Exploring Values in Museum Artifacts in the SPICE Project: A Preliminary Study

This document describes the rationale, the implementation and a preliminary evaluation of a semantic reasoning tool developed in the EU H2020 SPICE project to enhance the diversity of perspectives experienced by museum visitors. The tool, called DEGARI 2.0 for values, relies on the commonsense reasoning framework , and exploits an ontological model formalizing the Haidt’s theory of moral values to associate museum items with combined values and emotions. Within a museum exhibition, this tool can suggest cultural items that are associated not only with the values of already experienced or preferred objects, but also with novel items with different value stances, opening the visit experience to more inclusive interpretations of cultural content. The system has been preliminarily tested, in the context of the SPICE project, on the collection of the Hecht Museum of Haifa

Introducing empathy into recommender systems as a tool for promoting social cohesion

Contemporary theories of social cohesion emphasize the importance of people accepting and appreciating differences across social groups. The SPICE project aims to promote social cohesion by researching and developing tools and methods to support citizen curation for groups at risk of exclusion. We define citizen curation as a process in which citizens can interpret cultural objects in order to build representations of their own social group. Other groups can then engage with those interpretations in order to appreciate their perspective. In this position paper we discuss how research into empathy can be used to motivate the design of recommender systems that support people in looking beyond their own group and engaging constructively with alternative perspectives

High-throughput ab initio reaction mechanism exploration in the cloud with automated multi-reference validation

Quantum chemical calculations on atomistic systems have evolved into a standard approach to study molecular matter. These calculations often involve a significant amount of manual input and expertise although most of this effort could be automated, which would alleviate the need for expertise in software and hardware accessibility. Here, we present the AutoRXN workflow, an automated workflow for exploratory high-throughput lectronic structure calculations of molecular systems, in which (i) density functional theory methods are exploited to deliver minimum and transition-state structures and corresponding energies and properties, (ii) coupled cluster calculations are then launched for optimized structures to provide more accurate energy and property estimates, and (iii) multi-reference diagnostics are evaluated to back check the coupled cluster results and subject hem to automated multi-configurational calculations for potential multi-configurational cases. All calculations are carried out in a cloud environment and support massive computational campaigns. Key features of all omponents of the AutoRXN workflow are autonomy, stability, and minimum operator interference. We highlight the AutoRXN workflow at the example of an autonomous reaction mechanism exploration of the mode of action of a homogeneous catalyst for the asymmetric reduction of ketones.Comment: 29 pages, 11 figure

Bridging the gap between omics and earth system science to better understand how environmental change impacts marine microbes

The advent of genomic-, transcriptomic- and proteomic-based approaches has revolutionized our ability to describe marine microbial communities, including biogeography, metabolic potential and diversity, mechanisms of adaptation, and phylogeny and evolutionary history. New interdisciplinary approaches are needed to move from this descriptive level to improved quantitative, process-level understanding of the roles of marine microbes in biogeochemical cycles and of the impact of environmental change on the marine microbial ecosystem. Linking studies at levels from the genome to the organism, to ecological strategies and organism and ecosystem response, requires new modelling approaches. Key to this will be a fundamental shift in modelling scale that represents micro-organisms from the level of their macromolecular components. This will enable contact with omics data sets and allow acclimation and adaptive response at the phenotype level (i.e. traits) to be simulated as a combination of fitness maximization and evolutionary constraints. This way forward will build on ecological approaches that identify key organism traits and systems biology approaches that integrate traditional physiological measurements with new insights from omics. It will rely on developing an improved understanding of ecophysiology to understand quantitatively environmental controls on microbial growth strategies. It will also incorporate results from experimental evolution studies in the representation of adaptation. The resulting ecosystem-level models can then evaluate our level of understanding of controls on ecosystem structure and function, highlight major gaps in understanding and help prioritize areas for future research programs. Ultimately, this grand synthesis should improve predictive capability of the ecosystem response to multiple environmental drivers

