bluuebunny/crossref_metadata_2025_split huggingface dataset:
Exploration of oxidized phosphocholine profile in non-small-cell lung cancer
Authors: Godzien Joanna , Lopez-Lopez Angeles , Sieminska Julia , Jablonowski Kacper , Pietrowska Karolina , Kisluk Joanna , Mojsak Malgorzata , Dzieciol-Anikiej Zofia , Barbas Coral , Reszec Joanna , Kozlowski Miroslaw , Moniuszko Marcin , Kretowski Adam , Niklinski Jacek , Ciborowski Michal 
Published: January 2024

Introduction: Lung cancer is one of the most frequently studied types of cancer and represents the most common and lethal neoplasm. Our previous research on non-small cell lung cancer (NSCLC) has revealed deep lipid profile reprogramming and redox status disruption in cancer patients. Lung cell membranes are rich in phospholipids that are susceptible to oxidation, leading to the formation of bioactive oxidized phosphatidylcholines (oxPCs). Persistent and elevated levels of oxPCs have been shown to induce chronic inflammation, leading to detrimental effects. However, recent reports suggest that certain oxPCs possess anti-inflammatory, pro-survival, and endothelial barrier-protective properties. Thus, we aimed to measure the levels of oxPCs in NSCLC patients and investigate their potential role in lung cancer.Methods: To explore the oxPCs profiles in lung cancer, we performed in-depth, multi-level metabolomic analyses of nearly 350 plasma and lung tissue samples from 200 patients with NSCLC, including adenocarcinoma (ADC) and squamous cell carcinoma (SCC), the two most prevalent NSCLC subtypes and COPD patients as a control group. First, we performed oxPC profiling of plasma samples. Second, we analyzed tumor and non-cancerous lung tissues collected during the surgical removal of NSCLC tumors. Because of tumor tissue heterogeneity, subsequent analyses covered the surrounding healthy tissue and peripheral and central tumors. To assess whether the observed phenotypic changes in the patients were associated with measured oxPC levels, metabolomics data were augmented with data from medical records.Results: We observed a predominance of long-chain oxPCs in plasma samples and of short-chain oxPCs in tissue samples from patients with NSCLC. The highest concentration of oxPCs was observed in the central tumor region. ADC patients showed higher levels of oxPCs compared to the control group, than patients with SCC.Conclusion: The detrimental effects associated with the accumulation of short-chain oxPCs suggest that these molecules may have greater therapeutic utility than diagnostic value, especially given that elevated oxPC levels are a hallmark of multiple types of cancer.
Biochemical parameters as a tool to assess the nutritional status of patients with amyotrophic lateral sclerosis
Authors: Monov Dimitar , Molodozhnikova Natalia 
Published: January 2024

BackgroundThe research aimed to analyze blood biochemical parameters in patients with amyotrophic lateral sclerosis and to determine whether they can be used to assess their nutritional status.MethodsThe study included 45 patients diagnosed with amyotrophic lateral sclerosis (ALS): 28 (62.2%) were men and 17 (37.8%) were women. The mean age of the study participants was 50.69 ± 7.24 years. The control group consisted of 30 practically healthy individuals.ResultsCompared with practically healthy individuals, patients with ALS had significantly lower blood parameters, including total lymphocyte count (1.49 ± 0.11 vs. 2.86 ± 0.25, p &lt; 0.05), total protein (60.55 ± 2.38 vs. 77.80 ± 4.41, p &lt; 0.05), albumin (33.70 ± 2.03 vs. 46.49 ± 3.22, p &lt; 0.05), urea (3.09 ± 0.36 vs. 5.37 ± 0.50, p &lt; 0.05), creatinine (51.28 ± 4.42 vs. 70.91 ± 5.13, p &lt; 0.05), and transferrin (1.84 ± 0.12 vs. 2.32 ± 0.10, p &lt; 0.05). These parameters correspond to first-degree malnutrition. There were direct correlations between anthropometric and biochemical parameters in the ALS group. BMI correlated with the blood levels of total protein (r = 0.22, p &lt; 0.05), albumin (r = 0.27, p &lt; 0.05), urea (r = 0.33, p &lt; 0.05), creatinine (r = 0.30, p &lt; 0.05), transferrin (r = 0.18, p &lt; 0.05), and total lymphocyte count (r = 0.20, p &lt; 0.05). PNI correlated with the blood levels of total protein (r = 0.53, p &lt; 0.05), albumin (r = 0.87, p &lt; 0.05), total cholesterol (r = 0.34, p &lt; 0.05), transferrin (r = 0.40, p &lt; 0.05), total lymphocyte count (r = 0.79, p &lt; 0.05), urea (r = 0, 37, p &lt; 0.05), and creatinine (r = 0.32, p &lt; 0.05).ConclusionThe study presents compelling evidence supporting the utilization of biochemical parameters, including total protein, albumin, urea, creatinine, transferrin, and total lymphocyte count, for potentially evaluating the nutritional status of individuals diagnosed with ALS.
MRI-visible enlarged perivascular spaces in basal ganglia rather than centrum semiovale was associated with aneurysmal subarachnoid hemorrhage
Authors: Yu Qiuyue , Wang Haichao , Zhang Wenyi , Zhang Xiang , Zhao Jingjing , Gong Li , Liu Xueyuan 
Published: January 2024

