bluuebunny/crossref_metadata_2025_split huggingface dataset:
Impact of Rice Field Conversion on the Availability of Rice in Banyumas Regency, Central Java Province
Authors: Acintya R , Kinanthi H D , Kuncoro A B , Arifianto D , Nuswantara G R , Ardiaghaza R A , Raihani T E N B , Putri N A 
Published: March 2024

Abstract
The availability of agricultural land plays a critical role in addressing the food needs of the population. Population growth has led to the conversion of agricultural land, posing a significant threat to regional food security. Banyumas Regency, strategically located at the intersection of economic growth centers, has experienced substantial land conversion. This study aims to analyze the factors influencing the conversion of rice fields and its impact on rice availability in Banyumas Regency. The data utilized in this research comprises secondary data spanning the period from 2012 to 2021. The analytical methods employed include assessing the rate of rice field conversion, evaluating food self-sufficiency levels, and conducting a multiple linear regression analysis to determine the combined influence of population and built-up area on rice field conversion. The results of the analysis reveal that when population and built-up land area are considered together, they account for 28% of land conversion. The conversion of agricultural land into non-rice fields results in a reduction of rice fields, negatively affecting rice availability and the food security of the population.
Validation of WRF Rainfall Model during the November 4th, 2021 Flash Flood Event in Batu City – Indonesia
Authors: Pratama I D , Nurjani E , Sekaranom A B 
Published: March 2024

Abstract
Flash floods in Batu City, Indonesia on November 4th, 2021, caused damage to property, agricultural land, settlements, death of livestock, and loss of human life. One of the important factors triggering this flash flood is heavy rainfall. This study aims to analyse the spatial and temporal dynamics of rainfall as a trigger for the event. Rainfall modelling was conducted using the WRF model with 2 microphysical schemes and 3 cumulus schemes. The data used is GFS data on October 30th, 2021, with a resolution of 0.25 x0.25 degrees which is used to predict rain events until November 4, 2021. Contingency table verification, RMSE value verification, and verification using tolerance limits are used to verify the results of modelling data based on BMKG observation data. The results of this study show that this model can predict rain and non-rain events very well. However, this model is not good enough to predict the thickness of rain until November 4, 2021. The best scheme in modelling rainfall is scheme 5 (Lin and Betts Miller Janjic). Scheme 5 has the smallest RMSE value of 77, the data fit is appropriate and the medium error rate in scheme 5 is 84%. Scheme 5 with GFS data input started from 02 November 2021 can record rain events on 04 November 2021 with extreme rain categories. This extreme rain is influenced by convective clouds. The temperature of the cloud tops changes significantly from 13.00 WIB to 14.00 local time, namely from −4 degrees, and decreases to −76 degrees Celsius.
GraphPath: a graph attention model for molecular stratification with interpretability based on the pathway–pathway interaction network
Authors: Ma Teng , Wang Jianxin 
Published: March 2024

Abstract

Motivation
Studying the molecular heterogeneity of cancer is essential for achieving personalized therapy. At the same time, understanding the biological processes that drive cancer development can lead to the identification of valuable therapeutic targets. Therefore, achieving accurate and interpretable clinical predictions requires paramount attention to thoroughly characterizing patients at both the molecular and biological pathway levels.

Results
Here, we present GraphPath, a biological knowledge-driven graph neural network with multi-head self-attention mechanism that implements the pathway–pathway interaction network. We train GraphPath to classify the cancer status of patients with prostate cancer based on their multi-omics profiling. Experiment results show that our method outperforms P-NET and other baseline methods. Besides, two external cohorts are used to validate that the model can be generalized to unseen samples with adequate predictive performance. We reduce the dimensionality of latent pathway embeddings and visualize corresponding classes to further demonstrate the optimal performance of the model. Additionally, since GraphPath’s predictions are interpretable, we identify target cancer-associated pathways that significantly contribute to the model’s predictions. Such a robust and interpretable model has the potential to greatly enhance our understanding of cancer’s biological mechanisms and accelerate the development of targeted therapies.