A Phase 1 Trial of pharmacologic interactions between transdermal selegiline and a 4-hour cocaine infusion

BackgroundThe selective MAO-B inhibitor selegiline has been evaluated in clinical trials as a potential medication for the treatment of cocaine dependence. This study evaluated the safety of and pharmacologic interactions between 7 days of transdermal selegiline dosed with patches (Selegiline Transdermal System, STS) that deliver 6 mg/24 hours and 2.5 mg/kg of cocaine administered over 4 hours.MethodsTwelve nondependent cocaine-experienced subjects received deuterium-labeled cocaine-d5 intravenously (IV) 0.5 mg/kg over 10 minutes followed by 2 mg/kg over 4 hours before and after one week of transdermal selegiline 6 mg/24 hours. Plasma and urine were collected for analysis of selegiline, cocaine, catecholamine and metabolite concentrations. Pharmacodynamic measures were obtained.ResultsSelegiline did not change cocaine pharmacokinetic parameters. Selegiline administration increased phenylethylamine (PEA) urinary excretion and decreased urinary MHPG-sulfate concentration after cocaine when compared to cocaine alone. No serious adverse effects occurred with the combination of selegiline and cocaine, and cocaine-induced physiological effects were unchanged after selegiline. Only 1 peak subjective cocaine effects rating changed, and only a few subjective ratings decreased across time after selegiline.ConclusionNo pharmacological interaction occurred between selegiline and a substantial dose of intravenous cocaine, suggesting the combination will be safe in pharmacotherapy trials. Selegiline produced few changes in subjective response to the cocaine challenge perhaps because of some psychoactive neurotransmitters changing in opposite directions

On the Principles of Differentiable Quantum Programming Languages

Variational Quantum Circuits (VQCs), or the so-called quantum neural-networks, are predicted to be one of the most important near-term quantum applications, not only because of their similar promises as classical neural-networks, but also because of their feasibility on near-term noisy intermediate-size quantum (NISQ) machines. The need for gradient information in the training procedure of VQC applications has stimulated the development of auto-differentiation techniques for quantum circuits. We propose the first formalization of this technique, not only in the context of quantum circuits but also for imperative quantum programs (e.g., with controls), inspired by the success of differentiable programming languages in classical machine learning. In particular, we overcome a few unique difficulties caused by exotic quantum features (such as quantum no-cloning) and provide a rigorous formulation of differentiation applied to bounded-loop imperative quantum programs, its code-transformation rules, as well as a sound logic to reason about their correctness. Moreover, we have implemented our code transformation in OCaml and demonstrated the resource-efficiency of our scheme both analytically and empirically. We also conduct a case study of training a VQC instance with controls, which shows the advantage of our scheme over existing auto-differentiation for quantum circuits without controls.Comment: Codes are available at https://github.com/LibertasSpZ/adcompil

Regulatory (pan-)genome of an obligate intracellular pathogen in the PVC superphylum.

Like other obligate intracellular bacteria, the Chlamydiae feature a compact regulatory genome that remains uncharted owing to poor genetic tractability. Exploiting the reduced number of transcription factors (TFs) encoded in the chlamydial (pan-)genome as a model for TF control supporting the intracellular lifestyle, we determined the conserved landscape of TF specificities by ChIP-Seq (chromatin immunoprecipitation-sequencing) in the chlamydial pathogen Waddlia chondrophila. Among 10 conserved TFs, Euo emerged as a master TF targeting >100 promoters through conserved residues in a DNA excisionase-like winged helix-turn-helix-like (wHTH) fold. Minimal target (Euo) boxes were found in conserved developmentally-regulated genes governing vertical genome transmission (cytokinesis and DNA replication) and genome plasticity (transposases). Our ChIP-Seq analysis with intracellular bacteria not only reveals that global TF regulation is maintained in the reduced regulatory genomes of Chlamydiae, but also predicts that master TFs interpret genomic information in the obligate intracellular α-proteobacteria, including the rickettsiae, from which modern day mitochondria evolved

