bluuebunny/crossref_metadata_2025_split huggingface dataset:
A H3K27M-targeted vaccine in adults with diffuse midline glioma
Authors: Grassl Niklas , Poschke Isabel , Lindner Katharina , Bunse Lukas , Mildenberger Iris , Boschert Tamara , Jähne Kristine , Green Edward W. , Hülsmeyer Ingrid , Jünger Simone , Kessler Tobias , Suwala Abigail K. , Eisele Philipp , Breckwoldt Michael O. , Vajkoczy Peter , Grauer Oliver M. , Herrlinger Ulrich , Tonn Joerg-Christian , Denk Monika , Sahm Felix , Bendszus Martin , von Deimling Andreas , Winkler Frank , Wick Wolfgang , Platten Michael , Sahm Katharina 
Published: September 2023

AbstractSubstitution of lysine 27 to methionine in histone H3 (H3K27M) defines an aggressive subtype of diffuse glioma. Previous studies have shown that a H3K27M-specific long peptide vaccine (H3K27M-vac) induces mutation-specific immune responses that control H3K27M+ tumors in major histocompatibility complex-humanized mice. Here we describe a first-in-human treatment with H3K27M-vac of eight adult patients with progressive H3K27M+ diffuse midline glioma on a compassionate use basis. Five patients received H3K27M-vac combined with anti-PD-1 treatment based on physician’s discretion. Repeat vaccinations with H3K27M-vac were safe and induced CD4+ T cell-dominated, mutation-specific immune responses in five of eight patients across multiple human leukocyte antigen types. Median progression-free survival after vaccination was 6.2 months and median overall survival was 12.8 months. One patient with a strong mutation-specific T cell response after H3K27M-vac showed pseudoprogression followed by sustained complete remission for >31 months. Our data demonstrate safety and immunogenicity of H3K27M-vac in patients with progressive H3K27M+ diffuse midline glioma.
ChoCo: a Chord Corpus and a Data Transformation Workflow for Musical Harmony Knowledge Graphs
Authors: de Berardinis Jacopo , Meroño-Peñuela Albert , Poltronieri Andrea , Presutti Valentina 
Published: September 2023

AbstractVarious disconnected chord datasets are currently available for music analysis and information retrieval, but they are often limited by either their size, non-openness, lack of timed information, and interoperability. Together with the lack of overlapping repertoire coverage, this limits cross-corpus studies on harmony over time and across genres, and hampers research in computational music analysis (chord recognition, pattern mining, computational creativity), which needs access to large datasets. We contribute to address this gap, by releasing the Chord Corpus (ChoCo), a large-scale dataset that semantically integrates harmonic data from 18 different sources using heterogeneous representations and formats (Harte, Leadsheet, Roman numerals, ABC, etc.). We rely on JAMS (JSON Annotated Music Specification), a popular data structure for annotations in Music Information Retrieval, to represent and enrich chord-related information (chord, key, mode, etc.) in a uniform way. To achieve semantic integration, we design a novel ontology for modelling music annotations and the entities they involve (artists, scores, etc.), and we build a 30M-triple knowledge graph, including 4 K+ links to other datasets (MIDI-LD, LED).
Experts’ assessments of migration scenarios between the Middle East & North Africa and Europe
Authors: Boissonneault Michaël , Costa Rafael 
Published: September 2023

AbstractWe describe data collected among 138 migration experts about the repercussions of scenarios of social change on migration between the Middle East & North Africa and Europe, during the period 2021–2030. Scenarios include changes in the cultural, demographic, economic, and political determinants of migration in sending and receiving countries. Assessments focus on the change in the number of family, work, and return migrants, the number of refugees, and the likelihood of achieving safe, orderly, and regular migration. Experts were at the moment of the survey active in European research centers or European (supra-) national governmental or civil society organizations. The survey features a factorial design, which allows for identifying a causal relationship between the experts’ assessments and the scenarios of social change. Our data may be used to estimate projection models of future migration flows, map out what experts consider as critical migration issues for the region, and identify areas of agreement or disagreement between them. As such, our dataset may illuminate decision-making regarding migration policies in Europe and beyond.
Numerical study of unsteady tangent hyperbolic fuzzy hybrid nanofluid over an exponentially stretching surface
Authors: Nadeem Muhammad , Siddique Imran , Riaz Zakara , Makhdoum Basim M. , Zulqarnain Rana Muhammad , Sallah Mohammed 
Published: September 2023

