bluuebunny/crossref_metadata_2025_split huggingface dataset:
Study on radiomics to predict the aggressiveness of multiple primary invasive lung adenocarcinomas
Authors: Sun Qinling , Huang Qiubo , OuYang Zhiqiang , Huang Yunchao , Zhao Guangqiang , Liao Chengde , Yang Yantao , Wang Biying , Yang Yichen , Ye Lianhua 
Published: November 2022

Abstract
Our aim is to establish a model for predicting the aggressiveness of pathological subtypes of multiple primary invasive lung adenocarcinomas based on CT radiomics to provide a reference for preoperative planning in affected patients. Clinical data and CT images of patients who were diagnosed as having multiple primary invasive lung adenocarcinomas through postoperative pathological analysis from January 2016 to December 2020 in the Third Affiliated Hospital of Kunming Medical University were retrospectively analyzed. 3D Slicer software were used to perform the focal segmentation and feature extraction of the CT images. Five classification learners were employed to establish models for predicting the aggressiveness of pathological subtypes of the lung adenocarcinomas, and evaluate the performance of the prediction model based on the area under the Area Under the subject operating characteristic Curve (AUC). 204 patients were enrolled, surgical intervention was applied to 408 nodules. Of them, 36.8% nodules were Acinar-type.The analysis of the CT radiomics-based aggressiveness prediction model demonstrated that the training group showed that the AUC values of logistic regression (LR), random forest (RF), decision tree(DT), support vector machine(SVM), and adaptive boosting(AdaBoost) models were all within 0.7–1, and the testing group showed that the AUC values of the LR and RF models were all within 0.7–0.9. Our results indicate that acinar-type is the main pathological subtype of multiple primary invasive lung adenocarcinomas. LR and RF models presented a certain level of accuracy performance in predicting the aggressiveness of pathological subtypes of multiple primary invasive lung adenocarcinomas and thus facilitate preoperative planning in cancer patients.
Targeting IGF1R signaling enhances the sensitivity of cisplatin by inhibiting proline and arginine metabolism in oesophageal squamous cell carcinoma under hypoxia condition
Authors: Xu Meidong , Fang Kang , Sun Mingchuang , Leng Zhuyun , Chu Yuan , Zhao Ziying , Li Zhaoxing , Zhang Yunwei , Xu Aiping , Zhang Zehua , Zhang Li , Chen Tao 
Published: November 2022

Abstract
Background & Aims:
Cisplatin (DDP)-based chemotherapy is commonly adopted as the first-line treatment for patients with oesophageal squamous cell carcinoma (OSCC), but the high rate of drug resistance limits its clinical application, and the underlying mechanisms remain unclear. The aims of this study is to elucidate the role of abnormal signal transmission and metabolism in chemoresistance of OSCC under oxygen-deprived microenvironment, and try to find targeted drugs that enhance the sensitivity of DDP chemotherapy.
Methods:
Upregulated genes in OSCCs were determined by RNA-seq, public database, IHC, rt-qPCR and Western blotting (WB). The clinicopathological significance of IGF1R, ASS1, PYCR1 in OSCC were analyzed using Tissue Micriarray (TMA). Metabolic abnormalities were determined by untargeted metabolomics analysis. The DDP resistance role of IGF1R, ASS1, PYCR1 in OSCC was investigated in vitro and in vivo.
Results:
Generally, tumor cells are in a hypoxic microenvironment. By genomic profiling, we
identified IGF1R as one of RTKs, were upregulated in OSCCs under low oxygen condition. Clinically, enhanced IGF1R expression was associated with higher stages and poor prognosis in OSCC patients, and it’s inhibitor linsitinib, showed synergistic effects on DDP therapy in vivo and in vitro.Since hypoxia conditions frequently lead to metabolic reprogramming, we further integrated metabolomic analysis to find that abnormal IGF1R pathways promoted the expression of metabolic enzymes argininosuccinate synthetase 1 (ASS1) and pyrroline-5-carboxylate reductase 1 (PYCR1) via transcriptional activity of cMYC. Deeply, enhanced expression of ASS1 promoted arginine metabolism for biological anabolism, whereas PYCR1 activated proline metabolism for redox balance, which maintained the proliferation ability of OSCC cells during DDP treatment under hypoxia condition.
Conclusions:
Enhanced expression of ASS1 and PYCR1 via IGF1R pathways rewired arginine and proline metabolism, promoting DDP resistance in OSCC under low oxygen conditions. Linsitinib targeting IGF1R signaling may provides promising combination therapy options for OSCC patients with DDP resistance.
High expression level of BRD4 is associated with a poor prognosis and immune infiltration in esophageal squamous cell carcinoma
Authors: Li Li , Gao Lin , Zhou Hong , Shi Chao , Zhang Xiaojuan , Zhang Dongmei , Liu Hongbin 
Published: November 2022

