bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mosaic integration of spatial multi-omics with SpaMosaic
Authors: Chen Jinmiao , Yan Xuhua , Ang Kok Siong , Olst Lynn van , Edwards Alex , Watson Thomas , Zheng Ruiqing , Fan Rong , Li Min , Gate David 
Published: December 2024

Abstract

With the advent of spatial multi-omics, we can mosaic integrate diverse datasets with partially overlapping modalities to construct consensus multi-modal spatial atlases of the source tissue. SpaMosaic is a spatial multi-omics mosaic integration tool that employs contrastive learning and graph neural networks to construct a modality-agnostic and batch-corrected latent space suited for analyses like spatial domain identification and imputing missing omes. Using simulated and experimentally acquired datasets, we benchmarked SpaMosaic against single-cell multi-omics mosaic integration methods. The experimental data encompassed RNA and protein abundance, chromatin accessibility or histone modifications, acquired from brain, embryo, tonsil, and lymph node tissues. SpaMosaic achieved superior performance over existing methods in identifying known spatial domains with enhanced resolution and clarity while reducing noise and batch effects. It also ranked top for modality alignment, enabling seamless diagonal integration without the need for image registration. After integration, SpaMosaic can also impute missing modalities. With a mosaic set of mouse brain data with RNA and different epigenomic modalities, we integrated and imputed the missing omics. There we found the imputed gene activity scores of activating and silencing histone marks show the correct correlation with RNA. Moreover, we uncovered more region-specific genes and pathways showing the correct transcriptome-epigenome correlations in the imputed histone modification than in the measured chromatin accessibility modalities. Lastly, SpaMosaic’s imputation also allows the inference of relationships between different modalities without requiring co-profiling from the same section.
Multi-purpose enzyme-substrate interaction prediction with progressive conditional deep learning
Authors: Nie Zhiwei , Zhang Hongyu , Jiang Hao , Liu Yutian , Huang Xiansong , Xu Fan , Tian Yonghong , Chen Jie , Zhang Wen-Bin 
Published: December 2024

Abstract

Understanding and modeling enzyme-substrate interactions is crucial for designing enzymes with tailored functions, thereby advancing the field of enzyme engineering. The diversity of downstream tasks related to enzyme catalysis calls for a computational architecture that actively perceives enzyme-substrate interaction patterns to make unified predictions for multiple objectives. Here, we introduce MESI, a progressive conditional deep learning framework for multi-purpose enzyme-substrate interaction prediction. By decomposing the modeling of enzyme-substrate interactions into a two-stage process, MESI incorporates two conditional networks that respectively emphasize enzymatic reaction specificity and crucial catalytic interactions, facilitating a gradual shift in the feature latent space from the general domain to the catalysis-aware domain. Across various downstream tasks, MESI consistently outperforms state-of-the-art methods on top of a unified architecture. Furthermore, the proposed conditional networks implicitly capture the fundamental patterns of enzyme catalysis with negligible additional computational overhead, as evidenced by extensive ablation experiments. With the support of this conditional perception mechanism, MESI enables cost-effective and accurate identification of active sites without requiring any structural information, highlighting enzyme residues and substrate functional groups involved in diverse and critical catalytic interactions. Overall, MESI represents a unified prediction paradigm for downstream tasks related to enzyme catalysis, paving the way for deep-learning-based catalytic mechanism cracking and enzyme engineering with strong generalization and interpretability.
CircCAMSAP1 Suppresses Uveal Melanoma Progression via miR-1182 Sponging and NONO Regulation
Authors: Wu wencan , Sun Lan-Fang , Liao Qianling , Wang Ya-Nan , Yu Bo , Wu Ende , Wei Jinfei , Ke Xiaoyu , Liu Xiaojiang , Pan Zhaoqi , Yu Zhonghao , Gu Jiayi , Yan Wentao , Tu Yunhai 
Published: December 2024

