bluuebunny/crossref_metadata_2025_split huggingface dataset:
Two newly established and mutually related subfamilies GH13_48 and GH13_49 of the α-amylase family GH13
Authors: Mareček Filip , Terrapon Nicolas , Janeček Štefan 
Published: July 2024

Abstract
Currently, the main α-amylase family GH13 has been divided into 47 subfamilies in CAZy, with new subfamilies regularly emerging. The present in silico study was performed to highlight the groups, represented by the maltogenic amylase from Thermotoga neapolitana and the α-amylase from Haloarcula japonica, which are worth of creating their own new GH13 subfamilies. This enlarges functional annotation and thus allows more precise prediction of the function of putative proteins. Interestingly, those two share certain sequence features, e.g. the highly conserved cysteine in the second conserved sequence region (CSR-II) directly preceding the catalytic nucleophile, or the well-preserved GQ character of the end of CSR-VII. On the other hand, the two groups bear also specific and highly conserved positions that distinguish them not only from each other but also from representatives of remaining GH13 subfamilies established so far. For the T. neapolitana maltogenic amylase group, it is the stretch of residues at the end of CSR-V highly conserved as L-[DN]. The H. japonica α-amylase group can be characterized by a highly conserved [WY]-[GA] sequence at the end of CSR-II. Other specific sequence features include an almost fully conserved aspartic acid located directly preceding the general acid/base in CSR-III or well-preserved glutamic acid in CSR-IV. The assumption that these two groups represent two mutually related, but simultaneously independent GH13 subfamilies has been supported by phylogenetic analysis as well as by comparison of tertiary structures. The main α-amylase family GH13 has thus been expanded by two novel subfamilies GH13_48 and GH13_49.

Key points
• In silico analysis of two groups of family GH13 members with characterized representatives
• Identification of certain common, but also some specific sequence features in seven CSRs
• Creation of two novel subfamilies—GH13_48 and GH13_49 within the CAZy database
Etiology and prognosis of non-Kawasaki disease induced coronary aneurysms in children: a retrospective case series study
Authors: Lin Yao , Qi Huiru , Liu Yanyan , Wu Haojie , Li Yaqi , Shi Lin 
Published: July 2024

AbstractWhile Kawasaki disease (KD) induced coronary artery aneurysms (KD CAAs) in children are well studied, the features and prognosis of non-KD induced CAAs (non-KD CAAs) in the pediatric population are poorly documented. This case series study is to analyze the etiology and prognosis of non-KD CAAs in children and compare the characteristics of non-KD CAAs and KD CAAs. Non-KD CAA and KD CAA cases at our department from January 2022 to December 2023 were retrospectively collected. Etiologies and prognosis of non-KD CAAs were analyzed. Furthermore, demographic data, biochemical parameters and outcomes between children with Non-KD CAAs and children with KD CAAs were comparatively studied. Fifteen children with non-KD CAAs with a median age of 6 years and 117 children with KD CAAs with a median age of 2.0 years (p = 0.022) were included in this study. The causes of non-KD CAAs include: unknown etiologies (2 cases), coronary artery structural abnormalities (4), Takayasu arteritis (2), virus infection (2), cardiomyopathy (2), aplastic anemia with agranulocytosis (1), ANCA-associated vasculitis (1), and mucopolysaccharidosis (1). In the non-KD CAA group, there were a total of 19 CAAs with 3 being giant, 5 medium, and 11 small; 4 patients had complete CAA regression; an infant with a fistula between the right coronary artery and the coronary sinus complicated with cardiac enlargement died of heart failure. The KD group had significantly higher levels of CRP, white cells counts and ESR with zero mortality. Non-KD CAA cases had a significantly lower regression rate than KD-CAA cases (26.7% vs 66.7%, p = 0.004), and the probability of CAA regression in non-KD patients was 0.341 of that in KD patients (p = 0.006, OR = 0.341, 95% CI: 0.179–0.647).Conclusions: Various etiologies for Non-KD CAAs are identified. Patients with Non-KD CAAs were observed to have lower inflammatory indexes but poorer recovery than patients with KD CAAs. Therapeutic strategies different than those for KD may be needed for non-KD CAAs.

What is Known:• Coronary artery aneurysm (CAA) in children is most commonly induced by Kawasaki disease (KD CAA), with a 50 ~ 70% regression rate in 1 to 2 years.• CAA induced by diseases other than KD (non-KD CAA) in children is rare and its prognosis remains largely unknown.