Abstract
Purpose The aim of this study is to evaluate the expression level of Bromodomain-containing protein 4 (BRD4), its prognostic value, and its relationship with immune infiltration in esophageal squamous cell carcinoma (ESCC).
Methods The study included 80 ESCC patients from The Cancer Genome Atlas (TCGA) database and 179 ESCC patients from Affiliated Hospital 2 of Nantong University. The expression levels of BRD4 and CD8 in tissue microarray were detected by immunohistochemistry. The prognostic factors affecting overall survival of ESCC were analyzed by Kaplan-Meier curve and univariate and multivariate cox regression. The ESTIMATE website was used to calculate the stromal, immune and ESTIMATE score. CIBERSORT and XCELL were used to calculate the abundance of immune infiltrates. Spearman and Phi coefficient were used for correlation analysis. The TIDE algorithm was used to predict treatment response to immune checkpoint blockade.
Results BRD4 is up-regulated in ESCC, and high BRD4 expression level is associated with poor prognosis and adverse clinicopathological features. In addition, the monocyte count, systemic inflammatory-immunologic index (SII), platelet/lymphocyte ratio (PLR), and monocyte/lymphocyte ratio (MLR) in the BRD4 high expression level group were higher than those in the low expression level group. Finally, we found that BRD4 expression level correlated with immune infiltration and that BRD4 expression level was inversely correlated with infiltration of CD8+T cells. In the TCGA esophageal cancer cohort, the BRD4 high expression level group had a higher TIDE score than the low expression level group. The same trend was observed in the TCGA ESCC cohort, but the P value was 0.058.
Conclusion BRD4 is associated with poor prognosis and immune infiltration in ESCC, and may be a potential biomarker for prognosis and immunotherapy application.
Molecular Insights into the Calanus species (Crustacea; Copepoda; Calanoida) in the Southern Ocean
Authors: Stupnikova Alexandra , Neretina Tatyana 
Published: November 2022

Abstract
The differentiation of marine species continues to pose a challenge despite the growing number of diagnostic metrics and approaches. This study examined the genetic relationship between two sibling species of the genus Calanus (Crustacea; Copepoda; Calanoida), C. simillimus and C. propinquus. In course of the study small and large nuclear ribosomal subunits (18S rDNA and D1 region of 28S rDNA, respectively), nuclear protein-coding gene (histone H3), internal transcribed spacer 1 (ITS1) region and the mitochondrial ribosomal gene (16S), mitochondrial cytochrome c oxidase subunit I (COI), cytochrome B (cytB) for the samples from the Southern Ocean have been defined by means of DNA sequences. Our data offers an interesting insight into mitonuclear discordance in marine copepods, and the failure of traditional mitochondrial markers in separating two similar, albeit morphologically distinct, species. It can be explained by mitochondrial introgression and the presence of pseudogenes (numts).
Analysis of the permafrost degradation under high embankments in cold regions
Authors: Wang Shuangjie , Zhao Runmin , Huang Xiaoming , Chen Jianbing 
Published: November 2022

Abstract
As one of the most significant environmental hazards, the degradation of permafrost will cause many harmful effects on environment, engineering and ecology, etc. To evaluate the impact of asphalt pavement road on permafrost degradation, the Qinghai-Tibet Highway (QTH) which passes through the permafrost region of the Qinghai-Tibet Plateau was studied in this paper. The results show that when the embankment is 3m high and the top of the embankment is not wider than 18m, the existence of the pavement structure could obviously protect permafrost from melting in cold permafrost region during the 20-year road service life. However, the results also indicate that whichever the embankment type is, this “protection” effect comes at the cost of making the permafrost more sensitive and fragile. This means that the existence of asphalt pavement will still pose a great threat to the cold region environments protection if no effective active cooling measures are applied.
Bioinformatics analysis of ferroptosis-related genes in the pathogenesis of diabetic ulcers
Authors: Wang Li , Tang Lulu , Xie Jinqi , Ye Haoxiang , Kuang Zaoyuan , Liu Aijun 
Published: November 2022

