bluuebunny/crossref_metadata_2025_split huggingface dataset:
Conditions for Transformative Engaged Scholarship in Co-creation with Queer Refugees
Authors: Holle Fabian , Ponzoni Elena , Ghorashi Halleh 
Published: September 2024

AbstractThis chapter focuses on conditions for co-creative research with regard to experiences and diverse forms of knowledge that are silenced by stigmatizing, negative labelling and (subtle) kinds of exclusion. We reflect on three core conditions that emerged in LIMBO, a creative research collaboration between queer refugee community organizers and artists, the Amsterdam art institute Framer Framed and the Refugee Academy (expertise lab based at the Institute for Societal Resilience at VU Amsterdam). The research exemplifies what we mean by transformative academic engagement, as it goes beyond mere description and documentation and recognizes agency and creativity, while following the perspectives of marginalized communities as leaders in the process. The three pivotal conditions that emerged in the context of this co-creative research as underpinning the transformative process are creativity, holding space and the dynamic interplay of de/recentring.
Frame Reflection Lab: A Playful Tool to Reflect on Views of Science
Authors: Horn Annemarie , van der Meij Marjoleine G. 
Published: September 2024

AbstractIn this chapter, we present the Frame Reflection Lab (FRL) tool and show how it can be used in practice. We share insights from our own experiences to inform its use in various contexts, such as inter- and transdisciplinary research teams and education for inter- and transdisciplinary research. We hope to inspire and offer some guidance for those engaging in or facilitating inter- and transdisciplinary teamwork to implement FRL and similar approaches in their own context. We invite readers to adapt and use FRL in their own research and teaching, all materials are openly available online.
Accompanying Transformation-Oriented Research: Contributions, Relations and Methods
Authors: Schäpke Niko 
Published: September 2024

AbstractSocietal transformations, as fundamental change of socio-ecological and socio-technical systems towards more sustainability and justice, are high on scientific and political agendas. Transformational sustainability research seeks to understand and develop solutions to persistent problems of unsustainability. Examples include real-world and urban living labs, transition management or transdisciplinary case studies. These address problems in complex systems in future-oriented and participatory ways and catalyze learning and innovation integrating diverse forms of knowledge. Yet, transformation-oriented research faces various challenges with regard to knowledge production, process facilitation and decision-making. This chapter presents accompanying research—research that accompanies and researches others’ research—to effectively complement and support transformation-oriented research. First, possible contributions of accompanying research regarding knowledge production and process management are discerned and related methods and techniques are illustrated. Second, possibilities to shape relationships between accompanied and accompanying research are outlined and core balancing acts characterizing these relations discussed. Again, orientation is given to shape relations in practice. To map contributions and relationships, the chapter builds on expert knowledge and scholarly literature, synthesizing it with practical experiences including from accompanying several German real-world laboratories. Third, an in-depth case study of accompanying a long-running transdisciplinary experiment at UNFCCC climate change conferences, the Co-Creative Reflection and Dialogue Space, is reflected showing the value and challenges of accompanying research in practice.
Tracking induced pluripotent stem cell differentiation with a fluorescent genetically encoded epigenetic probe
Authors: Stepanov Afanasii I. , Shuvaeva Alexandra A. , Putlyaeva Lidia V. , Lukyanov Daniil K. , Galiakberova Adelya A. , Gorbachev Dmitry A. , Maltsev Dmitry I. , Pronina Valeriya , Dylov Dmitry V. , Terskikh Alexey V. , Lukyanov Konstantin A. , Gurskaya Nadya G. 
Published: September 2024

AbstractEpigenetic modifications (methylation, acetylation, etc.) of core histones play a key role in regulation of gene expression. Thus, the epigenome changes strongly during various biological processes such as cell differentiation and dedifferentiation. Classical methods of analysis of epigenetic modifications such as mass-spectrometry and chromatin immuno-precipitation, work with fixed cells only. Here we present a genetically encoded fluorescent probe, MPP8-Green, for detecting H3K9me3, a histone modification associated with inactive chromatin. This probe, based on the chromodomain of MPP8, allows for visualization of H3K9me3 epigenetic landscapes in single living cells. We used this probe to track changes in H3K9me3 landscapes during the differentiation of induced pluripotent stem cells (iPSCs) into induced neurons. Our findings revealed two major waves of global H3K9me3 reorganization during 4-day differentiation, namely on the first and third days, whereas nearly no changes occurred on the second and fourth days. The proposed method LiveMIEL (Live-cell Microscopic Imaging of Epigenetic Landscapes), which combines genetically encoded epigenetic probes and machine learning approaches, enables classification of multiparametric epigenetic signatures of single cells during stem cell differentiation and potentially in other biological models.
Development of a high-throughput UHPLC-MS/MS method for the analysis of Fusarium and Alternaria toxins in cereals and cereal-based food
Authors: Dick Fabian , Dietz Alena , Asam Stefan , Rychlik Michael 
Published: September 2024

