Student Use and Perceptions of Embedded Formative Assessments in a Basic Science Veterinary Program.

This work describes the implementation of online timed closed-book formative assessments across several modules of a first-year undergraduate veterinary program. This process does not require significant time investment since it can be implemented into existing programs of study. Students were surveyed on how they used these formative assessments for learning and overall, were overwhelmingly positive about the opportunity to practice and receive feedback on their performance. Quantitative statistics on preferences as well as qualitative thematic analysis of open free-text questions reveal clear preferences in how they choose to engage with the assessments for learning, as well as how they prefer assessments to be administered. Students were positive about the online nature of the exams and prefer formative assessments to be distributed across the teaching semesters without any time restrictions, allowing them to be completed as and when they choose. Immediate feedback in the form of model answers is the students' preference, although some value signposting to relevant resources for further research. Furthermore, students report that they want more questions and tests to complement their learning, and overwhelming rely on guided and structured activities for learning and revision which will need to be balanced with opportunities to develop critical thinking and independent learning skills when studying in a professional course, given students are not likely to default into such behavior. This work models a process many curriculum designers have, and continue to undergo in higher education as online, hybrid, and blended approaches to teaching have received renewed interest.

Causality and continuity close the gaps in event representations.

Imagine you see a video of someone pulling back their leg to kick a soccer ball, and then a soccer ball soaring toward a goal. You would likely infer that these scenes are two parts of the same event, and this inference would likely cause you to remember having seen the moment the person kicked the soccer ball, even if that information was never actually presented (Strickland & Keil, 2011, Cognition, 121[3], 409-415). What cues trigger people to "fill in" causal events from incomplete information? Is it due to the experience they have had with soccer balls being kicked toward goals? Is it the visual similarity of the object in both halves of the video? Or is it the mere spatiotemporal continuity of the event? In three experiments, we tested these different potential mechanisms underlying the "filling-in" effect. Experiment 1 showed that filling in occurs equally in familiar and unfamiliar contexts, indicating that familiarity with specific event schemas is unnecessary to trigger false memory. Experiment 2 showed that the visible continuation of a launched object's trajectory is all that is required to trigger filling in, regardless of other occurrences in the second half of the scene. Finally, Experiment 3 found that, using naturalistic videos, this filling-in effect is more heavily affected if the object's trajectory is discontinuous in space/time compared with if the object undergoes a noticeable transformation. Together, these findings indicate that the spontaneous formation of causal event representations is driven by object representation systems that prioritize spatiotemporal information over other object features.

Conservation of ultrafast photoprotective mechanisms with increasing molecular complexity in sinapoyl malate derivatives.

Sinapoyl malate is a natural plant sunscreen molecule which protects leaves from harmful ultraviolet radiation. Here, the ultrafast dynamics of three sinapoyl malate derivatives, sinapoyl L-dimethyl malate, sinapoyl L-diethyl malate and sinapoyl L-di-t-butyl malate, have been studied using transient electronic absorption spectroscopy, in a dioxane and methanol solvent environment to investigate how well preserved these dynamics remain with increasing molecular complexity. In all cases it was found that, upon photoexcitation, deactivation occurs via a trans-cis isomerisation pathway within ∼20-30 ps. This cis-photoproduct, formed during photodeactivation, is stable and longed-lived for all molecules in both solvents. The incredible levels of conservation of the isomerisation pathway with increased molecular complexity demonstrate the efficacy of these molecules as ultraviolet photoprotectors, even in strongly perturbing solvents. As such, we suggest these molecules might be well-suited for augmentations to further improve their photoprotective efficacy or chemical compatibility with other components of sunscreen mixtures, whilst conserving their underlying photodynamic properties.

A Step-by-Step Guide to Using BioNetFit.