Abstract
Background: Diabetic ulcers are a major complication of diabetes which causing lower extremity amputation. Nonetheless, the progression in the development of diabetic ulcers therapeutics is slow. Ferroptosis plays a key role in the pathogenesis of chronic wound in diabetic ulcers. The mechanism needs to be further clarified.
Methods: Ferroptosis-related differentially expressed genes (FRDEGs) in diabetic ulcers were screened from the dataset GSE92724 and FerrDb online database based in silico. Then, functional enrichment analysis and protein-protein interaction (PPI) network were implemented to recognize the potential biological pathways and mechanisms. MCODE tool was used to cluster and predict hub genes. The miRNAs corresponding to hub genes were predicted by miRWalk 2.0. Receiver operating characteristic (ROC) was applied to verify the diagnostic value of five hub genes in the dataset GSE132187 and GSE134431. The immune infiltration between diabetic ulcers samples and normal samples were analyzed by using CIBERSORTx.
Results: 26 FRDEGs and 5 hub genes (EGFR, SLC2A1, CD44, CA9, and PTGS2) in diabetic ulcers were identified. GO and KEGG analysis revealed that hub genes were significantly enriched in response to oxidative stress, basolateral plasma membrane, and HIF-1 signaling pathway. ROC results suggested that hub genes have a high diagnostic accuracy for diabetic ulcers. In immune cell infiltration, T follicular helper cells and monocytes were significantly lower in diabetic ulcers.
Conclusion: This research firstly demonstrated that five hub genes may be potential therapeutic targets and possible diagnostic biomarkers in the pathogenesis of diabetic ulcers.
Community Based Cross-sectional Study of the Knowledge, Attitude and Practice of Complementary and Alternative Medicine in Resources Limited Setting: A Case of Mettu Town, South Western of Ethiopia
Authors: Jifar Wakuma Wakene , Teshome Bilise , Melkamu Gemachis , Debele Gebiso Roba 
Published: November 2022

Abstract

Objectives The goal of the study was to evaluate the community of Mettu Town, South West Ethiopia's knowledge, attitudes, and use of complementary and alternative medicine. Methods A community-based descriptive cross-sectional study including 285 individuals in Mettu town 03 kebele was conducted. To choose the households, a standardized random sampling method was utilized and house to house interviews were used to gather the data. Results 143 people (48.9%) of the participants were female and 94.9% of the respondents used complementary and alternative medicine, and 89% were aware of it. Medical herbalism was the most often used system (50.6%), and a higher percentage of study participants thought alternative medicine was less expensive than modern medicine (30.8%) and more accessible (42.5%). Conclusion The majority of the Mettu town Community practiced Complementary and Alternative Medicine theraphy and the study participants in Mettu town have good knowledge but poor attitude regarding utilization of CAM.
Why Panoptic Quality should be avoided as a metric for assessing cell nuclei segmentation and classification in digital pathology
Authors: Foucart Adrien , Debeir Olivier , Decaestecker Christine 
Published: November 2022

Abstract
Panoptic Quality, designed for the task of "Panoptic Segmentation" (PS), has been used in several digital pathology challenges and publications on cell nuclei instance segmentation and classification (ISC) since its introduction in 2019. Its purpose is to encompass the detection and the segmentation aspects of the task in a single measure, so that algorithms can be ranked according to their overall performance. A careful analysis of the properties of the metric, its application to ISC and the characteristics of nuclei ISC datasets, shows that is not suitable for this purpose and should be avoided. Through a theoretical analysis we demonstrate that PS and ISC, despite their similarities, have some fundamental differences that make PQ unsuitable. We also show that the use of the Intersection over Union as a matching rule and as a segmentation quality measure within the PQ is not adapted for such small objects as nuclei. We illustrate these findings with examples taken from the NuCLS and MoNuSAC datasets. The code for replicating our results is available on GitHub (https://github.com/adfoucart/panoptic-quality-suppl).
The use of surfactin in inhibiting Botrytis cinerea and in protecting winter jujube from the gray mold
Authors: Xiao Peng , Tian Xiaoyu , Zhu Peng , Xu Yangyang , Zhou Chengxu 
Published: November 2022