TGF-beta 2 modulates cell-cell adhesion and the cytoskeleton in human trabecular meshwork cells

Das primäre Offenwinkelglaukom (POWG) ist eine mit typischen Gesichtfeld- und Papillenschäden einhergehende Erkrankung des Auges, die in den westlichen Industrienationen zu den häufigsten Erblindungsursachen zählt. An Glaukom erkrankte Patienten weisen häufig erhöhte Augeninnendruckwerte und gesteigerte TGF-beta 2-Spiegel im Kammerwasser auf. Der Augeninnendruck wird im Wesentlichen durch den Abflusswiderstand des Trabekelmaschenwerks bestimmt. In der vorliegenden Arbeit wurde der Einfluss des Wachstumsfaktors TGF-beta 2 auf das Zytoskelett von menschlichen Trabekelmaschenwerkszellen (HTM) untersucht. Hierbei konnten die bereits bekannten TGF-beta-Effekte, nämlich verstärkte Stressfaserbildung und Zunahme der alpha-SMA- sowie Aktin-Expression bestätigt werden. Bisher unbekannt war die Zunahme der Expression von N-Cadherin und beta-Catenin unter TGF-beta, die Veränderungen der Zell-Zell-Adhäsionen nach sich zieht und damit auch Einfluss auf die biomechanischen Eigenschaften des Trabekelmaschenwerks haben könnte. beta-Catenin ist hierbei auch unter dem Einfluss von TGF-beta nur zu einem geringen Anteil im Zellkern lokalisiert, was mit einer vermehrten Lokalisation von beta-Catenin in Zell-Zell-Verbindungen vereinbar ist. Da vermutlich unter TGF-beta-Stimulation sogar eher weniger beta-Catenin als Mediator für den Wnt-Signalpfad zur Verfügung steht, könnte ein TGF-beta-vermittelter Wnt-Antagonismus eine Rolle in der Entstehung des POWG spielen. Es ist bekannt dass eine Hemmung des Wnt-Signalwegs den Augeninnendruck erhöht. Im Rahmen dieser Arbeit konnte gezeigt werden, dass an der TGF-beta 2-Signalgebung in humanen Trabekelmaschenwerkszellen außer dem klassischen Smad-Weg auch MEK/ERK und PI3K/AKT an der Signalübertragung beteiligt sind. Hierbei sind die TGF-beta-induzierten Änderungen der Zell-Zell-Verbindungen von der Smad- und AKT-Signalgebung abhängig, während die Effekte von TGF-beta auf alpha-SMA über den MEK/ERK-Signalweg vermittelt werden. Die Ergebnisse der vorliegenden Arbeit zeigen einige neu beobachtete TGF-beta-Effekte im Trabekelmaschenwerk, von denen insbesondere die Veränderungen des Zellskeletts und der Zell-Zell-Verbindungen sowie die möglicherweise stattfindende Depletion des Wnt-Signalweges Bedeutung für die Entstehung des Offenwinkelglaukoms haben könnten.Primary open angle glaucoma (POAG) is a chronic optic neuropathy with elevated intraocular pressure and ageing as major risk factors. The incidence of POAG is expected to rise in the aging industrial societies. Structural changes in the trabecular meshwork (TM) and elevated TGF-beta 2 levels in the aequous humor have been described in POAG-patients. It has been shown that TGF-beta modulates the amount and the composition of the extracellular matrix and intracellular proteins in the TM. Here we show that TGF-beta 2 modulates the cytosceletal rearrangements and the expression of cadherins in human TM cells. These changes require the canonical Smad-pathway as well as non-canonical signaling by the Pi3K/AKT- and MEK/ERK-pathways. Changes in the cytoskeleton and cell-cell adhesions might influence the mechanotransduction characteristics of TM tissue and thus have effects on the regulation of intraocular pressure with implications in primary open angle glaucoma