Abstract

Uveal melanoma (UM) is an extremely aggressive tumor with an unfavorable prognosis and few therapeutic options. Understanding the critical molecular regulators in UM is essential to improving treatment. Circular RNAs (circRNAs) have recently been recognized as pivotal regulators in cancer, although their roles in UM remain largely unexplored. Here, it was found that circCAMSAP1 was significantly downregulated in UM tissues and cell lines. CircCAMSAP1 was observed to act as a sponge for miR-1182, modulating NONO expression to reduce cell proliferation and induce apoptosis. Clinical analysis showed that patients with high NONO levels had significantly better prognoses. Additionally, bioinformatics analysis of circCAMSAP1-overexpressing cells revealed its association with MAPK signaling pathway. The findings suggest the potential of circCAMSAP1 as a biomarker and target for diagnosing and treating UM, offering new avenues for improving patient outcomes.
Face Your Fears: Virtual reality-based cognitive behavioral therapy (VR-CBT) versus standard CBT for paranoia in patients with schizophrenia spectrum disorders: Results of a randomized clinical trial
Authors: Glenthøj Louise , Vernal Ditte , Due Anne Sofie , Mariegaard Lise , Pinkham Amy , Austin Stephen , Vos Maarten , Christensen Mads , Hansen Nina , Smith Lisa , Hjorthøj Carsten , Veling Wim , Nordentoft Merete , Jeppesen Ulrik 
Published: December 2024

Abstract

Paranoia is a distressing and prevalent symptom in schizophrenia spectrum disorders (SSD). This assessor-masked, randomized parallel group superiority trial investigated the efficacy of virtual reality-based cognitive behavioral therapy (VR-CBT) compared to standard CBT targeting paranoia. A total of 259 participants with SSD and paranoia were randomized to receive 10 sessions of VR-CBT or standard CBT, excluding five who later withdrew informed consent. Intention-to-treat analyses included 254 participants (VR-CBT: n = 126, standard CBT: n = 128). Outcomes were assessed at baseline, treatment cessation (3 months) and follow-up (9 months). The primary outcome was the Green Paranoid Thought Scale (GPTS) subscale Ideas of Persecution, measured at treatment cessation. Linear mixed-model analyses revealed no statistically significant difference between the groups at endpoint (adjusted mean difference 1.12, 95% CI: -1.75 to 3.99 Cohen’s d=0.10; p=0.44). Both groups demonstrated large with-in group improvements on the primary outcome (VR-CBT: Cohen’s d=0.88; standard CBT: Cohen’s d=0.87). No deaths or violent incidents involving law enforcement occurred during the study. These findings do not support the superiority of VR-CBT over standard CBT; rather, both interventions significantly reduced paranoia and represent promising treatment options for SSD-related paranoia.
ClinicalTrials.gov identifier NCT04902066.
ТЕОРИЯ ПРОВОЦИРОВАНИЯ М. М. БАХТИНАОТ САМОРАСКРЫТИЯ К ДИАЛОГУ
Authors: Сычев А.А. 
Published: December 2024

В статье прослеживается эволюция понятия «провоцирование» от литературоведческого неологизма до философской категории с глубинными эпистемологическими и онтологическими смыслами. Показано, что это понятие первоначально применялось М.М. Бахтиным для обозначения системы приемов, при помощи которых Ф.М. Достоевский побуждает своих героев к самораскрытию. В поздних работах Бахтин видит в провоцировании побуждение к диалогу: человеческая жизнь для него есть диалогический ответ на провоцирующие факторы. Термин «провоцирование» применим и к творчеству Бахтина, мысль которого избегает центра и концентрируется на периферийных смыслах. Эксцентрический взгляд позволяет задать дистанцию по отношению к идее и представить бесконечное число ракурсов ее рассмотрения, окончательно не оформляя ее.
The article traces the evolution of the concept of provocation in the works of Mikhail Bakhtin: from the literary neologism to the philosophical category with profound epistemological and ontological meanings. It is shown that this concept was originally used by Bakhtin to denote the system of tools which helped Fyodor Dostoyevsky to make his characters disclose themselves. In his later works Bakhtin sees in provoking a stimulus for dialogue: human life is a dialogical response to provoking factors. Moreover, the term “provocation” is applicable to Bakhtin's works, whose thought is concentrated on the meanings existing not in the center, but on the periphery. This eccentric view allows to set a distance in relation to the central idea and propose an infinite number of views about it, without formulating it.
ИСТОРИЯ, ВЛАСТЬ И ИДЕОЛОГИЯВ СТАЛИНСКУЮ ЭПОХУ
Authors: Холматов Т.К. 
Published: December 2024