Availability and implementation
https://github.com/amazingma/GraphPath.
A review of recent advances of kesterite thin films based on magnesium, iron and nickel for photovoltaic application: insights into synthesis, characterization and optoelectronic properties
Authors: Espinel Pérez Nelson Mauricio , Vera López Enrique , Gómez Cuaspud Jairo Alberto , Carda Castelló Juan Bautista 
Published: March 2024

Abstract
This review emphasizes the recent advancements and prospects of thin-film kesterite-based photovoltaic (PV) applications using magnesium, iron and nickel. The quest for novel materials employed in solar cells has resulted in incorporating these elements into the composition of kesterite as substitutes or modifiers (dopants) for zinc. This integration has induced notable repercussions on the structural, optoelectronics and morphological properties, which are reviewed. The first section of this paper offers a comprehensive review of the general characteristics of kesterite minerals. These crucial materials exhibit a high absorption coefficient (104 cm–1) and an optical band gap of 1.0–1.8 eV. Moreover, they are free of critical raw materials, non-toxic and sustainable. The second section depicts the substitution or modification of zinc by magnesium in kesterite. Additionally, this paper provides a comprehensive review of the quaternary and pentanary systems Cu2MgSn(S,Se)4 and Cu2Zn1–xMgxSnS4, highlighting their advantages and drawbacks. In the last section, a review of the quaternary or pentanary systems is conducted, namely Cu2ZnxFe1–xSnS4 and Cu2ZnxNi1–xSnS4, along with their effects on optoelectronic properties. In conclusion, various methods for obtaining modified or substituted kesterite materials using magnesium, iron and nickel have demonstrated sustainability, scalability for industrial production and potential candidacy as substitutes for conventional PV materials. The prospects for pentanary materials (Cu2Zn1‑xMgxSnS4, Cu2Zn1‑xFexSnS4 and Cu2Zn1‑xNixSnS4) are to overcome the efficiency record of kesterite reported in 2014, which was 12.6 % for Cu2ZnSn(S,Se)4, and to enhance its optoelectronic properties through synthesis conditions that comply with the principles of green chemistry.
The prognostic value of visual and automatic coronary calcium scoring from low-dose computed tomography-[15O]-water positron emission tomography
Authors: Dobrolinska M M , Jukema R A , van Velzen S G M , van Diemen P A , Greuter M J W , Prakken N H J , van der Werf N R , Raijmakers P G , Slart R H J A , Knaapen P , Isgum I , Danad I 
Published: March 2024

Abstract

Aims
The study aimed, firstly, to validate automatically and visually scored coronary artery calcium (CAC) on low-dose computed tomography (CT) (LDCT) scans with a dedicated calcium scoring CT (CSCT) scan and, secondly, to assess the added value of CAC scored from LDCT scans acquired during [15O]-water-positron emission tomography (PET) myocardial perfusion imaging (MPI) on prediction of major adverse cardiac events (MACE).

Methods and results
Five hundred seventy-two consecutive patients with suspected coronary artery disease, who underwent [15O]-water-PET MPI with LDCT and a dedicated CSCT scan were included. In the reference CSCT scans, manual CAC scoring was performed, while LDCT scans were scored visually and automatically using deep learning approach. Subsequently, based on CAC score results from CSCT and LDCT scans, each patient’s scan was assigned to one out of five cardiovascular risk groups (0, 1–100, 101–400, 401–1000, &gt;1000), and the agreement in risk group classification between CSCT and LDCT scans was investigated. MACE was defined as a composite of all-cause death, non-fatal myocardial infarction, coronary revascularization, and unstable angina. The agreement in risk group classification between reference CSCT manual scoring and visual/automatic LDCT scoring from LDCT was 0.66 [95% confidence interval (CI): 0.62–0.70] and 0.58 (95% CI: 0.53–0.62), respectively. Based on visual and automatic CAC scoring from LDCT scans, patients with CAC &gt; 100 and CAC &gt; 400, respectively, were at increased risk of MACE, independently of ischaemic information from the [15O]-water-PET scan.