AbstractThe significance of fuzzy volume percentage on the unsteady flow of MHD tangent hyperbolic fuzzy hybrid nanofluid towards an exponentially stretched surface is scrutinized. The heat transport mechanism is classified by Joule heating, nonlinear thermal radiation, boundary slippage, and convective circumstances. Ethylene glycol (EG) as a host fluid along with the nanomaterial’s Cu and$${\text{Al}}_{{2}} {\text{O}}_{{3}}$$Al2O3are used for heat transfer analysis is also considered in this investigation. The nonlinear governing PDEs are meant to be converted into ODEs employing appropriate renovations. Then, a built-in MATLAB program bvp4c is employed to acquire the outcome of the given problem. The variation of flow rate, thermal heat, drag force and Nusselt number and their influence on fluid flow with heat transfer have been scrutinized through graphs. An increase in thermal radiation, power law index and nanoparticle volume friction heightens the heat transmission rate. Skin friction is diminished by swelling the power-law index, Weissenberg number, and ratio parameters, whereas it is increased by enhancing the magnetic parameter. The heat transfer rate upsurges with an increase in Weissenberg number and nanoparticle volume fraction. Also, the nanoparticle volume percentage is expressed as a triangular fuzzy number (TFN). The triangular membership function (MF) and TFN are regulated by the$$\chi - {\text{cut}}$$χ-cutparameter, which has a range of 0 to 1. In comparison to nanofluids, hybrid nanofluids have a higher heat transmission rate, according to the fuzzy analysis. This investigation has applications in the areas of paper manufacturing, metal sheet cooling and crystal growth.
Evidence for a metacognitive awareness of autobiographical memory organisation
Authors: Carreras Fabien , Moulin Chris J. A. 
Published: September 2023

AbstractModels of autobiographical memory (AM) recall posit some form of control process, but the extent to which we can reflect on this form of retrieval is under-researched. Here we propose a method for measuring such metacognitive awareness in AM. Since the verification of personal facts is difficult, we based our design on AM organisation. AMs are proposed to be organised into a coherent life story, that is, a subjective chronology reflecting the goals of the individual over time. We investigated the metacognitive awareness of this coherence. Eighty-three participants generated AMs and made two judgements of order for pairs of memories and gave a confidence rating. We found that participants were indeed able to distinguish pairs of memories that were coherent with their life story chronology from pairs which were not. We also found a significant effect of response time and task difficulty on confidence, suggesting that judgement of order fluency was determinant for metacognitive evaluation. This suggests common properties between metacognitive abilities related to autobiographical memory and those related to other forms of memory.
Investigating proliferation and differentiation capacities of Hanwoo steer myosatellite cells at different passages for developing cell-cultured meat
Authors: Park Sanghun , Park Gyutae , Oh Sehyuk , Park Yunhwan , Kim Yuna , Kim Jaeyoung , Choi Jungseok 
Published: September 2023

AbstractThe aim of study was to investigate proliferation and differentiation capacities of Hanwoo myosatellite cells for the development of Hanwoo cell cultures. From P1 to P19, the number of live cells decreased and the cell size increased. It was confirmed that the PAX7 mRNA was higher in P3 than P6 and P9 (p < 0.05). The maximum differentiation score was measured from P1 to P12. The maximum differentiation score maintained high from P1 to P10. Immunostaining was performed for both P1 and P10 cells to investigate differentiation characteristics. And there were no significant differences in differentiation characteristics between P1 and P10 cells. MYOG mRNA was low, whereas C-FOS mRNA was high (p < 0.05) in the late passage. Myosin and Tom20 protein also showed low values in the late passage (p < 0.05). In conclusion, our results suggest that it is appropriate to use P1 to P10 for the production of cultured meat using Hanwoo muscle cells. If cell culture meat production is performed without differentiation, the passage range may increase further. These results provide basic essential data required for further development of Hanwoo cell cultures, which could provide a valuable source of protein for human populations in the future.
Soft robotic patterning of liquids
Authors: Sasso Giacomo , Pugno Nicola , Busfield James J. C. , Carpi Federico 
Published: September 2023

