bluuebunny/crossref_metadata_2025_split huggingface dataset:
Multilevel governance of energy transitions in Europe: Addressing wicked problems of coordination, justice, and power in energy policy
Authors: Radtke Jörg , Wurster Stefan 
Published: August 2023

AbstractConcerns about energy transition and policies to achieve a clean energy Europe are omnipresent in all European discourses. A transformation dynamic has captured all European states, whereby the extent, scope, and direction of this transition vary between different (EU member‑) states and political levels (European, national, federal, local). Likewise, governance dynamics and policies vary between the different European governance and regulatory systems. This Special Issue aims to take stock and discuss approaches in governance and policy research to assess, analyse and evaluate this variance from a theoretical, methodological, and empirical perspective. Of particular interest are recourses to investigate concepts describing and analysing the formation of new policy fields. Within the framework of the Special Issue, the role of specific architectures in which the energy transformation in Europe is embedded (e.g., federalism and multi-level structures, institutional constellations of actors, multi-sector networks, etc.) are analysed to explain the energy transition policies and their transformative properties. Linking the empirical results back to basic research concepts and relating the results to the existing approaches in policy and governance research facilitates a better understanding of the energy transition as a classic and/or new transformation policy.
Prioritising paths: An improved cost function for local path planning for UAV in medical applications
Authors: Thoma A. , Thomessen K. , Gardi A. , Fisher A. , Braun C. 
Published: August 2023

AbstractEven the shortest flight through unknown, cluttered environments requires reliable local path planning algorithms to avoid unforeseen obstacles. The algorithm must evaluate alternative flight paths and identify the best path if an obstacle blocks its way. Commonly, weighted sums are used here. This work shows that weighted Chebyshev distances and factorial achievement scalarising functions are suitable alternatives to weighted sums if combined with the 3DVFH*local path planning algorithm. Both methods considerably reduce the failure probability of simulated flights in various environments. The standard 3DVFH*uses a weighted sum and has a failure probability of 50% in the test environments. A factorial achievement scalarising function, which minimises the worst combination of two out of four objective functions, reaches a failure probability of 26%; A weighted Chebyshev distance, which optimises the worst objective, has a failure probability of 30%. These results show promise for further enhancements and to support broader applicability.
The evolving role of data & safety monitoring boards for real-world clinical trials
Authors: Bunning Bryan J. , Hedlin Haley , Chen Jonathan H. , Ciolino Jody D. , Ferstad Johannes Opsahl , Fox Emily , Garcia Ariadna , Go Alan , Johari Ramesh , Lee Justin , Maahs David M. , Mahaffey Kenneth W. , Opsahl-Ong Krista , Perez Marco , Rochford Kaylin , Scheinker David , Spratt Heidi , Turakhia Mintu P. , Desai Manisha 
Published: August 2023

Abstract

Introduction:
Clinical trials provide the “gold standard” evidence for advancing the practice of medicine, even as they evolve to integrate real-world data sources. Modern clinical trials are increasingly incorporating real-world data sources – data not intended for research and often collected in free-living contexts. We refer to trials that incorporate real-world data sources as real-world trials. Such trials may have the potential to enhance the generalizability of findings, facilitate pragmatic study designs, and evaluate real-world effectiveness. However, key differences in the design, conduct, and implementation of real-world vs traditional trials have ramifications in data management that can threaten their desired rigor.

Methods:
Three examples of real-world trials that leverage different types of data sources – wearables, medical devices, and electronic health records are described. Key insights applicable to all three trials in their relationship to Data and Safety Monitoring Boards (DSMBs) are derived.

Results:
Insight and recommendations are given on four topic areas: A. Charge of the DSMB; B. Composition of the DSMB; C. Pre-launch Activities; and D. Post-launch Activities. We recommend stronger and additional focus on data integrity.

