bluuebunny/crossref_metadata_2025_split huggingface dataset:
Multiscale chromatin dynamics and high entropy in plant iPSC ancestors
Authors: Rutowicz Kinga , Lüthi Joel , de Groot Reinoud , Holtackers René , Yakimovich Yauhen , Pazmiño Diana M. , Gandrillon Olivier , Pelkmans Lucas , Baroux Célia 
Published: May 2024

ABSTRACT
Plant protoplasts provide starting material for of inducing pluripotent cell masses that are competent for tissue regeneration in vitro, analogous to animal induced pluripotent stem cells (iPSCs). Dedifferentiation is associated with large-scale chromatin reorganisation and massive transcriptome reprogramming, characterised by stochastic gene expression. How this cellular variability reflects on chromatin organisation in individual cells and what factors influence chromatin transitions during culturing are largely unknown. Here, we used high-throughput imaging and a custom supervised image analysis protocol extracting over 100 chromatin features of cultured protoplasts. The analysis revealed rapid, multiscale dynamics of chromatin patterns with a trajectory that strongly depended on nutrient availability. Decreased abundance in H1 (linker histones) is hallmark of chromatin transitions. We measured a high heterogeneity of chromatin patterns indicating intrinsic entropy as a hallmark of the initial cultures. We further measured an entropy decline over time, and an antagonistic influence by external and intrinsic factors, such as phytohormones and epigenetic modifiers, respectively. Collectively, our study benchmarks an approach to understand the variability and evolution of chromatin patterns underlying plant cell reprogramming in vitro.
Transcriptional control of a metabolic switch regulating cellular methylation reactions is part of a common response to stress in divergent bee species
Authors: Kogan Helen V. , Macleod Shannon G. , Rondeau Nicole C. , Raup-Collado Joanna , Cordero Victoria A. , Rovnyak David , Marshalleck Corey A. , Mallapan Meghna , Flores Melissa E. , Snow Jonathan W. 
Published: May 2024

ABSTRACT
Recent global declines in bee health have elevated the need for a more complete understanding of the cellular stress mechanisms employed by diverse bee species. We recently uncovered the biomarker lethal (2) essential for life [l(2)efl] genes as part of a shared transcriptional program in response to a number of cell stressors in the western honey bee (Apis mellifera). Here, we describe another shared stress-responsive gene, glycine N-methyltransferase (Gnmt), which is known as a key metabolic switch controlling cellular methylation reactions. We observed Gnmt induction by both abiotic and biotic stressors. We also found increased levels of the GNMT reaction product sarcosine in the midgut after stress, linking metabolic changes with the observed changes in gene regulation. Prior to this study, Gnmt upregulation had not been associated with cellular stress responses in other organisms. To determine whether this novel stress-responsive gene would behave similarly in other bee species, we first characterized the cellular response to endoplasmic reticulum (ER) stress in lab-reared adults of the solitary alfalfa leafcutting bee (Megachile rotundata) and compared this with age-matched honey bees. The novel stress gene Gnmt was induced in addition to a number of canonical gene targets induced in both bee species upon unfolded protein response (UPR) activation, suggesting that stress-induced regulation of cellular methylation reactions is a common feature of bees. Therefore, this study suggests that the honey bee can serve as an important model for bee biology more broadly, although studies on diverse bee species will be required to fully understand global declines in bee populations.
The Role of Emphysema on Postoperative Prognosis in Early-Stage Nonsmall Cell Lung Cancer
Authors: Ishida Masayuki , Mimae Takahiro , Kamigaichi Atsushi , Kawamoto Nobutaka , Tsubokawa Norifumi , Miyata Yoshihiro , Okada Morihito 
Published: May 2024

Abstract
Background
Emphysema is generally considered a poor prognostic factor for patients with nonsmall cell lung cancer; however, whether the poor prognosis is due to highly malignant tumors or emphysema itself remains unclear. This study was designed to determine the prognostic value of emphysema in patients with early-stage nonsmall cell lung cancer.

Methods
A total of 721 patients with clinical stage IA nonsmall cell lung cancer who underwent complete resection between April 2007 and December 2018 were retrospectively analyzed regarding clinicopathological findings and prognosis related to emphysema.