AbstractPatterning of two or more liquids, either homogeneous in each phase or mixed with particles (including biological matter, such as cells and proteins), by controlling their flow dynamics, is relevant to several applications. Examples include dynamic spatial confinement of liquids in microfluidic systems (such as lab-on-a-chip and organ-on-a-chip devices) or structuring of polymers to modulate various properties (such as strength, conductivity, transparency and surface finishing). State-of-the-art strategies use various technologies, including positioners, shakers and acoustic actuators, which often combine limited versatility of mixing with significant inefficiency, energy consumption, and noise, as well as tendency to increase the temperature of the liquids. Here, we describe a new kind of robotic mixers of liquids, based on electro-responsive smart materials (dielectric elastomer actuators). We show for the first time how an efficient soft robotic device can be used to produce, via combinations of rotations and translations, various spatial patterns in liquids and maintain them stable for a few minutes. Moreover, we show that, as compared to a conventional orbital shaker, the new type of robotic device can mix liquids with a higher efficacy (~ 94% relative to ~ 80%, after 8 min of mixing) and with a significantly lower increase of the liquids’ temperature (+ 1 °C relative to + 5 °C, after 6 h of mixing). This is especially beneficial when mixing should occur according to controllable spatial features and should involve temperature-sensitive matter (such as biological cells, proteins, pre-polymers and other thermolabile molecules).
Raidionics: an open software for pre- and postoperative central nervous system tumor segmentation and standardized reporting
Authors: Bouget David , Alsinan Demah , Gaitan Valeria , Helland Ragnhild Holden , Pedersen André , Solheim Ole , Reinertsen Ingerid 
Published: September 2023

AbstractFor patients suffering from central nervous system tumors, prognosis estimation, treatment decisions, and postoperative assessments are made from the analysis of a set of magnetic resonance (MR) scans. Currently, the lack of open tools for standardized and automatic tumor segmentation and generation of clinical reports, incorporating relevant tumor characteristics, leads to potential risks from inherent decisions’ subjectivity. To tackle this problem, the proposed Raidionics open-source software has been developed, offering both a user-friendly graphical user interface and stable processing backend. The software includes preoperative segmentation models for each of the most common tumor types (i.e., glioblastomas, lower grade gliomas, meningiomas, and metastases), together with one early postoperative glioblastoma segmentation model. Preoperative segmentation performances were quite homogeneous across the four different brain tumor types, with an average Dice around 85% and patient-wise recall and precision around 95%. Postoperatively, performances were lower with an average Dice of 41%. Overall, the generation of a standardized clinical report, including the tumor segmentation and features computation, requires about ten minutes on a regular laptop. The proposed Raidionics software is the first open solution enabling an easy use of state-of-the-art segmentation models for all major tumor types, including preoperative and postsurgical standardized reports.
Advancing autologous urothelial micrografting and composite tubular grafts for future single-staged urogenital reconstructions
Authors: Juul Nikolai , Ajalloueian Fatemeh , Willacy Oliver , Chamorro Clara Ibel , Fossum Magdalena 
Published: September 2023

AbstractUrogenital reconstructive surgery can be impeded by lack of tissue. Further developments within the discipline of tissue engineering may be part of a solution to improve clinical outcomes. In this study, we aimed to design an accessible and easily assembled tubular graft with autologous tissue, which could be constructed and implanted as a single-staged surgical procedure within the premises of an ordinary operating room. The ultimate goals would be to optimize current treatment-options for long-term urinary diversion. Therefore, we evaluated the optimal composition of a collagen-based scaffold with urothelial micrografts in vitro, and followingly implanted the construct in vivo as a bladder conduit. The scaffold was evaluated in relation to cell regeneration, permeability, and biomechanical properties. After establishing an optimized scaffold in vitro, consisting of high-density collagen with submerged autologous micrografts and reinforced with a mesh and stent, the construct was successfully implanted in an in vivo minipig model. The construct assemblance and surgical implantation proved feasible within the timeframe of a routine surgical intervention, and the animal quickly recovered postoperatively. Three weeks post-implantation, the conduit demonstrated good host-integration with a multilayered luminal urothelium. Our findings have encouraged us to support its use in more extensive preclinical large-animal studies.
Salmonid polysialyltransferases to generate a variety of sialic acid polymers
Authors: Decloquement Mathieu , Venuto Marzia Tindara , Cogez Virginie , Steinmetz Anna , Schulz Céline , Lion Cédric , Noel Maxence , Rigolot Vincent , Teppa Roxana Elin , Biot Christophe , Rebl Alexander , Galuska Sebastian Peter , Harduin-Lepers Anne 
Published: September 2023