AbstractA QuEChERS (quick, easy, cheap, effective, rugged, and safe)-based multi-mycotoxin method was developed, analyzing 24 (17 free and 7 modified) Alternaria and Fusarium toxins in cereals via ultrahigh-performance liquid chromatography-tandem mass spectrometry (UHPLC-MS/MS). A modified QuEChERS approach was optimized for sample preparation. Quantification was conducted using a combination of stable isotope dilution analysis (SIDA) for nine toxins and matrix-matched calibration for ten toxins. Quantification via a structurally similar internal standard was conducted for four analytes. Alternariol-9-sulfate (AOH-9-S) was measured qualitatively. Limits of detection (LODs) were between 0.004 µg/kg for enniatin A1 (ENN A1) and 3.16 µg/kg for nivalenol (NIV), while the limits of quantification were between 0.013 and 11.8 µg/kg, respectively. The method was successfully applied to analyze 136 cereals and cereal-based foods, including 28 cereal-based infant food products. The analyzed samples were frequently contaminated with Alternaria toxins, proving their ubiquitous occurrence. Interestingly, in many of those samples, some modified Alternaria toxins occurred, mainly alternariol-3-sulfate (AOH-3-S) and alternariol monomethyl ether-3-sulfate (AME-3-S), thus highlighting the importance of including modified mycotoxins in the routine analysis as they may significantly add to the total exposure of their parent toxins. Over 95% of the analyzed samples were contaminated with at least one toxin. Despite the general contamination, no maximum or indicative levels were exceeded.
Graphical Abstract
Rapid lateral flow test for Mycobacterium tuberculosis complex and non-tuberculous mycobacteria differentiation
Authors: Phunpae Ponrut , Thongkum Weeraya , Panyasit Wutthichai , Laopajon Witida , Takheaw Nuchjira , Pata Supansa , Yasamut Umpa , Kasinrerk Watchara , Tayapiwatana Chatchai 
Published: September 2024

Abstract
The diagnosis of mycobacterial infections, including both the Mycobacterium tuberculosis complex (MTBC) and non-tuberculous mycobacteria (NTM), poses a significant global medical challenge. This study proposes a novel approach using immunochromatographic (IC) strip tests for the simultaneous detection of MTBC and NTM. Traditional methods for identifying mycobacteria, such as culture techniques, are hindered by delays in distinguishing between MTBC and NTM, which can affect patient care and disease control. Molecular methods, while sensitive, are resource-intensive and unable to differentiate between live and dead bacteria. In this research, we developed unique monoclonal antibodies (mAbs) against Ag85B, a mycobacterial secretory protein, and successfully implemented IC strip tests named 8B and 9B. These strips demonstrated high concordance rates with conventional methods for detecting MTBC, with positivity rates of 93.9% and 85.9%, respectively. For NTM detection, the IC strip tests achieved a 63.2% detection rate compared to culture methods, considering variations in growth rates among different NTM species. Furthermore, this study highlights a significant finding regarding the potential of MPT64 and Ag85B proteins as markers for MTBC detection. In conclusion, our breakthrough method enables rapid and accurate detection of both MTBC and NTM bacteria within the BACTEC MGIT system. This approach represents a valuable tool in clinical settings for distinguishing between MTBC and NTM infections, thereby enhancing the management and control of mycobacterial diseases.