Conclusions:
Clinical trials can benefit from incorporating real-world data sources, potentially increasing the generalizability of findings and overall trial scale and efficiency. The data, however, present a level of informatic complexity that relies heavily on a robust data science infrastructure. The nature of monitoring the data and safety must evolve to adapt to new trial scenarios to protect the rigor of clinical trials.
Shell Games: A Middle Preclassic Shell Deposit at the Minor Center of Tutu Uitz Na in the Upper Belize River Valley
Authors: Biggie Michael , Walden John P. , Shaw-Müller Kyle , Petrozza Michael L. , Ellis Olivia P. , Roa Ian N. , Stanchly Norbert , Guerra Rafael A. , Ebert Claire E. , Hoggarth Julie A. , Awe Jaime J. 
Published: August 2023

AbstractRecent excavations at the ancient Maya minor center of Tutu Uitz Na in the Belize River Valley revealed an especially large—about 20 million shells—Middle Preclassic (900–300 BC) shell deposit underlying the plaza. Although marine shell species make up a small percentage of the assemblage, most shells are Pachychilus spp., a common freshwater snail known in the southern Maya Lowlands as jute. This report describes the architectural context and assemblage of the deposit and compares it to similar examples in the region. We propose that the Tutu Uitz Na deposit provides one of the earliest examples of depictions of the Maya primordial sea in an architectural context.
W. E. B. Du Bois’s Global Sociology and the Anti-racist Struggle for Democracy in Cuba (1931–1941)
Authors: Vásquez Jorge Daniel 
Published: August 2023

AbstractDuring the 1930s and 1940s, W. E. B. Du Bois was not only interested in European colonialism in Africa, but he also approached the racial situation in the Americas, particularly Haiti, Brazil, and Cuba. In this article, I examine how Du Bois engaged strategically in a critique of racism in Cuba and the United States. I analyze how Du Bois discussed the Cuban color line as linked to colonial dispossession and explore the formation of the anti-colonial critique within global sociology. Du Bois’s letters, manuscripts, and field notes during his first visit to Cuba in 1941 reveal how, to a large extent, Du Bois shared the prevailing vision of Cuba as a society free from racism. Although Du Bois only partially captured how racism worked in Cuba, he constantly affirmed how the analysis of the Cuban color line implies dealing with the analysis of American imperialism. Thus, Du Bois’s approach to Cuba was fundamental in two senses. First, it led him to consider the contradictions between cultural integration and social and economic equality in a setting other than the United States. Second, Du Bois developed the fundamental place assigned to the critique of U.S. imperialism within global sociology. At the same time, Du Bois’s connection with Cuba elaborates the understanding of Du Bois’s global sociology.
Climate Models Underestimate Dynamic Cloud Feedbacks in the Tropics
Authors: Hill P. G. , Holloway C. E. , Byrne M. P. , Lambert F. H. , Webb M. J. 
Published: August 2023

AbstractCloud feedbacks are the leading cause of uncertainty in climate sensitivity. The complex coupling between clouds and the large‐scale circulation in the tropics contributes to this uncertainty. To address this problem, the coupling between clouds and circulation in the latest generation of climate models is compared to observations. Significant biases are identified in the models. The implications of these biases are assessed by combining observations of the present day with future changes predicted by models to calculate observationally constrained feedbacks. For the dynamic cloud feedback (i.e., due to changes in circulation), the observationally constrained values are consistently larger than the model‐only values. This is due to models failing to capture a nonlinear minimum in cloud brightness for weakly descending regimes. Consequently, while the models consistently predict that these regimes increase in frequency in association with a weakening tropical circulation, they underestimate the positive cloud feedback associated with this increase.
Revisiting the Variation of the Ionospheric Irregularities in the Low Latitude Region of China Based on Small Regional Geodetic GNSS Station Network
Authors: Gao H. Y. , Zhang D. H. , Liu Z. Z. , Sun S. J. , Hao Y. Q. , Xiao Z. 
Published: August 2023