What is New:• Most non-KD CAA cases are caused by coronary artery structural malformations.• Non-KD CAA in children has poorer prognosis and lower regression rate compared with KD CAA.• In addition to guideline directed anti-platelet and anti-coagulant therapies, treatments targeting the causal factor are necessary for non-KD CAA.
Inconsistency of in vitro exsheathment triggers for gastrointestinal nematode parasites of sheep, cattle and deer
Authors: Bekelaar Kiliana , Carvalho Luis , Waghorn Tania , Green Peter , Bouchet Charlotte , Leathwick Dave 
Published: July 2024

AbstractExsheathment is crucial in the transition from free-living to parasitic phase for most strongyle nematode species. A greater understanding of this process could help in developing new parasitic control methods. This study aimed to identify commonalities in response to exsheathment triggers (heat acclimation, CO2 and pH) in a wide range of species (Haemonchus contortus, Trichostrongylus spp., Cooperia spp., Oesophagostomum spp., Chabertia ovina, and members of the subfamily Ostertagiinae) from sheep, cattle and farmed deer. The initial expectation of similarity in pH requirements amongst species residing within the same organ was not supported, with unexpected pH preferences for exsheathment of Trichostrongylus axei, Trichostrongylus vitrinus, Trichostrongylus colubriformis and Cooperia oncophora. We also found differences between species in their response to temperature acclimation, with higher exsheathment in response to heat shock observed for H. contortus, Ostertagia ostertagi, T. axei, T. vitrinus and Oesophagostomum sikae. Furthermore, some species showed poor exsheathment under all experimental conditions, such as Cooperia curticei and the large intestinal nematodes C. ovina and Oesophagostomum venulosum. Interestingly, there were some significant differences in response depending on the host from which the parasites were derived. The host species significantly impacted on the exsheathment response for H. contortus, Teladorsagia circumcincta, T. vitrinus and T. colubriformis. Overall, the data showed variability between nematode species in their response to these in vitro exsheathment triggers, highlighting the complexity of finding a common set of conditions for all species in order to develop a control method based on triggering the exsheathment process prematurely.
Reconstruction in One Dimension from Unlabeled Euclidean Lengths
Authors: Connelly Robert , Gortler Steven J. , Theran Louis 
Published: July 2024

AbstractLet G be a 3-connected ordered graph with n vertices and m edges. Let $$\textbf{p}$$
p
be a randomly chosen mapping of these n vertices to the integer range $$\{1, 2,3, \ldots , 2^b\}$$

{
1
,
2
,
3
,
…
,

2
b

}

for $$b\ge m^2$$

b
≥

m
2

. Let $$\ell $$
ℓ
be the vector of m Euclidean lengths of G’s edges under $$\textbf{p}$$
p
. In this paper, we show that, with high probability over $$\textbf{p}$$
p
, we can efficiently reconstruct both G and $$\textbf{p}$$
p
from $$\ell $$
ℓ
. This reconstruction problem is NP-HARD in the worst case, even if both G and $$\ell $$
ℓ
are given. We also show that our results stand in the presence of small amounts of error in $$\ell $$
ℓ
, and in the real setting, with sufficiently accurate length measurements. Our method combines lattice reduction, which has previously been used to solve random subset sum problems, with an algorithm of Seymour that can efficiently reconstruct an ordered graph given an independence oracle for its matroid.
Exploration of helpful elements contributing to engage in physical activity in patients with cancer
Authors: Matsui Tomoko 
Published: July 2024

Abstract
Purpose
Although there are many reported benefits of physical activity for patients with cancer (e.g., improving quality of life), many patients with cancer do not meet the recommendations of physical activity guidelines. The amount of physical activity declines after diagnosis of cancer. This study aimed to clarify the elements that contribute engagement in regular moderate-or-higher-level intensity of physical activity (MHPA), based on the Health Action Process Approach (HAPA), among patients with cancer.

Methods
Two web surveys were conducted among cancer outpatients, asking them to respond to a questionnaire. Participants provided information regarding their demographics, physical activity, purpose, advantages, disadvantages, barriers, triggers, and need for support for regular MHPA.

