bluuebunny/crossref_metadata_2025_split huggingface dataset:
Size matters - the impact of nucleus size on results from spatial transcriptomics
Authors: Mohammadi Elyas , Chojnowska Katarzyna , Bienkowski Michal , Kostecka Anna , Koczkowska Magdalena , Zmijewski Michal A , Jakalski Marcin , Ingelsson Martin , Filipowicz Natalia , Olszewski Pawel , Davies Hanna , Wierzbicka Justyna , Hyman Bradley T , Dumanski Jan P , Piotrowski Arkadiusz , Mieczkowski Jakub 
Published: January 2023

Abstract
Background: Visium Spatial Gene Expression (ST) is a method combining histological spatial information with transcriptomics profiles directly from tissue sections. The use of spatial information has made it possible to discover new modes of gene expression regulations. However, in the ST experiment, the nucleus size of cells may exceed the thickness of a tissue slice. This may, in turn, negatively affect comprehensive capturing the transcriptomics profile in a single slice, especially for tissues having large differences in the size of nuclei.
Methods: We applied Consecutive Slices Data Integration (CSDI) to unveil accurate spot classification and clustering, followed by the deconvolution of spatial transcriptomic spots in human postmortem brains. We integrated spatial transcriptomic profiles with single nuclei RNA-seq data. We used histological information as a reference, to asses cell identification.
Results: We observed significant improvement in cell recognition and spot classification. Apart from the escalated number of defined clusters representing neuronal layers, the pattern of clusters in consecutive sections was concordant only after CSDI. Additionally, the assigned cell labels to spots match the histological pattern of tissue sections after CSDI.
Conclusion: CSDI can be applied to investigate consecutive sections studied with ST in the human cerebral cortex, avoiding misinterpretation of spot clustering and annotation, increasing accuracy of cell recognition as well as improvement in uncovering the layers of grey matter in the human brain.
Genomic Analysis and Clinical Correlations of Non-Small Cell Lung Cancer (NSCLC) Brain Metastasis (BM)
Authors: Skakodub Anna , Walch Henry , Tringale Kathryn , Eichholz Jordan , Imber Brandon , Vasudevan Harish , Li Bob , Moss Nelson , Yu Kenny , Mueller Boris , Powell Simon , Razavi Pedram , Yu Helena , Reis-Filho Jorge , Gomez Daniel , Schultz Nikolaus , Pike Luke 
Published: January 2023

Abstract
Up to 50% of patients with non-small cell lung cancer (NSCLC) develop brain metastasis (BM), yet the study of BM genomics has been limited by tissue access, incomplete clinical data, and a lack of comparison with paired extracranial specimens. Here we report a cohort of 233 patients with resected and sequenced (MSK-IMPACT) NSCLC BM and comprehensive clinical data. With matched samples (47 primary tumor, 42 extracranial metastatic), we showed CDKN2A/B deletions and cell cycle pathway alterations to be enriched in the BM samples. Meaningful clinico-genomic correlations were noted, namely EGFR alterations in leptomeningeal disease (LMD) and MYC amplifications in multifocal regional brain progression. Patients who developed early LMD frequently had uncommon, multiple, and persistently detectable EGFR driver mutations. The distinct mutational patterns identified in BM specimens compared to other tissue sites suggest specific biologic underpinnings of intracranial progression.
Coix: an underutilized functional food crop of Mizoram
Authors: SONI JEETENDRA KUMAR , Lalramhlimi B. , Kumar Amit , Navik Omprakash , Sailo Lalhruaitluangi , Doley S. 
Published: January 2023

