Miracle-dz/UniFAR-FTUs huggingface dataset:
A synthetic peptide that prevents cAMP regulation in mammalian hyperpolarization-activated cyclic nucleotide-gated (HCN) channels

Binding of TRIP8b to the cyclic nucleotide binding domain (CNBD) of mammalian hyperpolarization-activated cyclic nucleotide-gated (HCN) channels prevents their regulation by cAMP. Since TRIP8b is expressed exclusively in the brain, we envisage that it can be used for orthogonal control of HCN channels beyond the central nervous system. To this end, we have identified by rational design a 40-aa long peptide (TRIP8bnano) that recapitulates affinity and gating effects of TRIP8b in HCN isoforms (hHCN1, mHCN2, rbHCN4) and in the cardiac current If in rabbit and mouse sinoatrial node cardiomyocytes. Guided by an NMR-derived structural model that identifies the key molecular interactions between TRIP8bnano and the HCN CNBD, we further designed a cell-penetrating peptide (TAT-TRIP8bnano) which successfully prevented β-adrenergic activation of mouse If leaving the stimulation of the L-type calcium current (ICaL) unaffected. TRIP8bnano represents a novel approach to selectively control HCN activation, which yields the promise of a more targeted pharmacology compared to pore blockers.
Goal-Based Collective Decisions: Axiomatics and Computational Complexity

We study agents expressing propositional goals over a set of binary issues to reach a collective decision. We adapt properties and rules from the literature on Social Choice Theory to our setting, providing an axiomatic characterisation of a majority rule for goal-based voting. We study the computational complexity of finding the outcome of our rules (i.e., winner determination), showing that it ranges from Nondeterministic Polynomial Time (NP) to Probabilistic Polynomial Time (PP).
Characterization of Klason lignin samples isolated from beech and aspen using microbore column size-exclusion chromatography.

The present study is focused on the separation and characterization of lignin samples isolated by Klason method from European beech (Fagus sylvatica) broadleaf hardwood and European aspen (Populus tremula) broadleaf softwood by size-exclusion chromatography. The separation was carried out using dimethylformamide as major component of the mobile phase and a 3 mm id microbore column packed with hydroxyethyl methacrylate gel, calibrated with polystyrene standards. The influence of mobile phase composition and sample solvent composition on the chromatographic behavior and molar mass distributions was investigated.
Single Step Laser Transfer and Laser Curing of Ag NanoWires: A Digital Process for the Fabrication of Flexible and Transparent Microelectrodes

Ag nanowire (NW) networks have exquisite optical and electrical properties which make them ideal candidate materials for flexible transparent conductive electrodes. Despite the compatibility of Ag NW networks with laser processing, few demonstrations of laser fabricated Ag NW based components currently exist. In this work, we report on a novel single step laser transferring and laser curing process of micrometer sized pixels of Ag NW networks on flexible substrates. This process relies on the selective laser heating of the Ag NWs induced by the laser pulse energy and the subsequent localized melting of the polymeric substrate. We demonstrate that a single laser pulse can induce both transfer and curing of the Ag NW network. The feasibility of the process is confirmed experimentally and validated by Finite Element Analysis simulations, which indicate that selective heating is carried out within a submicron-sized heat affected zone. The resulting structures can be utilized as fully functional flexible transparent electrodes with figures of merit even higher than 100. Low sheet resistance (<50 Ohm/sq) and high visible light transparency (>90%) make the reported process highly desirable for a variety of applications, including selective heating or annealing of nanocomposite materials and laser processing of nanostructured materials on a large variety of optically transparent substrates, such as Polydimethylsiloxane (PDMS).
Profiles of brain metastases: Prioritization of therapeutic targets

We sought to compare the tumor profiles of brain metastases from common cancers with those of primary tumors and extracranial metastases in order to identify potential targets and prioritize rational treatment strategies. Tumor samples were collected from both the primary and metastatic sites of nonsmall cell lung cancer, breast cancer and melanoma from patients in locations worldwide, and these were submitted to Caris Life Sciences for tumor multiplatform analysis, including gene sequencing (Sanger and next‐generation sequencing with a targeted 47‐gene panel), protein expression (assayed by immunohistochemistry) and gene amplification (assayed by in situ hybridization). The data analysis considered differential protein expression, gene amplification and mutations among brain metastases, extracranial metastases and primary tumors. The analyzed population included: 16,999 unmatched primary tumor and/or metastasis samples: 8,178 nonsmall cell lung cancers (5,098 primaries; 2,787 systemic metastases; 293 brain metastases), 7,064 breast cancers (3,496 primaries; 3,469 systemic metastases; 99 brain metastases) and 1,757 melanomas (660 primaries; 996 systemic metastases; 101 brain metastases). TOP2A expression was increased in brain metastases from all 3 cancers, and brain metastases overexpressed multiple proteins clustering around functions critical to DNA synthesis and repair and implicated in chemotherapy resistance, including RRM1, TS, ERCC1 and TOPO1. cMET was overexpressed in melanoma brain metastases relative to primary skin specimens. Brain metastasis patients may particularly benefit from therapeutic targeting of enzymes associated with DNA synthesis, replication and/or repair.
Recursion Formula for the Probability Distribution of Sum of (vu+ 1)-sided die and some of its Properties