Conclusion
There is a moderate agreement in risk classification between visual and automatic CAC scoring from LDCT and reference CSCT scans. Visual and automatic CAC scoring from LDCT scans improve identification of patients at higher risk of MACE.
Feasibility of tracheal reconstruction using silicone-stented aortic allografts
Authors: Wei Shixiong , Zhang Yiyuan , Luo Feixiang , Duan Kexing , Li Mingqian , Lv Guoyue 
Published: March 2024

Abstract

OBJECTIVES
Tracheal reconstruction post-extensive resection remains an unresolved challenge in thoracic surgery. This study evaluates the use of aortic allografts (AAs) for tracheal replacement and reconstruction in a rat model, aiming to elucidate the underlying mechanisms of tracheal regeneration.

METHODS
AAs from female rats were employed for tracheal reconstruction in 36 male rats, with the replacement exceeding half of the tracheal length. To avert collapse, silicone stents were inserted into the AA lumens. No immunosuppressive therapy was administered. The rats were euthanized biweekly, and the AAs were examined for neovascularization, cartilage formation, respiratory epithelial ingrowth, submucosal gland regeneration and the presence of the Sex-determining region of Y-chromosome (SRY) gene.

RESULTS
All procedures were successfully completed without severe complications. The AA segments were effectively integrated into the tracheal framework, with seamless distinction at suture lines. Histological analysis indicated an initial inflammatory response, followed by the development of squamous and mucociliary epithelia, new cartilage ring formation and gland regeneration. In situ hybridization identified the presence of the SRY gene in newly formed cartilage rings, confirming that regeneration was driven by recipient cells.

CONCLUSIONS
This study demonstrates the feasibility of AAs transforming into functional tracheal conduits, replicating the main structural and functional characteristics of the native trachea. The findings indicate that this approach offers a novel pathway for tissue regeneration and holds potential for treating extensive tracheal injuries.
Thorax support vest to prevent sternal wound infections in cardiac surgery patients—a systematic review and meta-analysis
Authors: Caldonazo Tulio , Dell’Aquila Michele , Cancelli Gianmarco , Harik Lamia , Soletti Giovanni Jr , Fischer Johannes , Kirov Hristo , Rahouma Mohamed , Ibrahim Mudathir , Demetres Michelle , An Kevin R , Girardi Leonard , Doenst Torsten , Gaudino Mario 
Published: March 2024

Abstract

OBJECTIVES
Midline sternotomy is the main surgical access for cardiac surgeries. The most prominent complication of sternotomy is sternal wound infection (SWI). The use of a thorax support vest (TSV) that limits thorax movement and ensures sternal stability has been suggested to prevent postoperative SWI.

METHODS
We performed a meta-analysis to evaluate differences in clinical outcomes with and without the use of TSV after cardiac surgery in randomized trials. The primary outcome was deep SWI (DSWI). Secondary outcomes were superficial SWI, sternal wound dehiscence, and hospital length of stay (LOS). A trial sequential analysis was performed. Fixed (F) and random effects (R) models were calculated.

RESULTS
A total of 4 studies (3820 patients) were included. Patients who wore the TSV had lower incidence of DSWI [odds ratio (OR) = F: 0.24, 95% confidence interval (CI), 0.13–0.43, P &lt; 0.01; R: 0.24, 0.04–1.59, P = 0.08], sternal wound dehiscence (OR = F: 0.08, 95% CI, 0.02–0.27, P &lt; 0.01; R: 0.10, 0.00–2.20, P = 0.08) and shorter hospital LOS (standardized mean difference = F: −0.30, −0.37 to −0.24, P &lt; 0.01; R: −0.63, −1.29 to 0.02, P = 0.15). There was no difference regarding the incidence of superficial SWI (OR = F: 0.71, 95% CI, 0.34–1.47, P = 0.35; R: 0.64, 0.10, 4.26, P = 0.42). The trial sequential analysis, however, showed that the observed decrease in DSWI in the TSV arm cannot be considered conclusive based on the existing evidence.