Abstract
Coix (Coix lacryma-jobi) comes under underutilized crops as it is neither cultivated commercially on a large scale nor widely traded. The Northeastern region of India harbours a rich diversity of Coix. This crop has diverse varieties from food to ethnic ornaments worn by the Mizo people. The soft-shelled types (var ma-yuen), locally called ‘Mim’ have been an important cereal crop among the Mizo rural communities since a long time. The grains are highly nutritious and its exceptional medicinal aspects have been extensively researched. While the seeds of wild types (var lacryma-jobi) are excellent beads for ornamental purposes and are key components in making traditional head gear ‘Vakiria’ worn by Mizo ladies in festive occasions. It is recently gaining importance as a ‘functional food’, due to its rich source of nutrients and bioactive compounds. The grains of Coix are gluten free which benefit people with celiac disease. It is used for preparing flour, soups, porridge, gruels, salads, desserts, snack, wine, sweets, etc. It is found to have diuretic, anti-inflammatory, antidiarrheal, antioxidant, antipyretic, antiseptic, antispasmodic, analgesic, hypotensive, and sedative properties. Coix germplasm are rapidly disappearing from wild and jhum lands and without conservation a large population of genetic diversity will be lost from Northeast India. Mizoram also possesses a wide array of germplasm which could potentially contribute to research priorities due to the wide variability that exists in the region. However, the ignorance on nutritional value of the crop, lack of standard agronomic practice, unavailability of high yielding quality seeds and potential varieties suitable for Mizoram condition, processing infrastructures and marketing have diminished the interest of farmers in popularizing this crop. So, forty-four Coix genotypes were evaluated owing to their agronomic characteristics to identify stable and promising genotypes suitable for Mizoram condition. Based on stability analysis, two genotypes RJT-1 (39.74 q/ha) and RJT-2 (35.27 q/ha) were identified as most stable genotypes for seed yield and other yield-related traits under Mizoram condition. The high yielding unstable genotype like RJTGP-53 (58.43 q/ha) can be considered for use in crop improvement programme with the help of a stable genotypic background. In addition, the occurrence of invasive fall armyworm, Spodoptera frugiperda(J.E. Smith) on Coix was observed and the damage incidence ranged between 7.23 to 10.86% in the vegetative growth stages (45 to 75 days crop) from the last week of August to the end of September. To our best knowledge, this is the first report of fall armyworm occurrence on Coix crop from India.
Tough, rapid self-recovery and responsive organogel-based ionotronic for intelligent continuous passive motion system
Authors: Chen Yong-Mei , Tang Jie , He Yuan , Xu Dan , Zhang Weijie , Hu Yang , Song Heming , Zhang Yunxia , Yang Yang , Zhang Kai 
Published: January 2023

Abstract
Continuous passive motion (CPM) has become an adjunct therapy to the standard postoperative rehabilitation regimen of joint injuries for a long time. However, the ability to in real-time monitor leg bearing capacity and actual bending angle of knee joints is highly desired for the treatment strategies of personalized postoperative rehabilitation and telemedicine. Here we report a novel intelligent CPM system for personalized rehabilitation and telemedicine based on the flexible and versatile ionotronic that possesses excellent mechanical properties and brilliant environmental tolerance. Especially, the corresponding ionotronic responds fastly and shows excellent cycling stability for strain sensing, ensuring the detection of actual joint bending angle with a high sensitivity and reliability. An intelligent CPM system assembled with this ionotronic and a wireless transmitter was constructed, opening up a new horizon for developing digital intelligent medical that can remotely monitor the movement of hospitalized/at-home patients who use CPM for personalized postoperative rehabilitation.
The discriminative ability of FRAX and possible FRAX-based intervention thresholds in the Chinese population: a 10-year study
Authors: Liu Yangxiaoou , Sun Yan'ge , Ye Xiaohua , Yan Yan , Li Chao , Li Xinyi 
Published: January 2023

Abstract
Purpose
Our study aims to assess the performance of FRAX and explored possible Chinese-specific intervention thresholds.
Methods
Four hundred and sixty-nine participants were observed for 10 years. Using FRAX with bone mineral density (BMD), 10-year possibilities of hip fracture (HF) and major osteoporotic fracture (MOF) were calculated. New fractures were self-reported. Using the incidence of new fractures as the gold standard, discrimination of FRAX was analyzed by receiver operating characteristic (ROC) curve. We also found possible intervention thresholds by using the greatest Youden index.
Results
Forty-nine MOFs were self-reported, including 5 HFs. ROC analysis showed the area under the curve (AUC) for FRAX-based MOF probability was 0.683, and the cut-off value was 2.95%. The sensitivity was 59.2% and the specificity was 67.6%. For prediction of HF, the AUC for FRAX-based HF probability was 0.776, and the cut-off value was 0.45%. The sensitivity was 100% and the specificity was 44.6%.
Conclusion
FRAX with BMD has the ability to discriminate osteoporotic fractures. FRAX-based MOF probability of 2.95% and HF probability of 0.45% can be considered as possible intervention thresholds.
Carbon footprints of Chinese fund firms' equity portfolios
Authors: Jinglei Wang , Yu Xiang , Zhang Zengkai , Chen Danbo , Guan Dabo 
Published: January 2023