Results
Categories were obtained for purposes, advantages, disadvantages, barriers, triggers, and support needs for regular MHPA. For example, the support they considered necessary to regularly engage in MHPA were developed 9 categories, such as Improving the environment, Support for the implementation of PA (interpersonal), and Reducing the burden. Women and younger patients provided more statements about reducing their burden; younger patients also mentioned on improving the environment more among those who did not engage in MHPA. Additionally, patients with cancer who provided statements about interpersonal support reported higher barriers to physical activity.

Conclusions
These findings will contribute to the development of a scale to measure the components of the HAPA on physical activity in patients with cancer. In addition, it will help develop a support system that promotes engagement in regular MHPA.
Multicenter external validation of prediction models for clinical outcomes after spinal fusion for lumbar degenerative disease
Authors: Grob Alexandra , Rohr Jonas , Stumpo Vittorio , Vieli Moira , Ciobanu-Caraus Olga , Ricciardi Luca , Maldaner Nicolai , Raco Antonino , Miscusi Massimo , Perna Andrea , Proietti Luca , Lofrese Giorgio , Dughiero Michele , Cultrera Francesco , D’Andrea Marcello , An Seong Bae , Ha Yoon , Amelot Aymeric , Bedia Cadelo Jorge , Viñuela-Prieto Jose M. , Gandía-González Maria L. , Girod Pierre-Pascal , Lener Sara , Kögl Nikolaus , Abramovic Anto , Laux Christoph J. , Farshad Mazda , O’Riordan Dave , Loibl Markus , Galbusera Fabio , Mannion Anne F. , Scerrati Alba , De Bonis Pasquale , Molliqaj Granit , Tessitore Enrico , Schröder Marc L. , Stienen Martin N. , Regli Luca , Serra Carlo , Staartjes Victor E. 
Published: July 2024

Abstract
Background
Clinical prediction models (CPM), such as the SCOAP-CERTAIN tool, can be utilized to enhance decision-making for lumbar spinal fusion surgery by providing quantitative estimates of outcomes, aiding surgeons in assessing potential benefits and risks for each individual patient. External validation is crucial in CPM to assess generalizability beyond the initial dataset. This ensures performance in diverse populations, reliability and real-world applicability of the results. Therefore, we externally validated the tool for predictability of improvement in oswestry disability index (ODI), back and leg pain (BP, LP).

Methods
Prospective and retrospective data from multicenter registry was obtained. As outcome measure minimum clinically important change was chosen for ODI with ≥ 15-point and ≥ 2-point reduction for numeric rating scales (NRS) for BP and LP 12 months after lumbar fusion for degenerative disease. We externally validate this tool by calculating discrimination and calibration metrics such as intercept, slope, Brier Score, expected/observed ratio, Hosmer–Lemeshow (HL), AUC, sensitivity and specificity.

Results
We included 1115 patients, average age 60.8 ± 12.5 years. For 12-month ODI, area-under-the-curve (AUC) was 0.70, the calibration intercept and slope were 1.01 and 0.84, respectively. For NRS BP, AUC was 0.72, with calibration intercept of 0.97 and slope of 0.87. For NRS LP, AUC was 0.70, with calibration intercept of 0.04 and slope of 0.72. Sensitivity ranged from 0.63 to 0.96, while specificity ranged from 0.15 to 0.68. Lack of fit was found for all three models based on HL testing.

Conclusions
Utilizing data from a multinational registry, we externally validate the SCOAP-CERTAIN prediction tool. The model demonstrated fair discrimination and calibration of predicted probabilities, necessitating caution in applying it in clinical practice. We suggest that future CPMs focus on predicting longer-term prognosis for this patient population, emphasizing the significance of robust calibration and thorough reporting.
Mind the gap – Forderungen für eine verbesserte transitionspsychiatrische Versorgung aus Expert:innenperspektive
Authors: Neumann Matthias , Dürr Agnes , Gonzalez-Martin Alice , Urban Marcel , Manoharan Noah , Surikova Vladislava , Mittmann Gloria , Ertl Manuela , Gerlich Katharina , Stiehl Katharina , Steiner-Hofbauer Verena , Schrank Beate 
Published: July 2024

