, suggesting altruism may serve as a courtship display. Many studies exploring this phenomenon have used vignettes and facial images. We tested the sexual selection hypothesis as an explanation for altruistic behavior, where players played the dictator game with “live” participants. Two studies were conducted (Study 1, n = 212; Study 2, n = 188) where we manipulated stakes and anonymity between participants to explore the relationship between the dictator’s allocations and their perceived attractiveness of the recipient. We found no relationship between attractiveness and altruism. Dictators were consistently fair when allocating stakes, irrespective of the recipients’ attractiveness

Older People, Loss, and Loneliness: The Troublesome Nature of Increased Contact With Adult Children

Older people may experience considerable loss when they endure emotional or social loneliness. Emotional loneliness is related to the loss or absence of a confidant whilst social loneliness describes the discrepancy between the nature of one’s desired and actual social network. In this article, both concepts are examined in relation to new attendees at time-limited day centre reablement programmes in Northern Ireland. Using group work activities, reablement programmes aim to motivate participants to continue to live independently, often in the face of later life losses. Out of a total of 91 initial respondents (range 61-94), 13 lived with adult children (ten of whom were lone parents). Those living with, or who had daily contact with, adult children had significantly higher levels of emotional loneliness at the start of their programme, but not at the end. For this sample, reductions in emotional loneliness in certain cohorts of older adults who attend these programmes has been identified. In conclusion, it is proposed that fourth age losses mediate older people’s living arrangement and may create greater vulnerability to emotional loneliness in those living with adult children. Additionally, social groups may be effective in helping reduce emotional loneliness