Рец. на кн.: Дубровский А.М. Власть и историческая мысль в СССР (1930-1950-е гг.) (М.: Политическая энциклопедия, 2017. 622 с.); Тихонов В.В. Идеологические кампании «позднего сталинизма» и советская историческая наука (середина 1940-х – 1953 г.) (М.; СПб.: Нестор-История, 2016. 424 с.).
Reviews: A.M. Dubrovskiy, Power and historical thought in USSR (1930s – 1950s) (Moscow, 2017. 622 p.) and V.V. Tikhonov, Ideological campaigns of “late Stalinism” and Soviet historical science (mid 1940’s – 1953) (Moscow; Saint-Petersburg, 2016. 424 p.).
КРИТИЧЕСКИЕ ИССЛЕДОВАНИЯ ТЕРРОРИЗМА ИАНТРОПОЛОГИЯ НАСИЛИЯ
Authors: Игаева К.В. 
Published: December 2024

Статья представляет обзор «критических исследований терроризма» (CTS) – междисциплинарного направления, возникшего в 2000-е гг. на стыке философии, политологии, истории с целью проблематизировать природу терроризма и его эволюцию в новейшее время. Отталкиваясь от критической теории и постструктурализма М. Фуко, сторонники CTS анализируют механизмы конструирования границы между государственной политикой террора, колониальными восстаниями и широким спектром явлений «нового терроризма», экотерроризма, кибертерроризма, контртеррористическими и миротворческими операциями. Для понимания этого направления особенно репрезентативной представляется «Антология критических исследований терроризма» (2016). Ее анализ позволяет обозначить перспективы CTS, а также внутренние противоречия и теоретические разногласия их сторонников.
The article provides an overview of the "critical terrorism studies" (CTS), an interdisciplinary field of research that was formed in the 2000s. at the intersection of philosophy, political science, and history. The goal of its followers is to problematize the nature of terrorism and its evolution in the XX c. Starting from the critical theory and poststructuralism of Michel Foucault, CTS analyze the mechanisms for constructing the border between the state policy of terror, colonial uprisings, as well as a wide range of "new terrorism" phenomena, ecoterrorism, cyberterrorism, counterterrorism and peacekeeping operations. Especially representative for understanding this new line of research is the "Routledge Handbook of Critical Terrorism Studies" (ed. R. Jackson, 2016). Its analysis allows us to outline the prospects of CTS, as well as the internal contradictions and theoretical differences of its supporters.
Круглый стол: ИДЕЯ ИСТОРИИ В ЕВРОПЕЙСКОЙИНТЕЛЛЕКТУАЛЬНОЙ КУЛЬТУРЕ XVI–XVIII вв.
Authors: Серегина А.Ю. 
Published: December 2024

Обзор круглого стола «Идея истории в европейской интеллектуальной культуре XVI–XVIII вв. Памяти Констанс Блэквелл» (28 ноября 2018 года), организованного Центром интеллектуальной истории и Отделом историко-теоретических исследований Института всеобщей истории РАН.
Overview of the round table “The idea of history in European intellectual culture of the XVI–XVIII cс. In memory of Constance Blackwell ”(November 28, 2018), organized by the Center for Intellectual History and the Department of Historical and Theoretical Research of the Institute of General History (Russian Academy of Sciences).
Modelling of shallow groundwater levels and interaction with drainage system and streams under the impact of climate change
Authors: Thorndahl Søren , Nielsen Rasmus Vest 
Published: December 2024

ABSTRACT
Under the impact of climate change, groundwater levels are anticipated to increase in temperate climatological zones with increased precipitation and sea level rise. Urban areas located at low elevations are especially at risk, and increased shallow groundwater levels can lead to flooding, water seepage into basements, capacity problems in water infrastructure, etc. Furthermore, old sewer systems can act as drains by allowing groundwater to seep into the sewer system. This process can artificially maintain the groundwater level low, and therefore if the sewer system is rehabilitated, the problems are even increased further if necessary solutions are not included in the planning process. In this article, we analyze an urban catchment in Aalborg, Denmark, which is currently facing problems with high groundwater levels. By simulating the groundwater interaction with sewer systems and watercourses, we show that the groundwater table can increase up to 1 m under the impact of sewer rehabilitation and climate change. This increase will lead to significant flood risk in the residential area. We propose multiple technical solution scenarios and evaluate their effectiveness, demonstrating how the impact of increasing groundwater levels can be mitigated through implementation of drains during sewer reconstruction, but not completely avoided.
Using digitalisation for a real-word implementation of an early warning system for water leakages
Authors: Oberascher Martin , Maussner Claudia , Hinteregger Petra , Knapp Jürgen , Halm Andreas , Kaiser Mario , Gruber Wolfgang , Truppe Dietmar , Eggeling Eva , Sitzenfrei Robert 
Published: December 2024