Abstract
Surfactin has the potential to be used as a food preservative. However, efficiency and action mechanism in various applications need more assessments and research. In this study, the antifungal effects and the mechanism of action of surfactin on the fungus Botrytis cinerea were investigated. The effects of applying surfactin for the removal of gray mold on the quality of winter jujube were investigated based on the changes in fruit fatty acids. The results showed that (1) surfactin significantly inhibited the growth of B. cinerea, the EC50 at 5 d was 46.42 mg/L. (2) Surfactin significantly reduced the disease incidence and diameter of gray mold-inoculated winter jujube in a concentration-dependent manner. For that treated with surfactin at the EC50, the incidence decreased by 38.89%. (3) For B. cinerea under surfactin treatment, the mycelial morphology changed, the levels of total lipids and ergosterol decreased, the reactive oxygen species levels increased, and the cell integrity was completely damaged. (4) For winter jujube inoculated by B. cinerea, the contents of saturated fatty acids decreased and unsaturated fatty acids increased. For those under the surfactin treatments, winter jujube maintained the fatty acid composition at the level of non-inoculated groups. Mechanical injury significantly changed the fatty acid composition of winter jujube; however, Surfactin not only was able to inhibit the growth of gray mold but also mitigated the adverse effects from mechanical injury. The present study demonstrated the potential applications of Surfactin in the preservation of postharvest fruit quality.
PM2.5 exposure increase dry eye disease risks through corneal epithelial inflammation and mitochondrial dysfunctions
Authors: Yu Donghui , Cai Wenting , Shen Tianyi , Wu Yan , Ren Chengda , Li Tingting , Hu Chengyu , Zhu Meijiang , Yu Jing 
Published: November 2022

Abstract
Dry eye disease (DED) is the most common disease affecting vision and quality of life. PM2.5 was a potential risk of DED. Herein, we conducted animal exposure and cell-based studies to evaluate the pathogenic effect of PM2.5 exposure on the ocular surface and DED etiological mechanisms. C57 mice were exposed to filtered air and PM2.5 aerosol. We assessed health conditions and inflammation of the ocular surface by corneal fluorescein staining and immunohistochemistry. In parallel, cultured human corneal epithelial cells (HCETs) were treated with PM2.5, followed by characterization of cell viability, intracellular ATP level, mitochondrial activities, and expression level of DED relevant mRNA and proteins. In mice, PM2.5 exposure induced severe superficial punctate keratopathy and inflammation in their cornea. In HCETs, cell proliferation and ROS generation followed dose-response and time-dependent manner, meanwhile mitochondrial ROS (mtROS) level increased and mitochondrial membrane potential (MMP) level decreased. Inflammation cascade was triggered even after short-term exposure. The reduction of ATP production was alleviated with Nrf2 overexpression, NF-κB P65 knockdown or ROS clearance. Nrf2 overexpression and P65 knockdown reduced inflammatory reaction through decreasing expression of P65 and increasing of Nrf2, respectively. They partly alleviated changes of ROS/mtROS/MMP. This research proved that PM2.5 would cause DED-related inflammation reaction on corneal epithelial cells and further explored its mechanism: ROS from mitochondrial dysfunctions of corneal epithelial cells after PM2.5 exposure partly inhibited the expression of anti-inflammatory protein Nrf2 led the activation of inflammatory protein P65 and its downstream molecules, which finally caused inflammation reaction.
Sudden-onset Vertigo Associated with Persistent Spontaneous Torsional Nystagmus and Imbalance: A Unique Clinical Manifestation of Benign Paroxysmal Positional Vertigo but not Acute Unilateral Peripheral Vestibulopathy (Vestibular Neuritis)
Authors: Liu Xuesheng 
Published: November 2022