ZusammenfassungDer Übergang von der Kinder- und Jugendpsychiatrie (KJP) in die Erwachsenenpsychiatrie (EP) geht mit einer Reihe von Herausforderungen und in vielen Fällen mit Behandlungsunterbrechungen einher. Die Transitionspsychiatrie versteht sich hier als Schnittstelle, die den Jugendlichen in dieser sensiblen Phase eine angemessene Unterstützung bieten will, um ihre Entwicklungsaufgaben erfolgreich zu meistern. Zur Ermittlung der Wünsche und Forderungen für eine Optimierung des transitionspsychiatrischen Versorgungskonzeptes wurden in der vorliegenden Studie Interviews mit 35 Expert:innen durchgeführt, die sowohl in klinischen als auch in außerklinischen Kontexten mit der Zielgruppe arbeiten. Zusätzlich wurden 2 Fokusgruppen mit weiteren Fachkräften abgehalten. Die Ergebnisse zeigen Bedarfe im klinischen und außerklinischen Bereich, in der Zusammenarbeit von KJP und EP, im Bereich der Aus‑, Fort- und Weiterbildung sowie in der Forschung. Konkret werden neben der Entwicklung eines gemeinsamen Verständnisses des Transitionsalters der KJP und EP auch die Erstellung standardisierter Behandlungsleitlinien, der Ausbau niederschwelliger, in die Behandlungskette integrierter Behandlungsangebote sowie eine stärkere Vernetzung mit außerklinischen Institutionen wie der Sozialarbeit und der Schulpsychologie angeregt. Gefordert wird außerdem ein alters- und entwicklungsorientiertes, flexibles Versorgungskonzept, das langfristige Beziehungsstrukturen ermöglicht und nicht durch starre Altersgrenzen in seinem Wirken limitiert wird.
A systematic review on the effectiveness of robot-assisted minimally invasive gastrectomy
Authors: Triemstra L. , den Boer R. B. , Rovers M. M. , Hazenberg C. E. V. B. , van Hillegersberg R. , Grutters J. P. C. , Ruurda J. P. 
Published: July 2024

Abstract
Background
Robot-assisted minimally invasive gastrectomy (RAMIG) is increasingly used as a surgical approach for gastric cancer. This study assessed the effectiveness of RAMIG and studied which stages of the IDEAL-framework (1 = Idea, 2A = Development, 2B = Exploration, 3 = Assessment, 4 = Long-term follow-up) were followed.

Methods
The Cochrane Library, Embase, Pubmed, and Web of Science were searched for studies on RAMIG up to January 2023. Data collection included the IDEAL-stage, demographics, number of participants, and study design. For randomized controlled trials (RCTs) and long-term studies, data on intra-, postoperative, and oncologic outcomes, survival, and costs of RAMIG were collected and summarized.

Results
Of the 114 included studies, none reported the IDEAL-stage. After full-text reading, 18 (16%) studies were considered IDEAL-2A, 75 (66%) IDEAL-2B, 4 (4%) IDEAL-3, and 17 (15%) IDEAL-4. The IDEAL-stages were followed sequentially (2A-4), with IDEAL-2A studies still ongoing. IDEAL-3 RCTs showed lower overall complications (8.5–9.2% RAMIG versus 17.6–19.3% laparoscopic total/subtotal gastrectomy), equal 30-day mortality (0%), and equal length of hospital stay for RAMIG (mean 5.7–8.5 days RAMIG versus 6.4–8.2 days open/laparoscopic total/subtotal gastrectomy). Lymph node yield was similar across techniques, but RAMIG incurred significantly higher costs than laparoscopic total/subtotal gastrectomy ($13,423–15,262 versus $10,165–10,945). IDEAL-4 studies showed similar or improved overall/disease-free survival for RAMIG.

Conclusion
During worldwide RAMIG implementation, the IDEAL-framework was followed in sequential order. IDEAL-3 and 4 long-term studies showed that RAMIG is similar or even better to conventional surgery in terms of hospital stay, lymph node yield, and overall/disease-free survival. In addition, RAMIG showed reduced postoperative complication rates, despite higher costs.
Systematizing modeler experience (MX) in model-driven engineering success stories
Authors: Kalantari Reyhaneh , Oertel Julian , Exelmans Joeri , Rukmono Satrio Adi , Amaral Vasco , Tichy Matthias , Juhnke Katharina , Steghöfer Jan-Philipp , Abrahão Silvia 
Published: July 2024