ABSTRACT

A timely detection and localisation of leakages is of highest interest to reduce water losses. As stated in the literature, most leakage detection and localisation methods consider unrealistic assumptions and are rarely assessed under real-world conditions. To overcome these limitations, an early warning system for new leakages is implemented in a real-world case study. Therefore, the case study is equipped with digital water meters at customer sites to monitor household water demands at 15-min resolution. These data are subject to the European General Data Protection Regulation, which requires the active customers consent (and therefore some refusals), and are also subject to data loss during transmission due to the use of wireless data communication. The incomplete data (costumer refusals and transmission failures) were then used for the early warning system, including data-based detection and model-based localisation, and tested on 10 engineered leakage events. Thereby, small leakages up to a size of 0.4 l/s could be detected reliably even under high demand fluctuations. Additionally, the search area for the fine search on site could be reduced to 10–40% of the entire district metered area for leakage sizes between 0.1 and 2.0 l/s also under these real-world boundary conditions.
Groundwater remediation action plan of polluted aquifer by heavy fuel oil, Northern Jordan
Authors: El-Naqa Ali Ramadan 
Published: December 2024

ABSTRACT

This study investigates the sources and pathways of groundwater contamination by heavy fuel oil (HFO) at the Al Hussein Thermal Power Station (HTPS) in northern Jordan using hydrogeological and geophysical methods. Initial surveys identified Wells #8 and #9 as primary contamination points, revealing that the contamination originated from a leaking oily water drain beneath the boilers at HTPS. The contamination plume was confined to an area of approximately 0.5 km2 at a depth of around 50 m, confirmed by additional boreholes near the plant boundaries. To remediate the polluted groundwater, the Central Electricity Generating Company (CEGCO) applied a pump-and-treat approach, extracting about 16,200 m3 of contaminated water over 3 months at a rate of 90 m3/h, twice daily. This process reduced total petroleum hydrocarbon levels from initial concentrations of over 10 mg/L to below detectable limits (&lt;0.5 mg/L). The pH-REdox-EQuilibrium modeling revealed that biodegradation of HFO led to increased levels of total dissolved solids from 1,400 mg/L to over 2,600 mg/L and elevated sulfate concentrations, impacting the aquifer's overall water quality. The remediation plan not only addressed immediate contamination but also focused on preventing further leaks and restoring groundwater quality in the long term.
The Influence of Cross-Border Cooperation between Securities Regulators on Audit Fees
Authors: Kong Xiangting , Tsang Albert , Wang Yujie , Xiang Yi 
Published: December 2024

ABSTRACT
In this study, we examine the influence of the Multilateral Memorandum of Understanding Concerning Consultation and Cooperation and the Exchange of Information (MMoU), a special cooperative arrangement designed to enhance cross-border regulatory enforcement, on the audit fees imposed on U.S.-listed foreign firms. Using the different times of countries’ entry into the MMoU as a staggered shock, we find that after a foreign country enters the MMoU, the audit fees for its U.S.-listed firms increase to a greater extent than those for either foreign firms or U.S. domestic firms. This effect is stronger for U.S.-listed foreign firms from countries with weaker institutions and for auditors with a higher level of firm-specific litigation concern, as measured by firms’ auditing by Big 4 auditors.
Study on the Appearance Preference of Lonely Elderly People to Accompany Robots
Authors: Li Qi , Fang Cheng , Zhao Ying 
Published: December 2024