BackgroundThe subarachnoid space is continuous with the perivascular compartment in the central nervous system. However, whether the topography and severity of enlarged perivascular spaces (EPVS) correlates with spontaneous subarachnoid hemorrhage (SAH) remains unknown. Based on the underlying arteriopathy distributions, we hypothesized that EPVS in basal ganglia (BG-EPVS) are more closely associated with aneurysmal subarachnoid hemorrhage (aSAH) than other SAH without aneurysm.MethodsMagnetic resonance imaging (MRI) scans of 271 consecutive SAH survivors with and without aneurysm were analyzed for EPVS and other markers of imaging data. In the subgroup analysis, we compared the clinical characteristics and EPVS of SAH participants with and without pre-existing known risk factors (hypertension, diabetes, and smoking history) using multivariable logistic regression.ResultsPatients with aSAH (n = 195) had a higher severity of BG-EPVS and centrum semiovale EPVS (CSO-EPVS) than those without aneurysm (n = 76). Importantly, BG-EPVS predominance pattern (BG-EPVS&gt;CSO-EPVS) only existed in aSAH survivors rather than other SAH without aneurysm. In the subgroup analysis, interestingly, we also found that a high degree of BG-EPVS showed an independent relationship with aSAH in patients without pre-existing risk factors (e.g., hypertension).ConclusionIn this cohort study, BG-EPVS predominance pattern was associated with aSAH patients compared with those without aneurysm. Moreover, BG-EPVS still showed a strong association with aSAH survivors without pre-existing vascular risk factors. Our present study suggested the BG-EPVS as a potential MRI-visible characteristic would shed light on the pathogenesis of glymphatic function at the skull base for aSAH.
A study on the combination of functional connection features and Riemannian manifold in EEG emotion recognition
Authors: Wu Minchao , Ouyang Rui , Zhou Chang , Sun Zitong , Li Fan , Li Ping 
Published: January 2024

IntroductionAffective computing is the core for Human-computer interface (HCI) to be more intelligent, where electroencephalogram (EEG) based emotion recognition is one of the primary research orientations. Besides, in the field of brain-computer interface, Riemannian manifold is a highly robust and effective method. However, the symmetric positive definiteness (SPD) of the features limits its application.MethodsIn the present work, we introduced the Laplace matrix to transform the functional connection features, i.e., phase locking value (PLV), Pearson correlation coefficient (PCC), spectral coherent (COH), and mutual information (MI), to into semi-positive, and the max operator to ensure the transformed feature be positive. Then the SPD network is employed to extract the deep spatial information and a fully connected layer is employed to validate the effectiveness of the extracted features. Particularly, the decision layer fusion strategy is utilized to achieve more accurate and stable recognition results, and the differences of classification performance of different feature combinations are studied. What's more, the optimal threshold value applied to the functional connection feature is also studied.ResultsThe public emotional dataset, SEED, is adopted to test the proposed method with subject dependent cross-validation strategy. The result of average accuracies for the four features indicate that PCC outperform others three features. The proposed model achieve best accuracy of 91.05% for the fusion of PLV, PCC, and COH, followed by the fusion of all four features with the accuracy of 90.16%.DiscussionThe experimental results demonstrate that the optimal thresholds for the four functional connection features always kept relatively stable within a fixed interval. In conclusion, the experimental results demonstrated the effectiveness of the proposed method.
Cloud platform to improve efficiency and coverage of asynchronous multidisciplinary team meetings for patients with digestive tract cancer
Authors: Zhang Yu , Li Jie , Liao Min , Yang Yalan , He Gang , Zhou Zuhong , Feng Gang , Gao Feng , Liu Lihua , Xue Xiaojing , Liu Zhongli , Wang Xiaoyan , Shi Qiuling , Du Xaiobo 
Published: January 2024