BioNetFit is a software tool designed for solving parameter identification problems that arise in the development of rule-based models. It solves these problems through curve fitting (i.e., nonlinear regression). BioNetFit is compatible with deterministic and stochastic simulators that accept BioNetGen language (BNGL)-formatted files as inputs, such as those available within the BioNetGen framework. BioNetFit can be used on a laptop or stand-alone multicore workstation as well as on many Linux clusters, such as those that use the Slurm Workload Manager to schedule jobs. BioNetFit implements a metaheuristic population-based global optimization procedure, an evolutionary algorithm (EA), to minimize a user-defined objective function, such as a residual sum of squares (RSS) function. BioNetFit also implements a bootstrapping procedure for determining confidence intervals for parameter estimates. Here, we provide step-by-step instructions for using BioNetFit to estimate the values of parameters of a BNGL-encoded model and to define bootstrap confidence intervals. The process entails the use of several plain-text files, which are processed by BioNetFit and BioNetGen. In general, these files include (1) one or more EXP files, which each contains (experimental) data to be used in parameter identification/bootstrapping; (2) a BNGL file containing a model section, which defines a (rule-based) model, and an actions section, which defines simulation protocols that generate GDAT and/or SCAN files with model predictions corresponding to the data in the EXP file(s); and (3) a CONF file that configures the fitting/bootstrapping job and that defines algorithmic parameter settings.

NGS-based methylation profiling differentiates TCF3-HLF and TCF3-PBX1 positive B-cell acute lymphoblastic leukemia.

AIM: To determine whether methylation differences between mostly fatal TCF3-HLF and curable TCF3-PBX1 pediatric acute lymphoblastic leukemia subtypes can be associated with differential gene expression and remission. MATERIALS & METHODS: Five (extremely rare) TCF3-HLF versus five (very similar) TCF3-PBX1 patients were sampled before and after remission and analyzed using reduced representation bisulfite sequencing and RNA-sequencing. RESULTS: We identified 7000 differentially methylated CpG sites between subtypes, of which 78% had lower methylation levels in TCF3-HLF. Gene expression was negatively correlated with CpG sites in 23 genes. KBTBD11 clearly differed in methylation and expression between subtypes and before and after remission in TCF3-HLF samples. CONCLUSION: KBTBD11 hypomethylation may be a promising potential target for further experimental validation especially for the TCF3-HLF subtype.

Through the eyes of a child: preschoolers' identification of emotional expressions from the child affective facial expression (CAFE) set.

Researchers have been interested in the perception of human emotional expressions for decades. Importantly, most empirical work in this domain has relied on controlled stimulus sets of adults posing for various emotional expressions. Recently, the Child Affective Facial Expression (CAFE) set was introduced to the scientific community, featuring a large validated set of photographs of preschool aged children posing for seven different emotional expressions. Although the CAFE set was extensively validated using adult participants, the set was designed for use with children. It is therefore necessary to verify that adult validation applies to child performance. In the current study, we examined 3- to 4-year-olds' identification of a subset of children's faces in the CAFE set, and compared it to adult ratings cited in previous research. Our results demonstrate an exceptionally strong relationship between adult ratings of the CAFE photos and children's ratings, suggesting that the adult validation of the set can be applied to preschool-aged participants. The results are discussed in terms of methodological implications for the use of the CAFE set with children, and theoretical implications for using the set to study the development of emotion perception in early childhood.

Photosynthesis, pigment-protein complexes and electronic energy transport: simple models for complicated processes.

In this review, we discuss our recent work on modelling biological pigment-protein complexes, such as the Fenna-Matthews-Olson complex and light-harvesting complex-II, to explain their electronic energy transport properties. In particular, we highlight how a network-based analysis approach, where the light-absorbing pigments are treated as a network of interconnected nodes, can provide a qualitative picture of quantum dynamic energy transport. With this in mind, we demonstrate how other properties such as robustness to environmental changes can be assessed in a simple and computationally tractable manner. Such analyses could prove useful for the design of artificial energy transport networks such as those which might find application in solar cells.

First Step toward a Universal Fluorescent Probe: Unravelling the Photodynamics of an Amino-Maleimide Fluorophore.