Key points
• Panel of mAbs for differentiating MTB versus NTM
• IC strips for diagnosing MTBC and NTM after the BACTEC MGIT
• Combined detection of MTP64 and Ag85B enhances diagnostic accuracy
Field-grown lettuce production optimized through precision irrigation water management using soil moisture-based capacitance sensors and biodegradable soil mulching
Authors: Helmy Haytham S. , Abuarab Mohamed E. , Abdeldaym Emad A. , Abdelaziz Suzy M. , Abdelbaset Marwa M. , Dewedar Osama M. , Molina-Martinez José M. , El-Shafie Ahmed F. , Mokhtar Ali 
Published: September 2024

AbstractScientists, environmentalists, and farmers are currently in pursuit of sustainable agricultural practices that can effectively ensure global food security while simultaneously mitigating environmental degradation. A field experiment was conducted to elucidate the impact of low-cost capacitance soil moisture-based sensors on lettuce (Lactuca sativa L.) irrigation water conservation, agro-physiological aspects, and nutritional characteristics. The experiment also involved the use of five different types of soil mulching films: white geotextile (WGup), green geotextile (GGup), black plastic (BPup), white geotextile for both above and below ground (WGup-down), green geotextile for both above and below ground (GGup-down), in addition to un-mulched soil (control). The findings demonstrated that the application of WGup, BPup, WGup&down, and GGup&down resulted in a significant improvement in irrigation water conservation, with WGup exhibiting the highest savings at 41.86%, while the control group exhibited the least amount of water savings at 19.87%. Moreover, the highest productivity levels were observed in plants mulched with GGup&down, reaching 47,944.68 kg ha−1, whereas the lowest productivity was recorded in plants mulched with green geotextile GGup at 22,377.89 kg ha−1. In terms of irrigation water productivity (IWP), the order of effectiveness was BPup > GGup-down > WGup > WGup-down > GGup > Control, with BPup achieving the highest IWP at 60.19 kg m−3 and the control treatment reporting the lowest at 27.80 kg m−3. The percentage of the irrigation water applied for crop evapotranspiration (Irc) showed that the control treatment saved the least amount of irrigation water, saving only 19.87%, while the best treatment was WGup, achieved the highest percentage of irrigation water savings at 41.86%. Additionally, mulched plants exhibited higher levels of nutrients (N, P, Ca, Mg, Fe, Mn, and Zn), ascorbic acid (AsA), and total phenol content (TPC), while showing lower nitrate content in the leaves compared to non-mulched plants. Overall, the utilization of soil moisture-based capacitance sensors and biodegradable mulching films has proven to be highly effective and low cost by 16.633 US$ year−1 to enhance irrigation water productivity, growth performance, nutritional quality, and overall productivity of lettuce crops, thereby contributing to the sustainability of lettuce production in arid regions.
Error-induced extinction in a multi-type critical birth–death process
Authors: Guasch Meritxell Brunet , Krapivsky P. L. , Antal Tibor 
Published: September 2024

AbstractExtreme mutation rates in microbes and cancer cells can result in error-induced extinction (EEX), where every descendant cell eventually acquires a lethal mutation. In this work, we investigate critical birth–death processes with n distinct types as a birth–death model of EEX in a growing population. Each type-i cell divides independently $$(i)\rightarrow (i)+(i)$$

(
i
)
→
(
i
)
+
(
i
)

or mutates $$(i)\rightarrow (i+1)$$

(
i
)
→
(
i
+
1
)

at the same rate. The total number of cells grows exponentially as a Yule process until a cell of type-n appears, which cell type can only divide or die at rate one. This makes the whole process critical and hence after the exponentially growing phase eventually all cells die with probability one. We present large-time asymptotic results for the general n-type critical birth–death process. We find that the mass function of the number of cells of type-k has algebraic and stationary tail $$(\text {size})^{-1-\chi _k}$$

(
size
)

-
1
-

χ
k

, with $$\chi _k=2^{1-k}$$

χ
k

=

2

1
-
k

, for $$k=2,\dots ,n$$

k
=
2
,
⋯
,
n

, in sharp contrast to the exponential tail of the first type. The same exponents describe the tail of the asymptotic survival probability $$(\text {time})^{-\xi _k}$$

(
time
)

-

ξ
k

. We present applications of the results for studying extinction due to intolerable mutation rates in biological populations.
Charakteristika von Antragstellenden bei erstmaliger Feststellung einer Pflegebedürftigkeit – eine bundesweite Analyse von Pflegebegutachtungen von AOK-Versicherten ab 60 Jahren
Authors: Haeger Christine , Baldenius Till , Schnitzer Susanne , Jürchott Kathrin , Kuhlmey Adelheid , Blüher Stefan , Schwinger Antje 
Published: September 2024

Zusammenfassung
Hintergrund
Die steigende Zahl Pflegebedürftiger erfordert präventive Ansätze, um Pflegebedürftigkeit zu verhindern oder Selbstständigkeitsverluste zu reduzieren. Die Pflegebegutachtung kann wertvolle Hinweise dazu liefern.