Results
The emphysematous and normal lung groups comprised 197 and 524 patients, respectively. Compared with the normal lung group, lymphatic invasion (23.9% vs. 14.1%, P = 0.003), vascular invasion (37.6% vs. 17.2%, P < 0.001), and pleural invasion (18.8% vs. 10.9%, P = 0.006) were observed more frequently in the emphysema group. Additionally, the 5-year overall survival rate was lower (77.1% vs. 91.4%, P < 0.001), and the cumulative incidence of other causes of death was higher in the emphysema group (14.0% vs. 3.50%, P < 0.001). Multivariable Cox regression analysis of overall survival revealed that emphysema (vs. normal lung, hazard ratio 2.02, P = 0.0052), age > 70 years (vs. < 70 years, hazard ratio 4.03, P < 0.001), and SUVmax > 1.8 (vs. ≤ 1.8, hazard ratio 2.20, P = 0.0043) were independent prognostic factors.

Conclusions
Early-stage nonsmall cell lung cancer with emphysema has a tendency for the development of highly malignant tumors. Additionally, emphysema itself may have an impact on poor prognosis.
Dynamic Home Care Routing and Scheduling with Uncertain Number of Visits per Referral
Authors: Khorasanian Danial , Patrick Jonathan , Sauré Antoine 
Published: May 2024

Despite the rapid growth of the home care industry, research on the scheduling and routing of home care visits in the presence of uncertainty is still limited. This paper investigates a dynamic version of this problem in which the number of referrals and their required number of visits are uncertain. We develop a Markov decision process (MDP) model for the single-nurse problem to minimize the expected weighted sum of the rejection, diversion, overtime, and travel time costs. Because optimally solving the MDP is intractable, we employ an approximate linear program (ALP) to obtain a feasible policy. The typical ALP approach can only solve very small-scale instances of the problem. We derive an intuitively explainable closed-form solution for the optimal ALP parameters in a special case of the problem. Inspired by this form, we provide two heuristic reduction techniques for the ALP model in the general problem to solve large-scale instances in an acceptable time. Numerical results show that the ALP policy outperforms a myopic policy that reflects current practice, and is better than a scenario-based policy in most instances considered. Funding: This work was supported by the Natural Sciences and Engineering Research Council of Canada [Grants RGPIN-2018-05225 and RGPIN-2020-210524] and by the Telfer School of Management SMRG Postdoctoral Research Fellowship Support [Grant 2020]. Supplemental Material: The electronic companion is available at https://doi.org/10.1287/trsc.2023.0120 .
Empirische Untersuchung der Nutzerakzeptanz einer Demand-Side-Plattform für Programmatisches Marketing
Authors: von Zastrow Yelka , Yetim Fahri 
Published: May 2024

ZusammenfassungUnternehmen setzen zunehmend auf programmatische Softwareplattformen, um die Performance ihrer Werbekampagnen zu optimieren. Demand-Side-Plattformen (DSPs) helfen Werbetreibenden dabei, passende Werbeplätze auf Basis der individuellen Ziele, des Budgets und der Nutzerdaten zu finden. Obwohl die Relevanz der Benutzerakzeptanz für die erfolgreiche Nutzung von Systemen im Allgemeinen unterstrichen wird, mangelt es an empirischen Studien, die sich spezifisch mit der Akzeptanz von DSPs beschäftigen. Diese Fallstudie füllt die Forschungslücke dahingehend, dass sie eine bereits in der Praxis eingesetzte DSP aus Nutzerperspektive analysiert, um ein tiefgehendes Verständnis der Einflussfaktoren der Akzeptanz und Nutzung dieser Technologie zu erlangen. Zu diesem Zweck wird eine qualitative empirische Vorgehensweise gewählt, die sich an Akzeptanztheorien orientiert, um die Einflussfaktoren theoriegeleitet verstehen und erklären zu können. Die Ergebnisse dieser Studie können sowohl für werbetreibenden Unternehmen als auch für Anbieter und Entwickler einer DSP von großer Bedeutung sein, da sie Erkenntnisse darüber liefern, wie die Funktionalitäten einer DSP von den Nutzenden wahrgenommen werden, welche als besonders nützlich erachtet werden, und wo es Potenzial zur Verbesserung gibt. Die Ergebnisse bestätigen unter anderem die besondere Rolle der Leistungserwartung und Aufwandserwartung sowie auch die der Gewohnheit für die Nutzerakzeptanz. Die Implikationen der Ergebnisse für weitere Forschung und Praxis im Sinne von Handlungsempfehlungen für die Optimierung des Systems werden ebenfalls vorgestellt.
Evolution and genetic characterization of Seoul virus in wild rats Rattus norvegicus from an urban park in Lyon, France 2020–2022
Authors: Alburkat Hussein , Smura Teemu , Bouilloud Marie , Pradel Julien , Anfray Gwendoline , Berthier Karine , Dutra Lara , Loiseau Anne , Niamsap Thanakorn , Olander Viktor , Sepulveda Diana , Venkat Vinaya , Charbonnel Nathalie , Castel Guillaume , Sironen Tarja 
Published: May 2024

Background
Seoul virus (SEOV) is an orthohantavirus primarily carried by rats. In humans, it may cause hemorrhagic fever with renal syndrome (HFRS). Its incidence is likely underestimated and given the expansion of urban areas, a better knowledge of SEOV circulation in rat populations is called for. Beyond the need to improve human case detection, we need to deepen our comprehension of the ecological, epidemiological, and evolutionary processes involved in the transmission of SEOV.