AbstractThe human polysialyltransferases ST8Sia II and ST8Sia IV catalyze the transfer of several Neu5Ac residues onto glycoproteins forming homopolymers with essential roles during different physiological processes. In salmonids, heterogeneous set of sialic acids polymers have been described in ovary and on eggs cell surface and three genes st8sia4, st8sia2-r1 and st8sia2-r2 were identified that could be implicated in these heteropolymers. The three polysialyltransferases from the salmonid Coregonus maraena were cloned, recombinantly expressed in HEK293 cells and the ST8Sia IV was biochemically characterized. The MicroPlate Sialyltransferase Assay and the non-natural donor substrate CMP-SiaNAl were used to demonstrate enzyme activity and optimize polysialylation reactions. Polysialylation was also carried out with natural donor substrates CMP-Neu5Ac, CMP-Neu5Gc and CMP-Kdn in cell-free and cell-based assays and structural analyses of polysialylated products using the anti-polySia monoclonal antibody 735 and endoneuraminidase N and HPLC approaches. Our data highlighted distinct specificities of human and salmonid polysialyltransferases with notable differences in donor substrates use and the capacity of fish enzymes to generate heteropolymers. This study further suggested an evolution of the biological functions of polySia. C. maraena ST8Sia IV of particular interest to modify glycoproteins with a variety of polySia chains.
Secretomes of M1 and M2 macrophages decrease the release of neutrophil extracellular traps
Authors: Manda-Handzlik Aneta , Cieloch Adrianna , Kuźmicka Weronika , Mroczek Agnieszka , Stelmaszczyk-Emmel Anna , Demkow Urszula , Wachowska Małgorzata 
Published: September 2023

AbstractThe release of neutrophil extracellular traps (NETs) can be either beneficial or detrimental for the host, thus it is necessary to maintain a balance between formation and clearance of NETs. Multiple physiological factors eliciting NET release have been identified, yet the studies on natural signals limiting NET formation have been scarce. Accordingly, our aim was to analyze whether cytokines or immune cells can inhibit NET formation. To that end, human granulocytes were incubated with interleukin (IL)-4, IL-10, transforming growth factor beta-2 or adenosine and then stimulated to release NETs. Additionally, neutrophils were cultured in the presence of natural killer (NK) cells, regulatory T cells (Tregs), pro-inflammatory or anti-inflammatory macrophages (M1 or M2 macrophages), or in the presence of NK/Tregs/M1 macrophages or M2 macrophages-conditioned medium and subsequently stimulated to release NETs. Our studies showed that secretome of M1 and M2 macrophages, but not of NK cells and Tregs, diminishes NET formation. Co-culture experiments did not reveal any effect of immune cells on NET release. No effect of cytokines or adenosine on NET release was found. This study highlights the importance of paracrine signaling at the site of infection and is the first to show that macrophage secretome can regulate NET formation.
Treatment-associated network dynamics in patients with globus sensations: a proof-of-concept study
Authors: Imperiale Marina N. , Lieb Roselind , Meinlschmidt Gunther 
Published: September 2023