Continuous advancements in biophysics and medicine at the molecular level make the requirements to image structure-function processes in living cells ever more acute. While fluorophores such as the green fluorescent protein have proven instrumental toward such efforts, the advent of nondiffraction limited microscopy limits the utility of such fluorescent tags. Monoaminomaleimides are small, single molecule fluorophores that have been shown to possess stark variations in their emission spectra in different solvent environments, making them a potentially powerful tool for a myriad of applications. The ability to "autotune" fluorescence according to different media allows for a probe capable of working in all regions of a cell, or accurately characterizing the purity of an environment. In this work, we present ultrafast pump-probe studies of a model monoaminomaleimide, 1-methyl-3-(methylamino)-1H-pyrrole-2,5-dione, and demonstrate how fluorescence quenching in polar protic solvents is caused by electron driven proton transfer from the solvent to the fluorophore. Armed with this knowledge, the present study acts as a first step for the rational design of future maleimides, potentially moving toward creating a universal fluorophore with tunable efficiency, dependent on environment.

Photoprotection: extending lessons learned from studying natural sunscreens to the design of artificial sunscreen constituents.

Evolution has ensured that plants and animals have developed effective protection mechanisms against the potentially harmful effects of incident ultraviolet radiation (UVR). Tanning is one such mechanism in humans, but tanning only occurs post-exposure to UVR. Hence, there is ever growing use of commercial sunscreens to pre-empt overexposure to UVR. Key requirements for any chemical filter molecule used in such a photoprotective capacity include a large absorption cross-section in the UV-A and UV-B spectral regions and the availability of one or more mechanisms whereby the absorbed photon energy can be dissipated without loss of the molecular integrity of the chemical filter. Here we summarise recent experimental (mostly ultrafast pump-probe spectroscopy studies) and computational progress towards unravelling various excited state decay mechanisms that afford the necessary photostability in chemical filters found in nature and those used in commercial sunscreens. We also outline ways in which a better understanding of the photophysics and photochemistry of sunscreen molecules selected by nature could aid the design of new and improved commercial sunscreen formulations.

Photosynthetic pigment-protein complexes as highly connected networks: implications for robust energy transport.

Photosynthetic pigment-protein complexes (PPCs) are a vital component of the light-harvesting machinery of all plants and photosynthesizing bacteria, enabling efficient transport of the energy of absorbed light towards the reaction centre, where chemical energy storage is initiated. PPCs comprise a set of chromophore molecules, typically bacteriochlorophyll species, held in a well-defined arrangement by a protein scaffold; this relatively rigid distribution leads to a viewpoint in which the chromophore subsystem is treated as a network, where chromophores represent vertices and inter-chromophore electronic couplings represent edges. This graph-based view can then be used as a framework within which to interrogate the role of structural and electronic organization in PPCs. Here, we use this network-based viewpoint to compare excitation energy transfer (EET) dynamics in the light-harvesting complex II (LHC-II) system commonly found in higher plants and the Fenna-Matthews-Olson (FMO) complex found in green sulfur bacteria. The results of our simple network-based investigations clearly demonstrate the role of network connectivity and multiple EET pathways on the efficient and robust EET dynamics in these PPCs, and highlight a role for such considerations in the development of new artificial light-harvesting systems.

Ultrafast Transient Absorption Spectroscopy of the Sunscreen Constituent Ethylhexyl Triazone.

The ultrafast photoprotection mechanisms in operation in ethylhexyl triazone (EHT, octyl triazone), an approved ultraviolet-B (UV-B) chemical filter for commercial sunscreens, remain elusive, with a notable absence of ultrafast time-resolved measurements. These large organic molecules are of increasing interest as they are suspected to be less likely to penetrate the skin than some of the smaller approved filters, thereby reducing the possible adverse effects from sunscreen products. We apply femtosecond transient absorption spectroscopy with electronic structure calculations to unravel the complete photodeactivation mechanism that EHT undergoes after UV-B irradiation. We propose that this involves ultrafast internal conversion of the initially photoexcited n1ππ* state that couples to the ground state via a 11ππ*/S0 conical intersection, enabling multiple absorption and recovery cycles, as one would anticipate from a highly efficient filter. We also observe long-lived photoproducts which, based on previous studies along with present electronic structure calculations, we attribute to trapped excited populations in the S1 and T1 states.