Methodology / Principal findings
We performed a comprehensive serological and molecular characterization of SEOV in Rattus norvegicus in a popular urban park within a large city (Lyon, France) to provide essential information to design surveillance strategies regarding SEOV. We sampled rats within the urban park of ‘La Tête d’Or’ in Lyon city from 2020 to 2022. We combined rat population genetics, immunofluorescence assays, SEOV high-throughput sequencing (S, M, and L segments), and phylogenetic analyses. We found low structuring of wild rat populations within Lyon city. Only one sampling site within the park (building created in 2021) showed high genetic differentiation and deserves further attention. We confirmed the circulation of SEOV in rats from the park with high seroprevalence (17.2%) and high genetic similarity with the strain previously described in 2011 in Lyon city.

Conclusion/Significance
This study confirms the continuous circulation of SEOV in a popular urban park where the risk for SEOV transmission to humans is present. Implementing a surveillance of this virus could provide an efficient early warning system and help prepare risk-based interventions. As we reveal high gene flow between rat populations from the park and the rest of the city, we advocate for SEOV surveillance to be conducted at the scale of the entire city.
Comparison of cardiac output estimates obtained from the Antares oscillometric pulse wave analysis algorithm and from Doppler transthoracic echocardiography
Authors: Stäuber Alexander , Hoppe Matthias Wilhelm , Lapp Harald , Richter Stefan , Ohlow Marc-Alexander , Dörr Marcus , Piper Cornelia , Eckert Siegfried , Coll- Barroso Michael Thomas , Stäuber Franziska , Abanador-Kamper Nadine , Baulmann Johannes 
Published: May 2024

Background
In cardiology, cardiac output (CO) is an important parameter for assessing cardiac function. While invasive thermodilution procedures are the gold standard for CO assessment, transthoracic Doppler echocardiography (TTE) has become the established method for routine CO assessment in daily clinical practice. However, a demand persists for non-invasive approaches, including oscillometric pulse wave analysis (PWA), to enhance the accuracy of CO estimation, reduce complications associated with invasive procedures, and facilitate its application in non-intensive care settings. Here, we aimed to compare the TTE and oscillometric PWA algorithm Antares for a non-invasive estimation of CO.

Methods
Non-invasive CO data obtained by two-dimensional TTE were compared with those from an oscillometric blood pressure device (custo med GmbH, Ottobrunn, Germany) using the integrated algorithm Antares (Redwave Medical GmbH, Jena, Germany). In total, 59 patients undergoing elective cardiac catheterization for clinical reasons (71±10 years old, 76% males) were included. Agreement between both CO measures were assessed by Bland-Altman analysis, Student’s t-test, and Pearson correlations.

Results
The mean difference in CO was 0.04 ± 1.03 l/min (95% confidence interval for the mean difference: -0.23 to 0.30 l/min) for the overall group, with lower and upper limits of agreement at -1.98 and 2.05 l/min, respectively. There was no statistically significant difference in means between both CO measures (P = 0.785). Statistically significant correlations between TTE and Antares CO were observed in the entire cohort (r = 0.705, P<0.001) as well as in female (r = 0.802, P<0.001) and male patients (r = 0.669, P<0.001).

Conclusions
The oscillometric PWA algorithm Antares and established TTE for a non-invasive estimation of CO are highly correlated in male and female patients, with no statistically significant difference between both approaches. Future validation studies of the Antares CO are necessary before a clinical application can be considered.
Characterizing medical patients with delirium: A cohort study comparing ICD-10 codes and a validated chart review method
Authors: Sheehan Kathleen A. , Shin Saeha , Hall Elise , Mak Denise Y. F. , Lapointe-Shaw Lauren , Tang Terence , Marwaha Seema , Gandell Dov , Rawal Shail , Inouye Sharon , Verma Amol A. , Razak Fahad 
Published: May 2024

Background
Delirium is a major cause of preventable mortality and morbidity in hospitalized adults, but accurately determining rates of delirium remains a challenge.