AbstractIn this proof-of-concept study, we used a systems perspective to conceptualize and investigate treatment-related dynamics (temporal and cross-sectional associations) of symptoms and elements related to the manifestation of a common functional somatic syndrome (FSS), Globus Sensations (GS). We analyzed data from 100 patients (M = 47.1 years, SD = 14.4 years; 64% female) with GS who received eight sessions of group psychotherapy in the context of a randomized controlled trial (RCT). Symptoms and elements were assessed after each treatment session. We applied a multilevel graphical vector-autoregression (ml GVAR) model approach resulting in three separate, complementary networks (temporal, contemporaneous, and between-subject) for an affective, cognitive, and behavioral dimension, respectively. GS were not temporally associated with any affective, cognitive, and behavioral elements. Temporally, catastrophizing cognitions predicted bodily weakness (r = 0.14, p < 0.01, 95% confidence interval (CI) [0.04–0.23]) and GS predicted somatic distress (r = 0.18, p < 0.05, 95% CI [0.04–0.33]). Potential causal pathways between catastrophizing cognitions and bodily weakness as well as GS and somatic distress may reflect treatment-related temporal change processes in patients with GS. Our study illustrates how dynamic NA can be used in the context of outcome research.
Identification of stromal cell-derived factor 4 as a liquid biopsy-based diagnostic marker in solid cancers
Authors: Shinozuka Takahiro , Kanda Mitsuro , Shimizu Dai , Umeda Shinichi , Takami Hideki , Inokawa Yoshikuni , Hattori Norifumi , Hayashi Masamichi , Tanaka Chie , Nakayama Goro , Kodera Yasuhiro 
Published: September 2023

AbstractThere is a need for serum diagnostic biomarkers to improve the prognosis of solid malignant tumors. Here, we conducted a single-institutional study to evaluate the diagnostic performance of serum stromal cell-derived factor 4 (SDF4) levels in cancer patients. Serum samples were collected from a total of 582 patients with solid cancers including gastric cancer (GC) and 80 healthy volunteers. SDF4 protein levels in sera, and conditioned media or lysates of human GC cell lines were measured by enzyme-linked immunosorbent assay, and those in GC tissue by immunohistochemistry. Serum SDF4 levels were higher in patients with cancer than the healthy control in all cancer type. Regarding GC, serum SDF4 levels distinguished healthy controls from GC patients with the area under the curve value of 0.973, sensitivity of 89%, and specificity of 99%. Serum SDF4 levels were significantly elevated in patient with early stage GC. In immunohistochemistry, the frequency of SDF4-positive GC tumors did not vary significantly between GC stages. The ability of human GC cell lines to both produce and secrete SDF4 was confirmed in vitro. In conclusion, serum SDF4 levels could be a promising candidate for a novel diagnostic biomarker for GC and other malignancies.
Novel iodoquinazolinones bearing sulfonamide moiety as potential antioxidants and neuroprotectors
Authors: Soliman Aiten M. , Ghorab Walid M. , Lotfy Dina M. , Karam Heba M. , Ghorab Mostafa M. , Ramadan Laila A. 
Published: September 2023

AbstractIn a search for new antioxidants, a set of new iodoquinazolinone derivatives bearing benzenesulfonamide moiety and variable acetamide pharmacophores 5–17 were designed and synthesized. The structures of the synthesized compounds were confirmed based on spectral data. Compounds 5–17 were screened using in vitro assay for their antioxidant potential and acetylcholinesterase (AChE) inhibitory activity. The 2-(6-iodo-4-oxo-3-(4-sulfamoylphenyl)-3,4-dihydroquinazolin-2-ylthio)-N-(pyrazin-2-yl) acetamide 14 was the most active scaffold with potent AChE inhibitory activity. Compound 14 showed relative safety with a median lethal dose of 300 mg/kg (LD50 = 300 mg/kg), in an acute toxicity study. The possible antioxidant and neuroprotective activities of 14 were evaluated in irradiated mice. Compound 14 possessed in vivo AChE inhibitory activity and was able to modify the brain neurotransmitters. It was able to cause mitigation of gamma radiation-induced oxidative stress verified by the decline in Myeloperoxidase (MPO) and increase of glutathione (GSH) levels. Also, 14 restored the alterations in behavioral tests. Molecular docking of 14 was performed inside MPO and AChE active sites and showed the same binding interactions as that of the co-crystallized ligands considering the binding possibilities and energy scores. These findings would support that 14 could be considered a promising antioxidant with a neuromodulatory effect.