CONCLUSIONS
This meta-analysis suggests that the use of a TSV after cardiac surgery could potentially be associated with a reduction in sternal wound complications. However, despite the significant treatment effect in the available studies, the evidence is not solid enough to provide strong practice recommendations.
Development of Certified Reference Material Solutions for Phytochemicals in Ginger and Kava
Authors: Aijaz Sarah M , Ruan Zoe , Leija Christopher , Lytwak Lauren A , Waddell Shelby , Kuszak Adam J , Wise Stephen A , Sreenivasan Uma 
Published: March 2024

Abstract

Background
Dietary supplements derived from botanicals are commonly consumed and investigated in biomedical studies for their potential health benefits. Accurate identification and quantification of key chemical constituents from botanical ingredients is necessary for consistent product preparations and reproducible research results. Manufacturers need quantitative reference materials of the chemical constituents of interest to verify the content of ingredients and products. The rigor and reproducibility of biomedical research is enhanced through thorough characterization of the interventions used in mechanistic, clinical, and safety investigations. Quantitative reference materials enable reliable product quality assessments and reproducible research results.

Objective
Solution-based certified reference material (CRM) mixes were developed as calibrants for phytochemicals in ginger and kava. The kava CRM contained yangonin, desmethoxyyangonin, dihydrokavain, DL-kavain, methysticin, dihydromethysticin, flavokawain A, flavokawain B, and flavokawain C. The ginger CRM contained 6-gingerol, 8-gingerol, 10-gingerol, 6-shogaol, 8-shogaol, and 10-shogaol.

Methods
Each phytochemical was sourced as an isolated compound and assigned a purity factor by a mass balance approach accounting for residual impurities. The solution standard mixes were formulated by gravimetric addition of each phytochemical incorporating the purity factor and diluting with acetonitrile to the target concentrations of 500 µg/mL for the gingerols and shogaols, 250 µg/mL for the kavalactones, and 25 µg/mL for the flavokawains.

Results
The concentration accuracy of each component in the solution mixes was analytically verified by ultra high performance liquid chromatography with ultraviolet detection (UHPLC–UV) assay comparison to an independently prepared calibration solution. Each component in the ginger and kava CRMs were within 5 and 7% of the target concentrations, respectively.

Conclusion
Homogeneous kava and ginger phytochemical solution mixes were produced with accurate constituent concentrations and demonstrated good stability over 2 years. These solution mixes were launched as commercially available CRMs.

Highlights
These mixes can be used as accurate concentration stock solutions to prepare calibrators and controls for botanical dietary supplement product testing and standardization.
TEDNet: Twin Encoder Decoder Neural Network for 2D Camera and LiDAR Road Detection
Authors: Bayón-Gutiérrez Martín , García-Ordás María Teresa , Alaiz Moretón Héctor , Aveleira-Mata Jose , Rubio-Martín Sergio , Benítez-Andrades José Alberto 
Published: March 2024

Abstract
Robust road surface estimation is required for autonomous ground vehicles to navigate safely. Despite it becoming one of the main targets for autonomous mobility researchers in recent years, it is still an open problem in which cameras and LiDAR sensors have demonstrated to be adequate to predict the position, size and shape of the road a vehicle is driving on in different environments. In this work, a novel Convolutional Neural Network model is proposed for the accurate estimation of the roadway surface. Furthermore, an ablation study has been conducted to investigate how different encoding strategies affect model performance, testing 6 slightly different neural network architectures. Our model is based on the use of a Twin Encoder–Decoder Neural Network (TEDNet) for independent camera and LiDAR feature extraction and has been trained and evaluated on the Kitti–Road dataset. Bird’s Eye View projections of the camera and LiDAR data are used in this model to perform semantic segmentation on whether each pixel belongs to the road surface. The proposed method performs among other state-of-the-art methods and operates at the same frame rate as the LiDAR and cameras, so it is adequate for its use in real-time applications.
Tumor-infiltrating lymphocytes and breast cancer mortality in racially and ethnically diverse participants of the Northern California Breast Cancer Family Registry
Authors: Ransohoff Julia D , Miller Iain , Koo Jocelyn , Joshi Vishal , Kurian Allison W , Allison Kimberly H , John Esther M , Telli Melinda L 
Published: March 2024