Ziel der Arbeit
Das Ziel dieses Beitrags ist es, soziodemografische Merkmale von Personen mit festgestellter Pflegebedürftigkeit zu beschreiben, sowie eine differenzierte Betrachtung der erstgenannten pflegebegründenden Diagnosen nach Alter, Geschlecht, Pflegegrad (PG) und Bundesland.

Material und Methoden
Als Datengrundlage dient ein bundesweiter Datensatz der Pflegebegutachtungen des Medizinischen Dienstes (MD) von AOK-Versicherten ab 60 Jahren, die im Jahr 2021 erstmalig einen PG erhielten. Pflegerelevante Informationen werden deskriptiv ausgewertet.

Ergebnisse
339.486 Personen mit einem Durchschnittsalter von 79,6 Jahren (± 8,4), davon 59,0 % Frauen, wurden analysiert. Etwa die Hälfte erhielt den PG 2, 32,4 % den PG 1. PG 3–5 wurden seltener begutachtet (16,2 % vs. 4,8 % vs. 1,7 %). Alleinlebende waren öfter in niedrigeren PG vertreten, und es zeigte sich ein überproportionaler Anteil aus den neuen Bundesländern. Die Top‑3 der erstgenannten pflegebegründenden Diagnosen waren Senilität (R54), Polyarthrose (M15) und Demenz (F03), wobei, stratifiziert nach Bundesländern, große Unterschiede zu erkennen sind (ICD-10 R-Kapitel 0,8 % Berlin und Brandenburg vs. 37,9 % Sachsen; M‑Kapitel: 13,6 % Bayern und Hamburg vs. 39,9 % Mecklenburg-Vorpommern).

Diskussion
Soziale Determinanten wie Alter, Geschlecht, Alleinleben und Region können bei der Einstufung in einen PG eine Rolle spielen. Auffällig sind große Unterschiede bei den erstgenannten pflegebegründenden Diagnosen zwischen den Bundesländern, was in zukünftiger Forschung genauer untersucht werden sollte.
Perioperative outcome of left atrial appendage amputation in coronary artery bypass grafting
Authors: Gerçek Mustafa , Skuljevic Tomislav , Börgermann Jochen , Gummert Jan , Gerçek Muhammed 
Published: September 2024

Abstract
Background
Left atrial appendage (LAA) amputation performed alongside cardiac surgery has become an increasingly established procedure to reduce stroke risk in patients with atrial fibrillation. As the recommendation levels for LAA amputation continue to rise, ample evidence assessing its perioperative safety and risk factors is of utmost interest.

Methods
All patients who underwent isolated coronary artery bypass grafting (CABG) between 2018 and 2021 at two high-volume centers were retrospectively included in the study. Patients were divided into two groups—the CABG and CABG + LAA groups—based on whether they underwent concomitant LAA amputation. Propensity score matching (PS matching) was applied to ensure comparability between the groups. The primary endpoint was defined as a composite outcome comprising of all-cause mortality, stroke, and reoperation. Secondary endpoints included the components of the primary endpoint, perioperative outcome parameters, transfusion rates, and laboratory parameters.

Results
A total of 3904 patients were included with 3038 and 866 in the CABG and CABG + LAA group, respectively. After PS matching each group consisted of 856 patients. The primary endpoint showed no significant differences between the CABG and CABG + LAA group (7.0% vs. 6.5% (OR 0.9 95% CI [0.64; 1.35], p = 0.70)). Similarly, there were no notable differences in the individual components of the composite endpoint: all-cause mortality (p = 0.84), stroke (p = 0.74), and reoperation (p = 0.50). Subgroup results did not show any relevant dissimilarity.

Conclusion
The concomitant performance of LAA amputation is not associated with worse in-hospital outcomes, as measured by the composite endpoint of all-cause mortality, stroke, and reoperation.