Abstract
Under the dual carbon goals in China, the transition to a net-zero carbon economy demands massive amounts of capital, which must be provided and facilitated by financial institutions. Yet there are no accurate, annual, publicly available disclosures of the carbon emissions embodied in investments, leaving Chinese financial institutions facing significant carbon risks. To bridge this gap, this study looked at data from China’s 105 fund firms to measure the CO2 emissions embodied in their equity investments and carbon intensities from 2010 to 2020. The findings show that total financed emissions have been on a continuous upward trend since 2015, with large-sized fund firms contributing most. The overall trend for carbon intensity metrics shows a reduction in exposure to carbon-intensive assets and an increase in carbon efficiency. It is therefore crucial to identify the drivers of financed emissions and explore the potential for carbon reduction. Our findings suggest that some fund firms have already shifted their capital allocations to decarbonize their investment portfolios. Divesting from high-carbon assets and turning to high-tech sectors can help reduce carbon risk exposures and improve carbon efficiency, which is crucial if China’s institutional investors are to achieve a low-carbon transition and long-term sustainable development.
Crystalline Sirolimus-Coated Balloon (cSCB) Angioplasty in an all-comers,patient population with stable and unstable coronary artery disease including chronic total occlusions: Rationale, methodology and design of the SCORE trial
Authors: Otto Sylvia , Díaz Victor Alfonso Jiménez , Weilenmann Daniel , Cuculi Florim , Nuruddin Amin Ariff , Leibundgut Gregor , Alfonso Fernando , Ahmad Wan Azman Wan , Pyxaras Stylianos , Rittger Harald , Steen Philip , Schulze Christian , Gaede Luise , Wöhrle Jochen , Rosenberg Mark , Waliszewski Matthias W. 
Published: January 2023

Abstract
Background
A decade ago, the iopromide-paclitaxel coated balloon (iPCB) was added to the cardiologist‘s toolbox to initially treat in-stent restenosis followed by the treatment of de novo coronary lesions. In the meantime, DES technologies have been substantially improved to address in-stent restenosis and thrombosis, and shortened anti-platelet therapy. Recently, sirolimus-coated balloon catheters (SCB) have emerged to provide an alternative drug to combat restenosis.
Methods
The objective of this study is to determine the safety and efficacy of a novel crystalline sirolimus-coated balloon (cSCB) technology in an unselective, international, large-scale patient population. Percutaneous coronary interventions of native stenosis, in-stent stenosis, and chronic total occlusions with the SCB in patients with stable coronary artery disease or acute coronary syndrome were included. The primary outcome variable is the target lesion failure (TLF) rate at 12 months, defined as the composite rate of target vessel myocardial infarction (TV-MI), cardiac death or ischemia-driven target lesion revascularization (TLR). The secondary outcome variables include TLF at 24 months, ischemia driven TLR at 12 and 24 months and all-cause death, cardiac death at 12 and 24 months
Discussion
Since there is a wealth of patient-based all-comers data for iPCB available for this study, a propensity-score matched analysis is planned to compare cSCB and iPCB for the treatment of de novo and different types of ISR. In addition, pre-specified analyses in challenging lesion subsets such as chronic total occlusions will provide evidence whether the two balloon coating technologies differ in their clinical benefit for the patient.
Trial registration number: ClinicalTrials.gov Identifier: NCT04470934
An improved bi-objective salp swarm algorithm based on decomposition for green scheduling in flexible manufacturing cellular environments with multiple automated guided vehicles
Authors: Zhou Binghai , Zhang Jihua 
Published: January 2023