Bridging views in cinema: a review of the art and science of view integration.

Recently, there has been a surge of interest in the relationship between film and cognitive science. This is reflected in a new science of cinema that can help us both to understand this art form, and to produce new insights about cognition and perception. In this review, we begin by describing how the initial development of cinema involved close observation of audience response. This allowed filmmakers to develop an informal theory of visual cognition that helped them to isolate and creatively recombine fundamental elements of visual experience. We review research exploring naturalistic forms of visual perception and cognition that have opened the door to a productive convergence between the dynamic visual art of cinema and science of visual cognition that can enrich both. In particular, we discuss how parallel understandings of view integration in cinema and in cognitive science have been converging to support a new understanding of meaningful visual experience. WIREs Cogn Sci 2017, 8:e1436. doi: 10.1002/wcs.1436 For further resources related to this article, please visit the WIREs website.

Bottom-up excited state dynamics of two cinnamate-based sunscreen filter molecules.

Methyl-E-4-methoxycinnamate (E-MMC) is a model chromophore of the commonly used commercial sunscreen agent, 2-ethylhexyl-E-4-methoxycinnamate (E-EHMC). In an effort to garner a molecular-level understanding of the photoprotection mechanisms in operation with E-EHMC, we have used time-resolved pump-probe spectroscopy to explore E-MMC's and E-EHMC's excited state dynamics upon UV-B photoexcitation to the S1 (11ππ*) state in both the gas- and solution-phase. In the gas-phase, our studies suggest that the excited state dynamics are driven by non-radiative decay from the 11ππ* to the S3 (11nπ*) state, followed by de-excitation from the 11nπ* to the ground electronic state (S0). Using both a non-polar-aprotic solvent, cyclohexane, and a polar-protic solvent, methanol, we investigated E-MMC and E-EHMC's photochemistry in a more realistic, 'closer-to-shelf' environment. A stark change to the excited state dynamics in the gas-phase is observed in the solution-phase suggesting that the dynamics are now driven by efficient E/Z isomerisation from the initially photoexcited 11ππ* state to S0.

A Perspective on the Ultrafast Photochemistry of Solution-Phase Sunscreen Molecules.

Sunscreens are one of the most common ways of providing on-demand additional photoprotection to the skin. Ultrafast transient absorption spectroscopy has recently proven to be an invaluable tool in understanding how the components of commercial sunscreen products display efficient photoprotection. Important examples of how this technique has unravelled the photodynamics of common components are given in this Perspective, and some of the remaining unanswered questions are discussed.

Ultrafast photoprotective properties of the sunscreening agent octocrylene.

Today octocrylene is one of the most common molecules included in commercially available sunscreens. It provides broadband photoprotection for the skin from incident UV-A and UV-B radiation of the solar spectrum. In order to understand how octocrylene fulfils its role as a sunscreening agent, femtosecond pump-probe transient electronic UV-visible absorption spectroscopy is utilised to investigate the ultrafastnonradiative relaxation mechanism of octocrylene in cyclohexane or methanol after UV-B photoexcitation. The data presented clearly shows that UV-B photoexcited octocrylene exhibits ultrafast-nonradiative relaxation mechanisms to repopulate its initial ground state within a few picoseconds, which, at the very least, photophysically justifies its wide spread inclusion in commercial sunscreens.

Further along the Road Less Traveled: AMBER ff15ipq, an Original Protein Force Field Built on a Self-Consistent Physical Model.