Graphical abstract
Perioperative outcome of left atrial appendage amputation in coronary artery bypass grafting. 95% CI, 95% confidence intervals; CABG, coronary artery bypass grafting; EF, left ventricular ejection fraction; LAA, left atrial appendage amputation; OR, odds ratio
The contribution of white matter changes to clinical phenotype in progressive supranuclear palsy
Authors: Tepedino Maria Francesca , Diana Francesco , Abate Filomena , Avallone Anna Rosa , Caterino Miriam , Erro Roberto , Pellecchia Maria Teresa , Manara Renzo , Barone Paolo , Picillo Marina 
Published: September 2024

AbstractWhite matter hyperintensities (WMH) are considered magnetic brain imaging (MRI) biomarkers of cerebral small vessel disease but their clinical role in neurodegenerative-related disorders is poorly understood. This study describes the distribution of WMH on brain MRI in Progressive Supranuclear Palsy (PSP) in comparison with Parkinson’s disease (PD) and explores their possible impact on disease’s features. Sixty PSP and 33 PD patients were included. Motor symptoms, cardiovascular risk factors and the age-related white matter changes (ARWMC) score was computed to rate WMH for both groups. Pearson’s correlation and linear or logistic regression analysis were used to check for relationships between ARWMC and PSP clinical scores. The mean (standard deviation) ARWMC total score in the PSP cohort was 4.66 (3.25). Any degree of WMH was present in 68% of PSP (ARWMC +). Compared to ARWMC-, ARWMC + did not have greater disease severity or more cardiovascular risk factors. WMH were frequently localized in fronto-parietal lobes and were mild in severity. Linear regression analysis showed that ARWMC total score was related to the PSP-rating scale, irrespective of age, disease duration and the Charlson modified comorbidity index. Logistic regression analysis confirmed that ARWMC total score was related to the use of wheelchair, irrespective of above-mentioned covariates. Vascular risk factors as well as severity and distribution of WMH did not have an impact on the PSP phenotype. No differences were found with PD patients. Our results suggest that WMH in PSP might be markers of neurodegenerative-related pathology rather than being simple expression of atherosclerotic cerebrovascular changes.
Connected k-Center and k-Diameter Clustering
Authors: Drexler Lukas , Eube Jan , Luo Kelin , Reineccius Dorian , Röglin Heiko , Schmidt Melanie , Wargalla Julian 
Published: September 2024

AbstractMotivated by an application from geodesy, we study the connected k-center problem and the connected k-diameter problem. The former problem has been introduced by Ge et al. (ACM Trans Knowl Discov Data 2(2):1–35, 2008. https://doi.org/10.1145/1376815.1376816) to model clustering of data sets with both attribute and relationship data. These problems arise from the classical k-center and k-diameter problems by adding a side constraint. For the side constraint, we are given an undirected connectivity graphG on the input points, and a clustering is now only feasible if every cluster induces a connected subgraph in G. Usually in clustering problems one assumes that the clusters are pairwise disjoint. We study this case but additionally also the case that clusters are allowed to be non-disjoint. This can help to satisfy the connectivity constraints. Our main result is an $$O(\log ^2k)$$

O
(

log
2

k
)

-approximation algorithm for the disjoint connected k-center and k-diameter problem. For Euclidean spaces of constant dimension and for metrics with constant doubling dimension, the approximation factor improves to O(1). Our algorithm works by computing a non-disjoint connected clustering first and transforming it into a disjoint connected clustering. We complement these upper bounds by several upper and lower bounds for variations and special cases of the model.
Deformation twinning as a displacive transformation: computational aspects of the phase-field model coupled with crystal plasticity
Authors: Sadowski Przemysław , Rezaee-Hajidehi Mohsen , Stupkiewicz Stanisław 
Published: September 2024

AbstractSpatially-resolved modeling of deformation twinning and its interaction with plastic slip is achieved by coupling the phase-field method and crystal plasticity theory. The intricate constitutive relations arising from this coupling render the resulting computational model prone to inefficiencies and lack of robustness. Accordingly, together with the inherent limitations of the phase-field method, these factors may impede the broad applicability of the model. In this paper, our recent phase-field model of coupled twinning and crystal plasticity is the subject of study. We delve into the incremental formulation and computational treatment of the model and run a thorough investigation into its computational performance. We focus specifically on evaluating the efficiency of the finite-element discretization employing various element types, and we examine the impact of mesh density. Since the micromorphic regularization is an important part of the finite-element implementation, the effect of the micromorphic regularization parameter is also studied.