Genotyping Error Detection and Customised Filtration for SNP Datasets.

A major challenge in analysing single-nucleotide polymorphism (SNP) genotype datasets is detecting and filtering errors that bias analyses and misinterpret ecological and evolutionary processes. Here, we present a comprehensive method to estimate and minimise genotyping error rates (deviations from the 'true' genotype) in any SNP datasets using triplicates (three repeats of the same sample) in a four-step filtration pipeline. The approach involves: (1) SNP filtering by missing data; (2) SNP filtering by error rates; (3) sample filtering by missing data and (4) detection of recaptured individuals by using estimated SNP error rates.

Using recurrent neural network to estimate irreducible stochasticity in human choice behavior.

Theoretical computational models are widely used to describe latent cognitive processes. However, these models do not equally explain data across participants, with some individuals showing a bigger predictive gap than others. In the current study, we examined the use of theory-independent models, specifically recurrent neural networks (RNNs), to classify the source of a predictive gap in the observed data of a single individual.

The influence of COVID-19 on attention-deficit/hyperactivity disorder diagnosis and treatment rates across age, gender, and socioeconomic status: A 20-year national cohort study.

Infection and lockdowns resulting from COVID-19 have been suggested to increase the prevalence and treatment rates of Attention Deficit/Hyperactivity Disorder (ADHD). To accurately estimate the pandemic's effects, pre-pandemic data can be used to estimate diagnosis and treatment rates during the COVID-19 years as if the COVID-19 pandemic did not occur. However, accurate predictions require a broad dataset, both in terms of the number of cases and the pre-pandemic timeframe.

High frequency of MEFV disease-causing variants in children with very-early-onset inflammatory bowel disease.

Background: Biological similarities between inflammatory bowel disease (IBD) and familial Mediterranean fever (FMF) have been described in humans and animal models suggesting a possible common genetic basis. FMF is caused by variants in the MEFV gene which encodes pyrin, an immune regulator. This study aimed to investigate the carrier rate of disease-causing MEFV variants in children of different ethnicities diagnosed with very-early-onset IBD (VEO-IBD).

Disentangling the contribution of individual and social learning processes in human advice-taking behavior.

The study of social learning examines how individuals learn from others by means of observation, imitation, or compliance with advice. However, it still remains largely unknown whether social learning processes have a distinct contribution to behavior, independent from non-social trial-and-error learning that often occurs simultaneously. 153 participants completed a reinforcement learning task, where they were asked to make choices to gain rewards.

Exploring the steps of learning: computational modeling of initiatory-actions among individuals with attention-deficit/hyperactivity disorder.

Attention-deficit/hyperactivity disorder (ADHD) is characterized by difficulty in acting in a goal-directed manner. While most environments require a sequence of actions for goal attainment, ADHD was never studied in the context of value-based sequence learning. Here, we made use of current advancements in hierarchical reinforcement-learning algorithms to track the internal value and choice policy of individuals with ADHD performing a three-stage sequence learning task.

Harnessing the flexibility of neural networks to predict dynamic theoretical parameters underlying human choice behavior.

Reinforcement learning (RL) models are used extensively to study human behavior. These rely on normative models of behavior and stress interpretability over predictive capabilities. More recently, neural network models have emerged as a descriptive modeling paradigm that is capable of high predictive power yet with limited interpretability.

Fruit bats adjust their decision-making process according to environmental dynamics.

One of the main functions of behavioral plasticity lies in the ability to contend with dynamic environments. Indeed, while numerous studies have shown that animals adapt their behavior to the environment, how they adapt their latent learning and decision strategies to changes in the environment is less understood. Here, we used a controlled experiment to examine the bats' ability to adjust their decision strategy according to the environmental dynamics.

An experimental design for obtaining DNA of a target species and its diet from a single non-invasive genetic protocol.

Next-generation sequencing technology has enabled accurate insights into the diet of wildlife species. The protocols for faecal sample collection and DNA extraction for diet analysis have differed from those focusing on target species, even in most studies combining questions on both aspects. We designed an experiment to evaluate two protocols using 11 parameters and select a single one that will generate both target species (Asiatic wild ass, , in Israel) and diet DNA, as an effective strategy to minimise time, effort, and cost without hampering efficiency.

Computational mechanisms underlying latent value updating of unchosen actions.

Current studies suggest that individuals estimate the value of their choices based on observed feedback. Here, we ask whether individuals also update the value of their unchosen actions, even when the associated feedback remains unknown. One hundred seventy-eight individuals completed a multi-armed bandit task, making choices to gain rewards.

Bartonella infections are prevalent in rodents despite efficient immune responses.