AbstractThe rate of total electron content index (ROTI) and loss of lock (LoL) from global navigation satellite system (GNSS) observations are an important data source for ionospheric scintillation study. However, there are certain limitations of these data in ionospheric scintillation study, and clearing these limitations is important to understand the results from these data. In this paper, the variation of the ionospheric scintillation is revisited based on LoL and ROTI from a spatial dense GNSS network in the low latitude region of China. Via a priori knowledge of scintillation morphology, the method to determine the baseline ROTI for discriminating quiet and disturbed conditions is provided, and the abnormal data of ROTI and LoL unrelated to ionosphere are found and eliminated. Results show that the data examination is necessary. Using the qualified ROTI and LoL, the morphological variations of ionospheric irregularities are revisited. The temporal variation of ROTI and LoL are generally consistent, but there are some discrepancies. The maximum LoL occurrence is at about 21:00 LT, it is between 20:00 and 23:00 LT for ROTI. For spatial distribution, both parameters reach maximum occurrence in the southwest direction, but LoL is more concentrated. The azimuth range of maximum occurrence is 180–190° for LoL and 210–220° for ROTI. Statistically, the correlation between LoL occurrence and ROTI value from observation of single GNSS station is relatively good when ROTI <5 TECU/min, but it becomes worse when ROTI >5 TECU/min. However, their correlation can be greatly improved when data are averaged among all the stations.
Role of dendritic cells in MYD88-mediated immune recognition and osteoinduction initiated by the implantation of biomaterials
Authors: Zhao Zifan , Zhao Qin , Chen Hu , Chen Fanfan , Wang Feifei , Tang Hua , Xia Haibin , Zhou Yongsheng , Sun Yuchun 
Published: August 2023

AbstractBone substitute material implantation has become an important treatment strategy for the repair of oral and maxillofacial bone defects. Recent studies have shown that appropriate inflammatory and immune cells are essential factors in the process of osteoinduction of bone substitute materials. Previous studies have mainly focused on innate immune cells such as macrophages. In our previous work, we found that T lymphocytes, as adaptive immune cells, are also essential in the osteoinduction procedure. As the most important antigen-presenting cell, whether dendritic cells (DCs) can recognize non-antigen biomaterials and participate in osteoinduction was still unclear. In this study, we found that surgical trauma associated with materials implantation induces necrocytosis, and this causes the release of high mobility group protein-1 (HMGB1), which is adsorbed on the surface of bone substitute materials. Subsequently, HMGB1-adsorbed materials were recognized by the TLR4-MYD88-NFκB signal axis of dendritic cells, and the inflammatory response was activated. Finally, activated DCs release regeneration-related chemokines, recruit mesenchymal stem cells, and initiate the osteoinduction process. This study sheds light on the immune-regeneration process after bone substitute materials implantation, points out a potential direction for the development of bone substitute materials, and provides guidance for the development of clinical surgical methods.
Extracellular matrix remodelling in dental pulp tissue of carious human teeth through the prism of single-cell RNA sequencing
Authors: Balic Anamaria , Perver Dilara , Pagella Pierfrancesco , Rehrauer Hubert , Stadlinger Bernd , Moor Andreas E. , Vogel Viola , Mitsiadis Thimios A. 
Published: August 2023

AbstractCarious lesions are bacteria-caused destructions of the mineralised dental tissues, marked by the simultaneous activation of immune responses and regenerative events within the soft dental pulp tissue. While major molecular players in tooth decay have been uncovered during the past years, a detailed map of the molecular and cellular landscape of the diseased pulp is still missing. In this study we used single-cell RNA sequencing analysis, supplemented with immunostaining, to generate a comprehensive single-cell atlas of the pulp of carious human teeth. Our data demonstrated modifications in the various cell clusters within the pulp of carious teeth, such as immune cells, mesenchymal stem cells (MSC) and fibroblasts, when compared to the pulp of healthy human teeth. Active immune response in the carious pulp tissue is accompanied by specific changes in the fibroblast and MSC clusters. These changes include the upregulation of genes encoding extracellular matrix (ECM) components, includingCOL1A1andFibronectin (FN1), and the enrichment of the fibroblast cluster with myofibroblasts. The incremental changes in the ECM composition of carious pulp tissues were further confirmed by immunostaining analyses. Assessment of the Fibronectin fibres under mechanical strain conditions showed a significant tension reduction in carious pulp tissues, compared to the healthy ones. The present data demonstrate molecular, cellular and biomechanical alterations in the pulp of human carious teeth, indicative of extensive ECM remodelling, reminiscent of fibrosis observed in other organs. This comprehensive atlas of carious human teeth can facilitate future studies of dental pathologies and enable comparative analyses across diseased organs.
Intravenous ketamine for benzodiazepine deprescription and withdrawal management in treatment-resistant depression: a preliminary report
Authors: Garel Nicolas , Greenway Kyle T. , Dinh-Williams Lê-Anh L. , Thibault-Levesque Julien , Jutras-Aswad Didier , Turecki Gustavo , Rej Soham , Richard-Devantoy Stephane 
Published: August 2023