Abstract
Stromal tumor-infiltrating lymphocyte (sTIL) enrichment in pretreatment breast tumors has been associated with superior response to neoadjuvant treatment and survival. In a population-based cohort, we studied sTIL-survival associations by race and ethnicity. We assessed associations of continuous sTIL scores and sTIL-enriched breast cancers (defined as percent lymphocytic infiltration of tumor stroma or cell nests at cutoffs of 30%, 50%, and 70%) with clinical and epidemiologic characteristics and conducted multivariable survival analyses. Although we identified no difference in sTIL score by race and ethnicity, higher continuous sTIL score was associated with lower breast cancer–specific mortality only among non-Hispanic White and Asian American but not African American and Hispanic women. This finding suggests that complex factors influence treatment response and survival, given that sTIL enrichment was not associated with a survival advantage among women from minoritized groups, who more often experience health disparities. Further study of patient selection for sTIL-guided treatment strategies is warranted.
New approach methodologies (NAMs): identifying and overcoming hurdles to accelerated adoption
Authors: Sewell Fiona , Alexander-White Camilla , Brescia Susy , Currie Richard A , Roberts Ruth , Roper Clive , Vickers Catherine , Westmoreland Carl , Kimber Ian 
Published: March 2024

Abstract
New approach methodologies (NAMs) can deliver improved chemical safety assessment through the provision of more protective and/or relevant models that have a reduced reliance on animals. Despite the widely acknowledged benefits offered by NAMs, there continue to be barriers that prevent or limit their application for decision-making in chemical safety assessment. These include barriers related to real and perceived scientific, technical, legislative and economic issues, as well as cultural and societal obstacles that may relate to inertia, familiarity, and comfort with established methods, and perceptions around regulatory expectations and acceptance. This article focuses on chemical safety science, exposure, hazard, and risk assessment, and explores the nature of these barriers and how they can be overcome to drive the wider exploitation and acceptance of NAMs. Short-, mid- and longer-term goals are outlined that embrace the opportunities provided by NAMs to deliver improved protection of human health and environmental security as part of a new paradigm that incorporates exposure science and a culture that promotes the use of protective toxicological risk assessments.
Androgenic steroids induce pathologic scarring in a preclinical porcine model via dysfunctional extracellular matrix deposition
Authors: Reiche Erik , Keller Patrick R. , Soares Vance , Schuster Calvin R. , Rahmayanti Siti , Mroueh Jessica , Mroueh Vanessa , Billaud Marie , Hu Sophia , Hoover‐Watson Hunter , Lian Christine G. , Tan Yu , Doloff Joshua C. , Newell‐Fugate Annie E. , Coon Devin 
Published: March 2024

AbstractHypertrophic scarring is a major source of morbidity. Sex hormones are not classically considered modulators of scarring. However, based on increased frequency of hypertrophic scarring in patients on testosterone, we hypothesized that androgenic steroids induce abnormal scarring and developed a preclinical porcine model to explore these effects. Mini‐swine underwent castration, received no testosterone (noT) or biweekly testosterone therapy (+T), and underwent excisional wounding. To create a delayed wound healing model, a subset of wounds were re‐excised at 2 weeks. Scars from postoperative day 42 (POD42) and delayed wounds (POD28) were harvested 6 weeks after initial wounding for analysis via histology, bulk RNA‐seq, and mechanical testing. Histologic analysis of scars from +T animals showed increased mean fibrosis area (16 mm2noT, 28 mm2+T; p = .007) and thickness (0.246 mm2noT, 0.406 mm2+T; p < .001) compared to noT. XX+T and XY+T scars had greater tensile burst strength (p = .024 and p = .013, respectively) compared to noT swine. Color deconvolution analysis revealed greater deposition of type I and type III collagen as well as increased collagen type I:III ratio in +T scars. Dermatopathologist histology scoring showed that +T exposure was associated with worse overall scarring (p < .05). Gene ontology analysis found that testosterone exposure was associated with upregulation of cellular metabolism and immune response gene sets, while testosterone upregulated pathways related to keratinization and laminin formation on pathway analysis. In conclusion, we developed a preclinical porcine model to study the effects of the sex hormone testosterone on scarring. Testosterone induces increased scar tissue deposition and appears to increase physical strength of scars via supraphysiologic deposition of collagen and other ECM factors. The increased burst strength seen in both XX and XY animals suggests that hormone administration has a strong influence on scar mechanical properties independent of chromosomal sex. Anti‐androgen topical therapies may be a promising future area of research.