BackgroundMultidisciplinary team (MDT) meetings are the gold standard of cancer treatment. However, the limited participation of multiple medical experts and the low frequency of MDT meetings reduce the efficiency and coverage rate of MDTs. Herein, we retrospectively report the results of an asynchronous MDT based on a cloud platform (cMDT) to improve the efficiency and coverage rate of MDT meetings for digestive tract cancer.MethodsThe participants and cMDT processes associated with digestive tract cancer were discussed using a cloud platform. Software programming and cMDT test runs were subsequently conducted to further improve the software and processing. cMDT for digestive tract cancer was officially launched in June 2019. The doctor response duration, cMDT time, MDT coverage rate, National Comprehensive Cancer Network guidelines compliance rate for patients with stage III rectal cancer, and uniformity rate of medical experts’ opinions were collected.ResultsThe final cMDT software and processes used were determined. Among the 7462 digestive tract cancer patients, 3143 (control group) were diagnosed between March 2016 and February 2019, and 4319 (cMDT group) were diagnosed between June 2019 and May 2022. The average number of doctors participating in each cMDT was 3.26 ± 0.88. The average doctor response time was 27.21 ± 20.40 hours, and the average duration of cMDT was 7.68 ± 1.47 min. The coverage rates were 47.85% (1504/3143) and 79.99% (3455/4319) in the control and cMDT groups, respectively. The National Comprehensive Cancer Network guidelines compliance rates for stage III rectal cancer patients were 68.42% and 90.55% in the control and cMDT groups, respectively. The uniformity rate of medical experts’ opinions was 89.75% (3101/3455), and 8.97% (310/3455) of patients needed online discussion through WeChat; only 1.28% (44/3455) of patients needed face-to-face discussion with the cMDT group members.ConclusionA cMDT can increase the coverage rate of MDTs and the compliance rate with National Comprehensive Cancer Network guidelines for stage III rectal cancer. The uniformity rate of the medical experts’ opinions was high in the cMDT group, and it reduced contact between medical experts during the COVID-19 pandemic.
OTUD3 suppresses the mTORC1 signaling by deubiquitinating KPTN
Authors: Li Jiatao , Yang Dan , Lin Yan , Xu Wei , Zhao Shi-min , Wang Chenji 
Published: January 2024