We present the AMBER ff15ipq force field for proteins, the second-generation force field developed using the Implicitly Polarized Q (IPolQ) scheme for deriving implicitly polarized atomic charges in the presence of explicit solvent. The ff15ipq force field is a complete rederivation including more than 300 unique atomic charges, 900 unique torsion terms, 60 new angle parameters, and new atomic radii for polar hydrogens. The atomic charges were derived in the context of the SPC/Eb water model, which yields more-accurate rotational diffusion of proteins and enables direct calculation of nuclear magnetic resonance (NMR) relaxation parameters from molecular dynamics simulations. The atomic radii improve the accuracy of modeling salt bridge interactions relative to contemporary fixed-charge force fields, rectifying a limitation of ff14ipq that resulted from its use of pair-specific Lennard-Jones radii. In addition, ff15ipq reproduces penta-alanine J-coupling constants exceptionally well, gives reasonable agreement with NMR relaxation rates, and maintains the expected conformational propensities of structured proteins/peptides, as well as disordered peptides-all on the microsecond (µs) time scale, which is a critical regime for drug design applications. These encouraging results demonstrate the power and robustness of our automated methods for deriving new force fields. All parameters described here and the mdgx program used to fit them are included in the AmberTools16 distribution.

Photodynamics of potent antioxidants: ferulic and caffeic acids.

The dynamics of ferulic acid (3-(4-hydroxy-3-methoxyphenyl)-2-propenoic acid) and caffeic acid (3-(3,4-dihydroxyphenyl)-2-propenoic acid) in acetonitrile, dioxane and water at pH 2.2 following photoexcitation to the first excited singlet state are reported. These hydroxycinnamic acids display both strong ultraviolet absorption and potent antioxidant activity, making them promising sunscreen components. Ferulic and caffeic acids have previously been shown to undergo trans-cis photoisomerization via irradiation studies, yet time-resolved measurements were unable to observe formation of the cis-isomer. In the present study, we are able to observe the formation of the cis-isomer as well as provide timescales of relaxation following initial photoexcitation.

The Face-Race Lightness Illusion Is Not Driven by Low-level Stimulus Properties: An Empirical Reply to Firestone and Scholl (2014).

Levin and Banaji (Journal of Experimental Psychology: General, 135, 501-512, 2006) reported a lightness illusion in which participants appeared to perceive Black faces to be darker than White faces, even though the faces were matched for overall brightness and contrast. Recently, this finding was challenged by Firestone and Scholl (Psychonomic Bulletin and Review, 2014), who argued that the nominal illusion remained even when the faces were blurred so as to make their race undetectable, and concluded that uncontrolled perceptual differences between the stimulus faces drove at least some observations of the original distortion effect. In this paper we report that measures of race perception used by Firestone and Scholl were insufficiently sensitive. We demonstrate that a forced choice race-identification task not only reveals that participants could detect the race of the blurred faces but also that participants' lightness judgments often aligned with their assignment of race.

Default processing of event sequences.

In a wide range of circumstances, it is important to perceive and represent the sequence of events. For example, sequence perception is necessary to learn statistical contingencies between events, and to generate predictions about events when segmenting actions. However, viewer's awareness of event sequence is rarely tested, and at least some means of encoding event sequence are likely to be resource-intensive. Therefore, previous research may have overestimated the degree to which viewers are aware of specific event sequences. In the experiments reported here, we tested viewers' ability to detect anomalies during visual event sequences. Participants viewed videos containing events that either did or did not contain an out-of-order action. Participants were unable to consistently detect the misordered events, and performance on the task decreased significantly to very low levels when performing a secondary task. In addition, participants almost never detected misorderings in an incidental version of the task, and performance increased when videos ended immediately after the misordering, We argue that these results demonstrate that viewers can effectively perceive the elements of events, but do not consistently test their expectations about the specific sequence of natural events unless bidden to do so by task-specific demands. (PsycINFO Database Record

Ultrafast Photoprotecting Sunscreens in Natural Plants.

We explore the ultrafast photoprotective properties of a series of sinapic acid derivatives in a range of solvents, utilizing femtosecond transient electronic absorption spectroscopy. We find that a primary relaxation mechanism displayed by the plant sunscreen sinapoyl malate and other related molecular species may be understood as a multistep process involving internal conversion of the initially photoexcited 1(1)ππ* state along a trans-cis photoisomerization coordinate, leading to the repopulation of the original trans ground-state isomer or the formation of a stable cis isomer.