Objective
To characterize and compare medical inpatients identified as having delirium using two common methods, administrative data and retrospective chart review.

Methods
We conducted a retrospective study of 3881 randomly selected internal medicine hospital admissions from six acute care hospitals in Toronto and Mississauga, Ontario, Canada. Delirium status was determined using ICD-10-CA codes from hospital administrative data and through a previously validated chart review method. Baseline sociodemographic and clinical characteristics, processes of care and outcomes were compared across those without delirium in hospital and those with delirium as determined by administrative data and chart review.

Results
Delirium was identified in 6.3% of admissions by ICD-10-CA codes compared to 25.7% by chart review. Using chart review as the reference standard, ICD-10-CA codes for delirium had sensitivity 24.1% (95%CI: 21.5–26.8%), specificity 99.8% (95%CI: 99.5–99.9%), positive predictive value 97.6% (95%CI: 94.6–98.9%), and negative predictive value 79.2% (95%CI: 78.6–79.7%). Age over 80, male gender, and Charlson comorbidity index greater than 2 were associated with misclassification of delirium. Inpatient mortality and median costs of care were greater in patients determined to have delirium by ICD-10-CA codes (5.8% greater mortality, 95% CI: 2.0–9.5 and $6824 greater cost, 95%CI: 4713–9264) and by chart review (11.9% greater mortality, 95%CI: 9.5–14.2% and $4967 greater cost, 95%CI: 4415–5701), compared to patients without delirium.

Conclusions
Administrative data are specific but highly insensitive, missing most cases of delirium in hospital. Mortality and costs of care were greater for both the delirium cases that were detected and missed by administrative data. Better methods of routinely measuring delirium in hospital are needed.
EVALUASI BASIS TARIF DASAR JASA 3D PRINTING DENGAN SIMULASI ANYLOGIC
Authors: Widiatmoko Julian Anindito , Purwaningsing Ratna , Susanty Aries 
Published: May 2024

Saat ini teknologi 3D Printing sedang sangat berkembang dengan biaya yang semakin terjangkau. Hal ini mendorong bermunculannya jasa cetak 3D di beberapa kota di Indonesia. Model bisnis yang digunakan adalah menerima model 3D dari pelanggan kemudian mencetaknya dengan 3D printer. Disebabkan oleh tidak terbatasnya variasi model 3D yang mungkin diterima, jasa 3D printing perlu menetapkan basis tarif dasar yang dipakai. Terdapat dua pilihan basis tarif dasar yang merepresentasikan biaya langsung, yaitu basis material dan basis waktu cetak. Studi ini mengevaluasi performansi kedua basis tersebut menggunakan simulasi Anylogic dalam memaksimalkan pendapatan. Seratus model 3D digunakan untuk mengakomodir variasi pesanan. Estimasi jumlah material dan waktu cetak untuk masing-masing model didapat dari software slicer dan digunakan sebagai inputan simulasi. Dari hasil simulasi pada rentang waktu operasi satu tahun, didapatkan kesimpulan bahwa meskipun kedua basis tarif dasar menunjukkan keunggulan biaya langsung secara bergantian untuk model 3D yang berbeda, basis material dapat memberikan jumlah pendapatan total yang lebih besar. Rate basis evaluation of 3D printing service using Anylogic simulation. Nowadays, 3D printing technology has been vastly developed at an even more affordable cost. This fact encourages the growth of 3D print services in some Indonesian cities. The business model for this type of service is simple: receiving a 3D model from the customer and then realizing it using 3D printing. Since there are unlimited variations of 3D models that come in, 3D services providers need to determine their basic rate. Two options of rate basis represent direct cost of 3D printing operation, those are material basis and printing time basis. This article evaluates the performance of the two using Anylogic simulation in maximizing revenue. A hundred 3D models were utilized to accommodate variation in order. Material needs and printing time estimation of each model were determined using slicer software as input for the simulation. The result of one year simulation time shows that although both bases can give superiority on direct cost for different individual 3D models, the material basis rate was able to present greater operational income.Keywords: 3D printing; rate basis; Anylogic; simulation
Diagnostic value of anti-hexokinase 1 and anti-kelch-like 12 antibodies in primary biliary cholangitis patients
Authors: Yang Min , Hu Chao , Huang Jun , Fu Ying , Zhang Qi , Cheng Yulan , Lu Jie , Li Guiling , Zhang Jun 
Published: May 2024

Abstract

Objectives
Anti-mitochondrial antibody (AMA) is not always present in patients with primary biliary cholangitis (PBC). We aimed to determine the additional value of anti-hexokinase 1 (anti-HK1) and anti-kelch-like 12 (anti-KLHL12) antibody in PBC and analyzed the biochemical and immunological parameters of 212 subjects, including PBC patients and healthy controls.