g(x; p) = pq ; x = 1, 2, 3, . (1.4a) A ABSTRACT In this paper we studied the probability distribution associated with die, motivated by the work of researchers in this direction, we derived a recursion formula for the probability distribution of an arbitrary (not necessarily fair) (v-u+1)-sided die and some of its Properties. The results obtained trivialized and compliment known results in the literatures. Original Research Article
Association between serotonin 2C receptor gene (HTR2C) polymorphisms and psychopathological symptoms in children and adolescents

Serotonin 2C receptors (5HT2C) are involved in serotonin-driven dynamic equilibrium adjustments responsible for homeostatic stability in brain structures that modulate behavior and emotions. Single nucleotide polymorphisms (SNPs) from the serotonin 2C receptor gene (HTR2C) have been associated with several neurological and mental disorders, including abnormalities in cognitive and emotional processes. The aim of this study was to evaluate the association between the rs6318 SNP of the HTR2C gene and behavioral characteristics exhibited by children and adolescents based on the Child Behavior Checklist (CBCL/6-18) inventory. Eighty-five psychiatric outpatients between 8 and 18 years of age underwent genotyping of the rs6318 SNP. The CBCL/6-18 scale was administered to their caregivers. The chi-squared test was used to assess differences in the frequency of C and G alleles of the rs6318 SNP relative to the grouped CBCL/6-18 scores; significance level was 5%. The presence of the G allele of rs6318 was found to be associated with characteristics of aggressive behavior and social problems, and aggressive behavior was found to be associated with heterozygosis in females. These findings contribute to the identification of mental and behavioral phenotypes associated with gene expression.
Recycling of sugar industry wastewater for single-cell protein production with supplemental carotenoids

ABSTRACT The bioconversion of sugar-industry wastewater to value-added products is a prominent topic in biotechnology. This work cultured a carotenoid-producing photosynthetic bacterium, Rhodopseudomonas faecalis, in a photo-bioreactor containing different wastewater from wastewater treatment ponds of a Thai sugar company. The cultivated R. faecalis produced single cell protein (SCP) with supplemental carotenoids. The cultivation boosted the growth and dehydrogenase activity of R. faecalis from all wastewater sources, while significantly reducing the total sugar concentration. The cellular protein concentration and carotenoid production of R. faecalis was maximised in wastewater collected from anaerobic pond and secondary mechanically aerated pond, respectively. At the end of the cultivation, the chemical oxygen demand was reduced by 80% and the protein content in the dry biomass exceeded 50%, within the acceptable ranges of SCP production. The biomass contained all essential amino acids and the leucine and lysine proportions were above the SCP guideline values. This study reveals that sugar-industry wastewater can be recycled in SCP production with supplemental carotenoids. The SCP is a potential commercial product for the sugar industry. GRAPHICAL ABSTRACT
Non-spherical bubble dynamics in a compressible liquid. Part 1. Travelling acoustic wave

Micro-cavitation bubbles generated by ultrasound have wide and important applications in medical ultrasonics and sonochemistry. An approximate theory is developed for nonlinear and non-spherical bubbles in a compressible liquid by using the method of matched asymptotic expansions. The perturbation is performed to the second order in terms of a small parameter, the bubble-wall Mach number. The inner flow near the bubble can be approximated as incompressible at the first and second orders, leading to the use of Laplace's equation, whereas the outer flow far away from the bubble can be described by the linear wave equation, also for the first and second orders. Matching between the two expansions provides the model for the non-spherical bubble behaviour in a compressible fluid. A numerical model using the mixed Eulerian–Lagrangian method and a modified boundary integral method is used to obtain the evolving bubble shapes. The primary advantage of this method is its computational efficiency over using the wave equation throughout the fluid domain. The numerical model is validated against the Keller–Herring equation for spherical bubbles in weakly compressible liquids with excellent agreement being obtained for the bubble radius evolution up to the fourth oscillation. Numerical analyses are further performed for non-spherical oscillating acoustic bubbles. Bubble evolution and jet formation are simulated. Outputs also include the bubble volume, bubble displacement, Kelvin impulse and liquid jet tip velocity. Bubble behaviour is studied in terms of the wave frequency and amplitude. Particular attention is paid to the conditions if/when the bubble jet is formed and when the bubble becomes multiply connected, often forming a toroidal bubble. When subjected to a weak acoustic wave, bubble jets may develop at the two poles of the bubble surface after several cycles of oscillations. A resonant phenomenon occurs when the wave frequency is equal to the natural oscillation frequency of the bubble. When subjected to a strong acoustic wave, a vigorous liquid jet develops along the direction of wave propagation in only a few cycles of the acoustic wave.
The Effect of Mechanical Stimuli on Healing Achilles Tendons in Rats