Abstract
Energy-awareness in the industrial sectors has become a global consensus in recent decades. Green scheduling is acknowledged as an effective weapon to reduce energy consumption in the industrial sectors. Therefore, this paper is devoted to the green scheduling of flexible manufacturing cells (FMC) with auto-guided vehicle transportation, where conflict-free routing of the vehicles is considered. To deal with this problem, a bi-objective optimization model is proposed to achieve the minimization of the maximum completion time and the total energy consumption in an FMC. The studied problem is an extension of flexible job shop problem which is NP-hard. Thus, an improved bi-objective salp swarm algorithm based on decomposition (IMOSSA/D) is proposed and applied to the problem. The approach is based on the decomposition of the bi-objective problem. Salp swarm intelligence along with three stochastic-distribution-based operators are incorporated into the approach, to enhance and balance its exploring and exploiting ability. Computational experiments are performed to compare the proposed approach with two state-of-the-art algorithms. This study allows the decision makers to better trade-off between energy savings and production efficiency in flexible manufacturing cellular environment.
A 16-year retrospective study of vascular anomalies in the head and neck region
Authors: Leyman Bernard , Govaerts Dries , Dormaar Jakob Titiaan , Bila Michel , Coropciuc Ruxandra-Gabriela , Politis Constantinus 
Published: January 2023

Abstract
Many different disciplines are involved in the diagnosis and treatment of vascular anomalies. Although clear communication is paramount in a multidisciplinary approach, different classification systems and nomenclatures are still used today. The ‘International Society for the Study of Vascular Anomalies’ (ISSVA) is the classification most accepted in literature and is mainly based on the radiologic and clinical presentation. We aimed to review the clinical practice of diagnosis and treatment of vascular anomalies in the head and neck region in a university hospital, with special attention for the nomenclature. All patients with a vascular anomaly who presented at the department of oral and maxillofacial surgery were reviewed in a retrospective manner. The nomenclature, diagnostic process, lesion characteristics, treatment and outcome were investigated. The lesions were classified and if necessary reinterpreted according to the ISSVA classification. A total of 185 patients were identified, of which 12.4% (n = 23) had a congenital anomaly. The most common lesions were venous malformations (n = 47, 25.4%), followed by lobular capillary hemangiomas (n = 17, 9.2%). Hundred and one patients (54,6%) received treatment, of which 93 were treated surgically (92,1% of the treated patients). Endovascular treatment was considered in 41 patients but only performed in eight. The other patients had too superficial lesions, which implies a risk of necrosis, leaving scars in the face. The histology report is a source of miscommunication, as clinicians use the ISSVA classification, while pathologists use the WHO classification. We found that both nomenclatures and classifications are used interchangeably in the clinical reports. The most used treatment modality remains surgery, notwithstanding the rise of minimally invasive techniques.
Magnetic flux leakage testing method for Ferromagnetic workpiece with rough surface based on the ferromagnetic lift-off layer
Authors: Yang Yun , Qiu Shaoxiong , Peng Guang , Liang Zhenyu , Kang Yihua 
Published: January 2023

Abstract
Conventional leakage detection studies usually consider the surface of the workpiece to be smooth by default. The lifting medium between the sensor and the workpiece is often a non-ferromagnetic material such as air; however, the surface roughness of the latter often affects the sensitivity of leakage detection in practical applications. To address these problems, this study proposed a magnetic leakage detection method based on the influence of surface roughness on the leakage field of surface cracks on the workpiece. The influence of the characteristic parameters of magnetic media on the leakage field signal of rough surface cracks was analyzed through simulations, and subsequently verified via experiments. The experimental results confirmed that the magnetic flux leakage detection method based on magnetic lift-off layer improved the signal-to-noise ratio (SNR) of the magnetic flux leakage signal of cracks on a rough workpiece surface. An increase in thickness (0.5 mm) and permeability of the magnetic media layer also improved the SNR (by 2.2 dB) of the magnetic flux leakage detection signal. Thus, the proposed method can improve the SNR of the leakage detection signal in general, which is expected to provide a certain reference value for leakage detection of rough surface workpieces.
Human Health risk assessment associated with the consumption of oysters ( Crassostrea gasar ) in Paranaguá Estuarine System/Brazil and its Salinity gradient as a tool to understand the contaminants assimilation dynamic.
Authors: Lima Leonardo Silva , Vieira Khauê Silva , Delgado Jéssica Freitas , Neto José Antônio Baptista , Fonseca Estefan Monteiro 
Published: January 2023