Methods
Serum anti-gp210 and sp100 antibodies were determined by an immunoblotting test (IBT). Enzyme-linked immunosorbent assay (ELISA) was employed to evaluate anti-HK1 and anti-KLHL12. The diagnostic value of anti-HK1 and anti-KLHL12 to PBC was analyzed by constructing a receiver operating characteristic (ROC) curve.

Results
ROC analyses didn’t show a very good performance of serum anti-HK1 for PBC diagnosis; the AUC was 0.664 with a sensitivity of 53.3 % and a specificity of 79.2 %. Regarding anti-KLHL12, ROC analysis yielded an AUC of 0.626, with a sensitivity of 45.7 % and a specificity of 93.8 %. For AMA-negative PBC patients, the AUC increased to 0.790 for KLHL12, and 0.708 for HK1. AMA combined with anti-HK1 or anti-KLHL12 antibody significantly improved the diagnostic sensitivity of PBC from 82 to about 95 %, respectively. In AMA-negative PBC patients, the sensitivities for anti-HK1 (62.50 %) and anti-KLHL12 (75 %) antibodies were higher than for anti-gp210 (37.5 %) and anti-sp100 antibody (43.75 %). When these four antibodies were combined, the overall sensitivity increased to 87.5 %.

Conclusions
The determination of anti-HK1 and anti-KLHL12 facilitates the diagnosis of PBC, particularly in AMA-negative patients. Adding anti-HK1 and anti-KLHL12 antibodies to clinical detection enables early diagnosis and timely treatment, potentially improving patient prognosis.
“Let’s ride this out together”: unpacking multilingual top-down and bottom-up pandemic communication evidenced in Singapore’s coronavirus-related linguistic and semiotic landscape
Authors: Gu Chonglong 
Published: May 2024

Abstract
Access to languages is a human right and multilingual crisis communication is vital during a pandemic. Multilingual and (super)diverse Singapore features four official languages (English, Chinese, Malay, and Tamil), with English being a dominant lingua franca. Additionally, other minority/migrant languages are also spoken to varying degrees (e.g. Tagalog, Thai, Burmese, Hindi, Punjabi, and Nepali). Contributing to public health communication research, this study explores Singapore’s multilingual pandemic communication practices evidenced on its COVID-related linguistic landscape, drawing on real-world top-down and bottom-up signs (N = 128). Top-down signs in Singapore are found to mostly feature English monolingualism or the four official languages. In comparison, Singapore’s bottom-up COVID-scape manifests in more scenarios. The findings are aligned with Singapore’s linguistic policy and existing pre-COVID linguistic ecology. What is conspicuously absent is that minority/migrant languages other than the four official languages are rarely represented. Despite Singapore's relative success in the anti-Covid journey overall, this raises questions of inclusiveness and accessibility and suggests that the city state needs to get out of its linguistic “comfort zone” and use a broader range of languages in crisis communication, especially considering the possibility of disease X and other future public health contingencies. The wider significance and ramifications of the study are also explored and discussed.
Fatigue life evaluation of laser welded lap joints of dissimilar aluminum alloys
Authors: Liao Xiangyun , Wang Ruijie , Zhao Pinglin 
Published: May 2024

Abstract
Constant amplitude fatigue tests were conducted on 6061/7075 dissimilar aluminum alloy laser welded lap specimens, as well as weld line cross-section hardness measurements. The fatigue test results show that the specimens exhibit multiple fracture modes that exit near the weld seam. The microhardness data on weld line cross-section from 7075 side to 6061 side display a sharp change and the softening phenomenon is serious. The hardness variation in heat affected zone of laser welding is very shallow, and its hardness is close to that of the base material. It was found that there are slag inclusions and pores in the weld seam when observing the fatigue fracture surface using SEM, and a small amount of secondary cracks were generated. However, stress concentration plays a dominant role in causing specimen fracture under fatigue loading, rather than welding defects. Defective specimens are found to have higher fatigue strength. The fatigue life prediction results obtained by the notch stress method and the hot spot stress method are both conservative and fall within two factor lines. The hot spot stress method has relatively higher accuracy for life prediction. The accuracy of both methods in predicting life is influenced by the location of the fracture.