Background: Pathogens face strong selection from host immune responses, yet many host populations support pervasive pathogen populations. We investigated this puzzle in a model system of Bartonella and rodents from Israel's northwestern Negev Desert. We chose to study this system because, in this region, 75-100% of rodents are infected with Bartonella at any given time, despite an efficient immunological response.

Distinct reinforcement learning profiles distinguish between language and attentional neurodevelopmental disorders.

Background: Theoretical models posit abnormalities in cortico-striatal pathways in two of the most common neurodevelopmental disorders (Developmental dyslexia, DD, and Attention deficit hyperactive disorder, ADHD), but it is still unclear what distinct cortico-striatal dysfunction might distinguish language disorders from others that exhibit very different symptomatology. Although impairments in tasks that depend on the cortico-striatal network, including reinforcement learning (RL), have been implicated in both disorders, there has been little attempt to dissociate between different types of RL or to compare learning processes in these two types of disorders. The present study builds upon prior research indicating the existence of two learning manifestations of RL and evaluates whether these processes can be differentiated in language and attention deficit disorders.

Formation of non-veridical action-outcome associations following exposure to threat-related cues.

Acting in a goal-directed manner requires an ability to accurately predict the outcomes of one's actions. However, not much is known regarding how threat-related cues influence our ability to form action-outcome associations according to the environment's known causal structure. Here, we examined the extent to which threat-related cues influence individuals' tendency to form and act in accordance with action-outcome associations that do not exist in the external environment (i.

Working memory capacity estimates moderate value learning for outcome-irrelevant features.

To establish accurate action-outcome associations in the environment, individuals must refrain from assigning value to outcome-irrelevant features. However, studies have largely ignored the role of attentional control processes on action value updating. In the current study, we examined the extent to which working memory-a system that can filter and block the processing of irrelevant information in one's mind-also filters outcome-irrelevant information during value-based learning.

Compulsivity is linked to reduced adolescent development of goal-directed control and frontostriatal functional connectivity.

A characteristic of adaptive behavior is its goal-directed nature. An ability to act in a goal-directed manner is progressively refined during development, but this refinement can be impacted by the emergence of psychiatric disorders. Disorders of compulsivity have been framed computationally as a deficit in model-based control, and have been linked also to abnormal frontostriatal connectivity.

Inhibiting the inhibitors: Targeting anti-apoptotic proteins in cancer and therapy resistance.

The cytotoxic effect of anti-cancer drugs relies on their ability to induce programmed cell death known as apoptosis. Evading apoptosis is a common characteristic of cancer cells and it is linked to both carcinogenesis and anticancer drug resistance. To escape apoptosis, cancer cells often express high levels of anti-apoptotic proteins and become "addicted "to them for their survival.

The Integration of Multiple Nuclear-Encoded Transgenes in the Green Alga Results in Higher Transcription Levels.

The integration of genes into the nuclear genome of is mediated by Non-Homologous-End-Joining, thus resulting in unpredicted insertion locations. This phenomenon defines 'the position-effect', which is used to explain the variation of expression levels between different clones transformed with the same DNA fragment. Likewise, nuclear transgenes often undergo epigenetic silencing that reduces their expression; hence, nuclear transformations require high-throughput screening methods to isolate clones that express the foreign gene at a desirable level.

Solving the Riddle of the Evolution of Shine-Dalgarno Based Translation in Chloroplasts.

Chloroplasts originated from an ancient cyanobacterium and still harbor a bacterial-like genome. However, the centrality of Shine-Dalgarno ribosome binding, which predominantly regulates proteobacterial translation initiation, is significantly decreased in chloroplasts. As plastid ribosomal RNA anti-Shine-Dalgarno elements are similar to their bacterial counterparts, these sites alone cannot explain this decline.

Loss of SMPD4 Causes a Developmental Disorder Characterized by Microcephaly and Congenital Arthrogryposis.

Sphingomyelinases generate ceramide from sphingomyelin as a second messenger in intracellular signaling pathways involved in cell proliferation, differentiation, or apoptosis. Children from 12 unrelated families presented with microcephaly, simplified gyral pattern of the cortex, hypomyelination, cerebellar hypoplasia, congenital arthrogryposis, and early fetal/postnatal demise. Genomic analysis revealed bi-allelic loss-of-function variants in SMPD4, coding for the neutral sphingomyelinase-3 (nSMase-3/SMPD4).

Credit assignment to state-independent task representations and its relationship with model-based decision making.

Model-free learning enables an agent to make better decisions based on prior experience while representing only minimal knowledge about an environment's structure. It is generally assumed that model-free state representations are based on outcome-relevant features of the environment. Here, we challenge this assumption by providing evidence that a putative model-free system assigns credit to task representations that are irrelevant to an outcome.