Abstract
Mollusks are considered one of the main bioindicators of pollution in aquatic environments, however, they are also the basis of food for several communities around the world. In estuaries such as the one monitored in this study, Paranaguá Estuarine Complex, where salinity variation is a relevant point, the bioaccumulation of metals (Al, As, Mn, Ni, Cu, Zn and Cd) in Crassostrea gasar oysters was identified in 5 different locations. Additionally, human health risk indexes were calculated from the concentration of metals found in oysters. Oysters were collected from 5 sampling stations along Paranaguá Estuarine System, close to oyster producing communities, natural banks used for extraction and containing large human populations, with potential for high environmental pollution. The oysters (C. gasar) proved effective in the environmental monitoring of these pollutants and emphasized the need for constant monitoring of the estuary, especially regarding As and Zn.
Establishment of the Rapid Propagation System of Actinidia arguta
Authors: Yao Wantian , Kong Lingling , Lei Diya , Zhao Bing , Tang Honglan , Zhou Xuan , Lin Yuanxiu , Zhang Yunting , Wang Yan , He Wen , Li Mengyao , Chen Qing , Luo Ya , Wang Xiaorong , Tang Haoru , Zhang Yong 
Published: January 2023

Abstract
The effects of different growth regulator types and ratios on the induction of adventitious shoots and adventitious roots were investigated using Actinidia arguta leaves as materials. 'Purple Sadova' was found to have strong germination and the highest germination rate on induction media with different PGRs concentrations. In this experiment, the best medium for the induction of adventitious shoots was MS + ZT 3.0 mg·L− 1 + NAA 0.1 mg·L− 1, with a germination rate of 36.67%. The most suitable site for the induction of adventitious shoots was the base of the leaves, with a germination rate of 80.00%. The longer the dark culture time was, the more suitable for adventitious bud germination, and the germination rate of adventitious buds reached 80.00% after 30 d of dark culture. The best proliferation medium for adventitious buds was MS + 6-BA 1.0 mg·L− 1+NAA 0.3 mg·L− 1, with a proliferation coefficient of 3.57. The proliferated buds had strong growth potential, large leaves, green color and high buds. The best rooting medium was 1/2MS + IBA 0.7 mg·L− 1, with 100% rooting rate, average root length of 2.81 cm and average root number of 14.5. In conclusion, this study explored an effective method to improve the quantity and quality of reproduction of this A. arguta, enriched the fast breeding system of A. arguta, and provided a theoretical basis for the factory breeding of all-red type A. arguta seedlings.
Differential change in indigenous versus endemic plant cover over time in an invaded Hawaiian landscape
Authors: Hibit Joshua , Daehler Curtis C. 
Published: January 2023

Abstract

Endemic island plant species under threat due to anthropogenic activities may be more susceptible to decline than their indigenous counterparts. Our study aimed to determine whether endemic and indigenous plant cover in Hawaiian forests have been differentially affected by resource availability, disturbance, and invasion over time. We resurveyed 25 plots (400 m2 each) across gradients of elevation, precipitation, slope, and understory light availability in forested conservation areas on the island of Oʻahu, Hawaiʻi, USA. We assessed how these abiotic factors relate to absolute cover (previous, current, and change over time) of endemic and indigenous Hawaiian plants, as well as that of non-native species. Endemic species had a net loss of cover (-45%) since previous surveys 27 to 45 years earlier, while indigenous species had a net gain (+ 29%), as did non-natives (~ 1%). Endemic species cover was associated with higher elevations in both prior surveys and in 2018, and with steeper plot slopes in prior surveys. However, change in endemic cover over time was negatively correlated with slope, likely due to landslide disturbance or the proliferation of shade-tolerant invaders in low-light conditions where no disturbance was evident. Change in endemic species cover over time was not clearly related to resource availability (light and precipitation). Given the differences in responses of endemic and indigenous species to abiotic conditions, and that the endemic species in this study were more susceptible to decline than indigenous species, the results of this study indicate that generalizations about natives as a single group can be misleading.