AbstractWe present the first evidence that sub-anesthetic ketamine infusions for treatment resistant depression (TRD) may facilitate deprescription of long-term benzodiazepine/z-drugs (BZDRs). Long-term BZDR prescriptions are potentially harmful yet common, partly because of challenging withdrawal symptoms. Few pharmacological interventions have evidence for facilitating BZDR discontinuation, and none in patients actively suffering from TRD. In this ambi-directional cohort study, discontinuation of long-term (>6 month) BZDRs was attempted in 22 patients with severe unipolar or bipolar TRD receiving a course of six subanesthetic ketamine infusions over four weeks. We investigated the rates of successful BZDRs deprescription, trajectories of acute psychological withdrawal symptoms, and subsequent BZDRs abstinence during a mean follow-up of 1 year (primary outcome). Clinically significant deteriorations in depression, anxiety, sleep, and/or suicidality during the acute BZDR discontinuation phase were measured by repeated standardized scales and analyzed by latent growth curve models and percent correct classification analysis. Of the 22 eligible patients, all enrolled in this study and 91% (20/22) successfully discontinued all BZDRs by the end of the 4-week intervention, confirmed by urinary analyses. Less than 25% of discontinuers experienced any significant worsening of anxiety, depression, sleep difficulties, or suicidality during treatment. During follow-up (mean [range] duration, 12 [3–24] months), 64% (14/22) of patients remained abstinent from any BZDRs. These preliminary results suggest that ketamine infusions for TRD may facilitate the deprescription of BZDRs, even in patients with active depressive symptoms and significant comorbidity. Further investigation is warranted into this potential novel application of ketamine.
A multiplexed bacterial two-hybrid for rapid characterization of protein–protein interactions and iterative protein design
Authors: Boldridge W. Clifford , Ljubetič Ajasja , Kim Hwangbeom , Lubock Nathan , Szilágyi Dániel , Lee Jonathan , Brodnik Andrej , Jerala Roman , Kosuri Sriram 
Published: August 2023

AbstractProtein-protein interactions (PPIs) are crucial for biological functions and have applications ranging from drug design to synthetic cell circuits. Coiled-coils have been used as a model to study the sequence determinants of specificity. However, building well-behaved sets of orthogonal pairs of coiled-coils remains challenging due to inaccurate predictions of orthogonality and difficulties in testing at scale. To address this, we develop the next-generation bacterial two-hybrid (NGB2H) method, which allows for the rapid exploration of interactions of programmed protein libraries in a quantitative and scalable way using next-generation sequencing readout. We design, build, and test large sets of orthogonal synthetic coiled-coils, assayed over 8,000 PPIs, and used the dataset to train a more accurate coiled-coil scoring algorithm (iCipa). After characterizing nearly 18,000 new PPIs, we identify to the best of our knowledge the largest set of orthogonal coiled-coils to date, with fifteen on-target interactions. Our approach provides a powerful tool for the design of orthogonal PPIs.
Proteogenomic analysis reveals RNA as a source for tumor-agnostic neoantigen identification
Authors: Tretter Celina , de Andrade Krätzig Niklas , Pecoraro Matteo , Lange Sebastian , Seifert Philipp , von Frankenberg Clara , Untch Johannes , Zuleger Gabriela , Wilhelm Mathias , Zolg Daniel P. , Dreyer Florian S. , Bräunlein Eva , Engleitner Thomas , Uhrig Sebastian , Boxberg Melanie , Steiger Katja , Slotta-Huspenina Julia , Ochsenreither Sebastian , von Bubnoff Nikolas , Bauer Sebastian , Boerries Melanie , Jost Philipp J. , Schenck Kristina , Dresing Iska , Bassermann Florian , Friess Helmut , Reim Daniel , Grützmann Konrad , Pfütze Katrin , Klink Barbara , Schröck Evelin , Haller Bernhard , Kuster Bernhard , Mann Matthias , Weichert Wilko , Fröhling Stefan , Rad Roland , Hiltensperger Michael , Krackhardt Angela M. 
Published: August 2023