Tendon healing is a slow process and the tendon may not regain its initial mechanical properties after rupture. Mechanical stimuli have shown to have positive effect on tendon healing. This study is the first to investigate the effect of vibration stimuli on healing tendons. Vibration was also compared to treadmill running, which has previously been used for mechanical stimuli.63 female Sprauge-Dawley rats were used. A 3 mm segment was removed from the Achilles tendon and the tendon was left to heal. The animals were subjected to 15 min of daily exercise, vibration or treadmill running or acted as controls without exercise. The study was divided into three experiments. Experiment 1; the animals had full time cage activity and was randomized into running, vibration and control group. Experiment 2; the animals were unloaded and randomized into vibration, running and control group. There was also a control group with full time cage activity in experiment 2. Experiment 3; the animals were unloaded and randomized into vibration and placebo group. 14 days after surgery the animals were killed and mechanical testing of the Achilles tendons was performed. The results showed no significant difference between the groups in experiment 1. Experiment 2 showed that controls with full time cage activity had higher peak load, stiffness and cross sectional area than unloaded running, vibration and control groups. In experiment 3, there was no significant difference between vibration and placebo group. In conclusion, this study shows that vibration, as applied here, does not affect tendon healing.
Intelligibility model optimisation approaches for speech pre-enhancement

The goal of improving the intelligibility of broadcast speech is being met by a recent new direction in speech enhancement: near-end intelligibility enhancement. In contrast to the conventional speech enhancement approach that processes the corrupted speech at the receiver-side of the communication chain, the near-end intelligibility enhancement approach pre-processes the clean speech at the transmitter-side, i.e. before it is played into the environmental noise. In this work, we describe an optimisation-based approach to near-end intelligibility enhancement using models of speech intelligibility to improve the intelligibility of speech in noise. This thesis first presents a survey of speech intelligibility models and how the adverse acoustic conditions affect the intelligibility of speech. The purpose of this survey is to identify models that we can adopt in the design of the pre-enhancement system. Then, we investigate the strategies humans use to increase speech intelligibility in noise. We then relate human strategies to existing algorithms for near-end intelligibility enhancement. A closed-loop feedback approach to near-end intelligibility enhancement is then introduced. In this framework, speech modifications are guided by a model of intelligibility. For the closed-loop system to work, we develop a simple spectral modification strategy that modifies the first few coefficients of an auditory cepstral representation such as to maximise an intelligibility measure. We experiment with two contrasting measures of objective intelligibility. The first, as a baseline, is an audibility measure named 'glimpse proportion' that is computed as the proportion of the spectro-temporal representation of the speech signal that is free from masking. We then propose a discriminative intelligibility model, building on the principles of missing data speech recognition, to model the likelihood of specific phonetic confusions that may occur when speech is presented in noise. The discriminative intelligibility measure is computed using a statistical model of speech from the speaker that is to be enhanced. Interim results showed that, unlike the glimpse proportion based system, the discriminative based system did not improve intelligibility. We investigated the reason behind that and we found that the discriminative based system was not able to target the phonetic confusion with the fixed spectral shaping. To address that, we introduce a time-varying spectral modification. We also propose to perform the optimisation on a segment-by-segment basis which enables a robust solution against the fluctuating noise. We further combine our system with a noise-independent enhancement technique, i.e. dynamic range compression. We found significant improvement in non-stationary noise condition, but no significant differences to the state-of-the art system (spectral shaping and dynamic range compression) where found in stationary noise condition.
From Europe , to the Agbogbloshie Scrapyard

The challenge of sound e-waste treatment is something that is a global concern when relating to good business practices, safe working conditions, information security and environment. This research applies a holistic view of the illegal trade of e-waste from Europe to Ghana by aiming to highlight some of its drivers. By applying an adapted RV-model to identify the actors engaged in smuggling and rational choice theory to analyse market incentives this research identifies legal and procedural weaknesses that enable the illegal shipment of e-
Motion control of a snake robot moving between two non-parallel planes

Abstract A control method that makes the head of a snake robot follow an arbitrary trajectory on two non-parallel planes, including coexisting sloped and flat planes, is presented. We clarify an appropriate condition of contact between the robot and planes and design a controller for the part of the robot connecting the two planes that satisfies the contact condition. Assuming that the contact condition is satisfied, we derive a simplified model of the robot and design a controller for trajectory tracking of the robot’s head. The controller uses kinematic redundancy to avoid violating the limit of the joint angle and a collision between the robot and the edge of a plane. The effectiveness of the proposed method is demonstrated in experiments using an actual robot.
Robust Time-Inconsistent Stochastic Control Problems