Abstract
This study examined whether preferences for companion robot profiles differed between those lonely elderly and those non-lonely elderly. The researchers obtained 120 samples of existing companion robots, ultimately analyzing 36 representative samples. Additionally, the study tested loneliness in 54 elderly people and collected data on the preferences of 54 groups of elderly individuals, each answering a questionnaire survey. To determine whether there were apparent differences in robot profile preference between lonely and non-lonely elderly individuals, the researchers utilized correspondence analysis. This allowed them to analyze the data represented by the four cluster groups (G) formed based on the relationship between two dimensions (2*2) on a coordinate axis –whether the individual lonely elderly and their preference for robot profiles. The results revealed that those without loneliness tended to prefer products with a strong sense of design focused on science and technology, as well as future fashion innovation. In contrast, solitary elderly individuals paid more attention to the dynamic, authentic experiences present in real life, such as anthropomorphic action robots, preferring those with naturally rich colors and pleasant, vibrant features. In terms of emotions, solitary elderly individuals’ preferences for robot profiles aligned more closely with reflective processing levels, while non-lonely individuals aligned more closely with intuitive processing levels. Ultimately, the findings suggest that lonely elderly may require more emotional pleasure with arousing stimuli from their robotic companions.
Towards Generative AI for Course Content Production: Expert Reflections
Authors: Ullmann Thomas Daniel , Edwards Chris , Bektik Duygu , Herodotou Christothea , Whitelock Denise 
Published: December 2024

Abstract
The wide availability of generative artificial intelligence (AI) for content production has resulted in a growing interest in the area of education, particularly for course content production purposes. This research has mapped out a set of curriculum production tasks and illustrated how generative AI can support three important tasks: the development of course outlines and content, the drafting of assessment instructions and the mapping of learning outcomes to benchmark statements. We evaluated the outputs of the generative AI with five experts: a course production expert, an academic expert, two Learning Design experts and an AI expert. The results indicate that generative AI enabled the generation of plausible content skeletons for content and first drafts of relevant content to aid the course production team’s brainstorming but also highlighted the importance of reviewing generated content. Our research indicates that generative AI can result in shifts in the delivery of these tasks.
К ВОПРОСУ ОБ ИЗМЕНЕНИИ ЭКОНОМИЧЕСКОГО ПОВЕДЕНИЯ И ПРЕДПОЧТЕНИЙСОВРЕМЕННОЙ МОЛОДЕЖИ
Authors: Алтунина В.В. , Алтунина А.И. 
Published: December 2024

Статья посвящена анализу изменения потребительского поведения современной молодежи. Степень изученности изменения предпочтений в потреблении среди современных молодых людей в Российской Федерации не высокая. На наш взгляд, очень важно проанализировать те значительные изменения в образе жизни людей, которые произошли за последние несколько десятков лет, особенно в сфере труда и потребительских предпочтений. В статье проведен анализ того, как поменялась за последнее время ситуация в отношении обладания и пользования среди людей различных возрастных групп. Анализ этих тенденций позволяет сделать выводы о том, как модифицировалась первоначальная функция полезности индивида. Проведя анализ сложившейся ситуации на рынках материальных благ, а также принимая во внимания появление и набор популярности таких систем имущественных отношений, как шеринги и аренда, авторы приходят к выводам о возможном ослабевании роли чувства собственности в удовлетворенности индивида от использования самого блага, а также переключении внимания на нематериальные блага, на которые миллениалами тратится значительно больше средств, в распределении и получении которых у молодежи зачастую существуют серьезные проблемы. Авторы статьи, проведя исследование, приходят к выводу о том, что пред почтения и цели молодого поколения заметно отличаются от тех, что были у молодежи еще насколько десятилетий назад, происходит постоянное изменение в отношении к собственности и к тому, насколько выгодным не только для данного индивида, но и для окружающих может быть совместное пользование
The article is devoted to the analysis of probable alterations in consumer behavior of todays youth. The extent to which the ques tions of consumer preferences transformation are studied among Russian Federation youth is not high. In our view it is crucial to analyze these considerable lifestyle changes that have occurred over the last couple of decades especially in labor and consumer preferences. The analysis of these tendencies allows us to draw a conclusion about the modification of the initial consumers utility function. Having analyzed the current situation in the material goods markets together with taking into account the emergence and popularity of such systems of property relations as sharing and rent, the authors come to a conclusion about possible weakening of the sense of ownerships role in the mechanism of individuals satisfaction from the use of the material good itself. Consequently, the idea of focus shifting to intangible goods among the Millennials emerged from their considerable repartition of assets that are also often hardly acquired and distributed. The work leads to the point that both preferences and aims of the youth differ substantially from the ones that were presented even a couple of decades ago. There are remarkable changes going through the societys attitude towards the idea of ownership and the benefits of joint use for the individual as well as for the society in general