AbstractSystemic pan-tumor analyses may reveal the significance of common features implicated in cancer immunogenicity and patient survival. Here, we provide a comprehensive multi-omics data set for 32 patients across 25 tumor types for proteogenomic-based discovery of neoantigens. By using an optimized computational approach, we discover a large number of tumor-specific and tumor-associated antigens. To create a pipeline for the identification of neoantigens in our cohort, we combine DNA and RNA sequencing with MS-based immunopeptidomics of tumor specimens, followed by the assessment of their immunogenicity and an in-depth validation process. We detect a broad variety of non-canonical HLA-binding peptides in the majority of patients demonstrating partially immunogenicity. Our validation process allows for the selection of 32 potential neoantigen candidates. The majority of neoantigen candidates originates from variants identified in the RNA data set, illustrating the relevance of RNA as a still understudied source of cancer antigens. This study underlines the importance of RNA-centered variant detection for the identification of shared biomarkers and potentially relevant neoantigen candidates.
The sharp structural switch of covalent cages mediated by subtle variation of directing groups
Authors: Chen Qiong , Li Zhaoyong , Lei Ye , Chen Yixin , Tang Hua , Wu Guangcheng , Sun Bin , Wei Yuxi , Jiao Tianyu , Zhang Songna , Huang Feihe , Wang Linjun , Li Hao 
Published: August 2023

AbstractIt is considered a more formidable task to precisely control the self-assembled products containing purely covalent components, due to a lack of intrinsic templates such as transition metals to suppress entropy loss during self-assembly. Here, we attempt to tackle this challenge by using directing groups. That is, the self-assembly products of condensing a 1:2 mixture of a tetraformyl and a biamine can be precisely controlled by slightly changing the substituent groups in the aldehyde precursor. This is because different directing groups provide hydrogen bonds with different modes to the adjacent imine units, so that the building blocks are endowed with totally different conformations. Each conformation favors the formation of a specific product that is thus produced selectively, including chiral and achiral cages. These results of using a specific directing group to favor a target product pave the way for accomplishing atom economy in synthesizing purely covalent molecules without relying on toxic transition metal templates.
Photothermia at the nanoscale induces ferroptosis via nanoparticle degradation
Authors: Fromain Alexandre , Perez Jose Efrain , Van de Walle Aurore , Lalatonne Yoann , Wilhelm Claire 
Published: August 2023

AbstractThe Fe(II)-induced ferroptotic cell death pathway is an asset in cancer therapy, yet it calls into question the biocompatibility of magnetic nanoparticles. In the latter, Fe(II) is sequestered within the crystal structure and is released only upon nanoparticle degradation, a transition that is not well understood. Here, we dissect the chemical environment necessary for nanoparticle degradation and subsequent Fe(II) release. Importantly, temperature acts as an accelerator of the process and can be triggered remotely by laser-mediated photothermal conversion, as evidenced by the loss of the nanoparticles’ magnetic fingerprint. Remarkably, the local hot-spot temperature generated at the nanoscale can be measured in operando, in the vicinity of each nanoparticle, by comparing the photothermal-induced nanoparticle degradation patterns with those of global heating. Further, remote photothermal irradiation accelerates degradation inside cancer cells in a tumor spheroid model, with efficiency correlating with the endocytosis progression state of the nanoparticles. High-throughput imaging quantification of Fe2+ release, ROS generation, lipid peroxidation and cell death at the spheroid level confirm the synergistic thermo-ferroptotic therapy due to the photothermal degradation at the nanoparticle level.