AbstractModeling is often associated with complex and heavy tooling, leading to a negative perception among practitioners. However, alternative paradigms, such as everything-as-code or low-code, are gaining acceptance due to their perceived ease of use. This paper explores the dichotomy between these perceptions through the lens of “modeler experience” (MX). MX includes factors such as user experience, motivation, integration, collaboration and versioning, and language complexity. We examine the relationships between these factors and their impact on different modeling usage scenarios. Our findings highlight the importance of considering MX when understanding how developers interact with modeling tools and the complexities of modeling and associated tooling.
The mouse Social Frailty Index (mSFI): a novel behavioral assessment for impaired social functioning in aging mice
Authors: Collinge Charles W. , Razzoli Maria , Mansk Rachel , McGonigle Seth , Lamming Dudley W. , Pacak Christina A. , van der Pluijm Ingrid , Niedernhofer Laura , Bartolomucci Alessandro 
Published: July 2024

AbstractVarious approaches exist to quantify the aging process and estimate biological age on an individual level. Frailty indices based on an age-related accumulation of physical deficits have been developed for human use and translated into mouse models. However, declines observed in aging are not limited to physical functioning but also involve social capabilities. The concept of “social frailty” has been recently introduced into human literature, but no index of social frailty exists for laboratory mice yet. To fill this gap, we developed a mouse Social Frailty Index (mSFI) consisting of seven distinct assays designed to quantify social functioning which is relatively simple to execute and is minimally invasive. Application of the mSFI in group-housed male C57BL/6 mice demonstrated a progressively elevated levels of social frailty through the lifespan. Conversely, group-housed females C57BL/6 mice manifested social frailty only at a very old age. Female mice also showed significantly lower mSFI score from 10 months of age onward when compared to males. We also applied the mSFI in male C57BL/6 mice under chronic subordination stress and in chronic isolation, both of which induced larger increases in social frailty compared to age-matched group-housed males. Lastly, we show that the mSFI is enhanced in mouse models that show accelerated biological aging such as progeroid Ercc1−/Δ and Xpg−/− mice of both sexes compared to age matched littermate wild types. In summary, the mSFI represents a novel index to quantify trajectories of biological aging in mice and may help elucidate links between impaired social behavior and the aging process.
Legume Allergens Pea, Chickpea, Lentil, Lupine and Beyond
Authors: Abu Risha Marua , Rick Eva-Maria , Plum Melanie , Jappe Uta 
Published: July 2024

Abstract
Purpose of the Review
In the last decade, an increasing trend towards a supposedly healthier vegan diet could be observed. However, recently, more cases of allergic reactions to plants and plant-based products such as meat-substitution products, which are often prepared with legumes, were reported. Here, we provide the current knowledge on legume allergen sources and the respective single allergens. We answer the question of which legumes beside the well-known food allergen sources peanut and soybean should be considered for diagnostic and therapeutic measures.

Recent Findings
These “non-priority” legumes, including beans, pea, lentils, chickpea, lupine, cowpea, pigeon pea, and fenugreek, are potentially new important allergen sources, causing mild-to-severe allergic reactions. Severe reactions have been described particularly for peas and lupine. An interesting aspect is the connection between anaphylactic reactions and exercise (food-dependent exercise-induced anaphylaxis), which has only recently been highlighted for legumes such as soybean, lentils and chickpea. Most allergic reactions derive from IgE cross-reactions to homologous proteins, for example between peanut and lupine, which is of particular importance for peanut-allergic individuals ignorant to these cross-reactions.

Summary
From our findings we conclude that there is a need for large-scale studies that are geographically distinctive because most studies are case reports, and geographic differences of allergic diseases towards these legumes have already been discovered for well-known “Big 9” allergen sources such as peanut and soybean. Furthermore, the review illustrates the need for a better molecular diagnostic for these emerging non-priority allergen sources to evaluate IgE cross-reactivities to known allergens and identify true allergic reactions.
Finite time stability analysis for fractional stochastic neutral delay differential equations
Authors: Asadzade Javad A. , Mahmudov Nazim I. 
Published: July 2024

AbstractIn this manuscript, we investigate a fractional stochastic neutral differential equation with time delay, which includes both deterministic and stochastic components. Our primary objective is to rigorously prove the existence of a unique solution that satisfies given initial conditions. Furthermore, we extend our research to investigate the finite-time stability of the system by examining trajectory behavior over a given period. We employ advanced mathematical approaches to systematically prove finite-time stability, providing insights on convergence and stability within the stated interval. Using illustrative examples, we strengthen this all-encompassing examination into the complicated dynamics and stability features of fractionally ordered stochastic systems with time delays. The implications of our results extend to various fields, such as control theory, engineering, and financial mathematics, where understanding the stability of complex systems is crucial.