This paper establishes a general analytical framework for continuous-time stochastic control problems for an ambiguity-averse agent (AAA) with time-inconsistent preference, where the control problems do not satisfy Bellman’s principle of optimality. The AAA is concerned about model uncertainty in the sense that she is not completely confident in the reference model of the controlled Markov state process and rather considers some similar alternative models. The problems of interest are studied within a set of dominated models and the AAA seeks for an optimal decision that is robust with respect to model risks. We adopt a game-theoretic framework and the concept of subgame perfect Nash equilibrium to derive an extended dynamic programming equation and extended Hamilton–Jacobi–Bellman–Isaacs equations for characterizing the robust dynamically optimal control of the problem. We also prove a verification theorem to theoretically support our construction of robust control. To illustrate the tractability of the proposed framework, we study an example of robust dynamic mean–variance portfolio selection under two cases: 1. constant risk aversion; and 2. state-dependent risk aversion.
Developing a multi-stressor gradient model for coral reefs of Puerto Rico

Coral reefs worldwide are threatened by multiple anthropogenic stressors, yet understanding reef responses to multiple stressor gradients is complicated by interactive stressor effects, co-occurrence of some stressors, and inconsistent data availability. Indirect protection of aquatic life under the US Clean Water Act (CWA) may occur through requirements for effluent discharge permits and provisions for setting chemical and physical criteria based on designated waterbody uses for humans. Biological water quality criteria or “biocriteria” established under the CWA offers a direct means to protect corals. Biocriteria are quantitative thresholds or narrative descriptions of coral reef ecosystem attributes needed to maintain biological integrity. Biocriteria development involves defining the biological community associated with a wide range of ecosystem conditions ranging from a pristine, undisturbed state to severe disturbance by human activities. As part of this process for Puerto Rico, Caribbean coral reef ecosystem experts prioritized anthropogenic stressors to coral reef ecosystems as land-based sources of pollution, fishing pressure, and global climate change-related thermal anomalies. Spatial data representing these stressors were mapped, showing some areas where all three stressors were high and also areas where the magnitude of stressors contrasted. In northeast Puerto Rico, urban development around San Juan resulted in the island’s highest watershed development index, which cooccurred with high fishing pressure. In contrast, southwest Puerto Rico had high fishing pressure but low watershed development and ocean temperatures compared to other coastal areas. Narrative descriptions were also developed to incorporate stressors for which spatial data is absent or limited. Future expert workshops will refine this model by developing stressor weighting factors and by considering interactive effects. This conceptual framework will contribute to developing a multi-stressor gradient model for the coral reefs of Puerto Rico, identify data needs, stimulate addition of new spatial data, and generate testable hypotheses to calibrate the stressor-response model.
Influence of intergenotypic competition on multigenerational persistence of abiotic stress resistance transgenes in populations of Arabidopsis thaliana

Reducing crop losses due to abiotic stresses is a major target of agricultural biotechnology that will increase with climate change and global population growth. Concerns, however, have been raised about potential ecological impacts if transgenes become established in wild populations and cause increased competitiveness of weedy or invasive species. Potential risks will be a function of transgene movement, population sizes, and fitness effects on the recipient population. While key components influencing gene flow have been extensively investigated, there have been few studies on factors subsequent to transgene movement that can influence persistence and competitiveness. Here, we performed multiyear, multigenerational, assessment to examine fitness effects and persistence of three mechanistically different abiotic stress tolerance genes: C‐repeat binding factor 3/drought responsive element binding factor 1a (CBF3/DREB1a); Salt overly sensitive 1 (SOS1); and Mannose‐6‐phosphate reductase (M6PR). Transgenic Arabidopsis thaliana overexpressing these genes were grown in pure populations and in competition with wild‐type (WT) parents for six generations spanning a range of field environment conditions. Growth, development, biomass, seed production, and transgene frequency were measured at each generation. Seed planted for each generation was obtained from the previous generation as would occur during establishment of a new genotype in the environment. The three transgenes exhibited different fitness effects and followed different establishment trajectories. In comparison with pure populations, CBF3 lines exhibited reduced dry weight, seed yield, and viable seed yield, relative to WT background. In contrast, overexpression of SOS1 and M6PR did not significantly impact productivity measures in pure populations. In competition with WT, negative fitness effects were magnified. Transgene frequencies were significantly reduced for CBF3 and SOS1 while frequencies of M6PR appeared to be subject to genetic drift. These studies demonstrate the importance of fitness effects and intergenotype competition in influencing persistence of transgenes conferring complex traits.