Abstract
Objective: Benign paroxysmal positional vertigo (BPPV) is the most common peripheral vestibular disease. Acute unilateral peripheral vestibulopathy (AUPVP), previously termed vestibular neuritis (VN), is the 3rd most common peripheral vestibular neuropathy with unknown etiology and pathogenesis. This study aimed to explore the association between BPPV and AUPVP(VN) and identify the potential etiology and pathogenesis of AUPVP(VN).
Methods: The clinical characteristics of 11 patients with sudden-onset vertigo associated with persistent spontaneous torsional nystagmus (PSTN)and imbalance were retrospectively reviewed. The effectiveness of the CCRM treatment was evaluated. The diagnosis of these patients was analyzed.
Results: Balance dysfunction significantly improved after the first CCRM treatment and was completely alleviated after two CCRM treatments. PSTN was transformed to gaze-evoked persistent torsional nystagmus after the first CCRM treatment, and the degree of nystagmus was reduced. PSTN stopped in subsequent CCRM treatments. The severity of the vertigo gradually reduced after each treatment. The clinical manifestations of these patients after one or three CCRM treatments were the same as those of BPPV patients. Vertigo, PSTN, and imbalance were alleviated entirely in all patients after several CCRM treatments, suggesting that these patients had atypical BPPV.
Conclusions: Sudden-onset vertigo associated with PSTN and imbalance is a unique clinical manifestation of BPPV, caused by the canalith jam in the posterior semicircular canal or otolithiasis in multiple semicircular canals. The CCRM treatment is an effective therapeutic method for sudden-onset vertigo associated with PSTN and imbalance when central vestibular vertigo was excluded.
Auxin regulation on crop: from mechanisms to opportunities in soybean breeding
Authors: Li Linfang , Chen Xu 
Published: November 2022

Abstract
Breeding crop varieties with high-yield and ideal plant architecture is a desirable goal of agricultural science. The success of ‘Green Revolution’ in cereal crops provides opportunities to incorporate phytohormones in crop breeding. Auxin is a critical phytohormone to determinate nearly all the aspects of plant development. Despite the current knowledge regarding auxin biosynthesis, auxin transport and auxin signaling has been well characterized in model Arabidopsis plants, how auxin regulates crop architecture is far from being understood and the introduction of auxin biology in crop breeding stays in the theoretical stage. Here, we give an overview on molecular mechanisms of auxin biology in Arabidopsis, and mainly summarize auxin contributions for crop plant development. Furthermore, we propose potential opportunities to integrate auxin biology in soybean breeding.
Prescribed mass solutions to Schrödinger systems with critical Sobolev exponent
Authors: Luo Xiao , Yang Xiaolong , Zou Wenming 
Published: November 2022

Abstract
Note: Please see pdf for full abstract with equations.
We consider the existence and asymptotic behavior on mass of positive solutions to the following system
−Δu + λ1u = μ1u3 + α1|u|p−2u + βv2u in R4,
−Δv + λ2v = μ2v3 + α2|v|p−2v + βu2v in R4,
under the normalized mass constraints
∫R4u2 = a21 and ∫R4v2 = a22,
where a1, a2 are prescribed, μ1, μ2, β > 0, α1, α2 ∈ R, p ∈ (2, 4) and λ1, λ2 ∈ R appear as Lagrange multipliers. Firstly, we establish a non-existence result for the repulsive interaction case, i.e., αi < 0(i = 1, 2). Then turning to the case of αi > 0(i = 1, 2), if 2 < p < 3, we show that the problem admits a ground state and an excited state. Moreover, we give a precise asymptotic behavior of these two solutions as (a1, a2) → (0, 0) and a1 ~ a2. This seems to be the first contribution regarding the multiplicity as well as synchronized mass collapse behavior of normalized solutions to Schrödinger systems with Sobolev critical exponent. When 3 ≤ p < 4, we prove an existence as well as a non-existence (p = 3) results of ground states. Furthermore, precise asymptotic behaviors of the ground states are obtained when the masses of whose two components vanish and cluster to a upper bound (or infinity), respectively.
2010 Mathematics Subject Classification : 35J50, 35B33, 35B09, 35B40.
A Histogram-Based Algorithm for Concrete Infrastructures Destruction Detection
Authors: Esmaielzadeh Sajad 
Published: November 2022

Abstract
In this article, to detect dam destruction, statistical analysis of recorded observations was used. The efficiency of the introduced method is estimated by numerical simulations. The acceleration measurements in different nodes are obtained in both damaged and intact cases after implementing of three earthquake records with low, middle, and high frequencies, respectively. The statistical segmentation of measurements is performed based on a histogram framework. Consequently, a new automatic method is devised based on the zero-order and first-order cumulative momentums to determine the presence of structure destruction. The proposed histogram-based dam detector has been analyzed and simulated in the MATLAB simulator. To do so, the Peak-to-Sidelobe Ratio (PSLR) of the histogram curves is considered as a performance assessment criterion. According to the simulation results, the proposed method has an efficient performance to detect destruction and determine its position in the dam.