Background: Ubiquitination and deubiquitination modifications play pivotal roles in eukaryotic life processes, regulating protein dynamics via the ubiquitin-proteasome pathway. Dysregulation can impact disease development, including cancer and neurodegenerative disorders. Increasing evidence highlights their role in tumorigenesis, modulating key proteins. OTUD3, a deubiquitinase, stabilizes PTEN, suppressing tumor growth by inhibiting PI3K-AKT signaling. Yet, further OTUD3 substrates remain underexplored.Methods: We employed the In vivo ubiquitination assay to investigate the ubiquitination role of OTUD3 on KPTN within the cellular context. Additionally, CRISPR/Cas9 editing and Immunofluorescence were utilized to study the impact of OTUD3 on the mTOR signaling pathway in cells. Furthermore, Cell proliferation assay and NMR were employed to explore the effects of OTUD3 on cellular growth and proliferation.Results: OTUD3 serves as a deubiquitinase for KPTN. OTUD3 interacts with KPTN, facilitated by the OTU domain within OTUD3. Further investigations confirmed KPTN’s ubiquitination modification, primarily at lysine residue 49. Ubiquitination experiments demonstrated OTUD3’s ability to mediate KPTN’s deubiquitination without affecting its protein levels. This suggests KPTN’s ubiquitination is a function-regulated, non-degradable modification. Under various amino acid starvation or stimulation conditions, overexpressing OTUD3 reduces mTORC1 signaling activation, while knocking out OTUD3 further enhances it. Notably, OTUD3’s regulation of mTORC1 signaling relies on its deubiquitinase activity, and this effect is observed even in PTEN KO cells, confirming its independence from PTEN, a reported substrate. OTUD3 also promotes GATOR1’s lysosomal localization, a process requiring KPTN’s involvement. Ultimately, OTUD3 affects cellular metabolic pool products by downregulating the mTORC1 pathway, significantly inhibiting tumor cell growth and proliferation.Discussion: Our experiments shed light on an alternative perspective regarding the intrinsic functions of OTUD3 in inhibiting tumor development. We propose a novel mechanism involving KPTN-mediated regulation of the mTORC1 signaling pathway, offering fresh insights into the occurrence and progression of tumor diseases driven by related genes. This may inspire new approaches for drug screening and cancer treatment, potentially guiding future therapies for relevant tumors.
Monitoring functional immune responses with a cytokine release assay: ISS flight hardware design and experimental protocol for whole blood cultures executed under microgravity conditions
Authors: Buchheim Judith-Irina , Feuerecker Matthias , Balsamo Michele , Vukich Marco , Van Walleghem Merel , Tabury Kevin , Quintens Roel , Vermeesen Randy , Baselet Bjorn , Baatout Sarah , Rattenbacher Bernd , Antunes Inês , Ngo-Anh Thu Jennifer , Crucian Brian , Choukér Alexander 
Published: January 2024

Introduction: Long-term space missions trigger a prolonged neuroendocrine stress response leading to immune system dysregulation evidenced by susceptibility to infections, viral reactivation, and skin irritations. However, due to existing technical constraints, real-time functional immune assessments are not currently available to crew inflight. The in vitro cytokine release assay (CRA) has been effectively employed to study the stimulated cytokine response of immune cells in whole blood albeit limited to pre- and post-flight sessions. A novel two-valve reaction tube (RT) has been developed to enable the execution of the CRA on the International Space Station (ISS).Methods: In a comprehensive test campaign, we assessed the suitability of three materials (silicone, C-Flex, and PVC) for the RT design in terms of biochemical compatibility, chemical stability, and final data quality analysis. Furthermore, we thoroughly examined additional quality criteria such as safety, handling, and the frozen storage of antigens within the RTs. The validation of the proposed crew procedure was conducted during a parabolic flight campaign.Results: The selected material and procedure proved to be both feasible and secure yielding consistent and dependable data outcomes. This new hardware allows for the stimulation of blood samples on board the ISS, with subsequent analysis still conducted on the ground.Discussion: The resultant data promises to offer a more accurate understanding of the stress-induced neuroendocrine modulation of immunity during space travel providing valuable insights for the scientific community. Furthermore, the versatile nature of the RT suggests its potential utility as a testing platform for various other assays or sample types.
Chlorophyll a fluorescence as a tool to monitor physiological status in the leaves of Artemisia ordosica under root cutting conditions
Authors: Liu Ying , Gong Chuangang , Pei Weihao , Fan Kaixuan , Shen Wenjing 
Published: January 2024

BackgroundRoot cutting caused by underground coal mining subsidence is among the leading causes of plant damage in western China. Detection of root cutting stress is of great importance in evaluating the degree of plant damage and changes in physiological conditions in underground coal mining disturbance conditions.MethodsThe present study assessed the use of chlorophyll fluorescence OJIP transient data to evaluate the disturbance characteristics of root cutting stress on leaf photosynthetic mechanisms in the typical shrub Artemisia ordosica Krasch. Different root cutting ratios (10%, 20%, 30%, 50%, 75%, and 100%) were established on the roots of A. ordosica in the field, and the OJIP transient and JIP parameters of the leaves were measured.ResultsThe overall OJIP curves and each OJIP step in leaves decreased as the root cutting ratio increased, but the impact was relatively small for root cutting ratios of less than 30%. Through the analysis of JIP parameters and the established energy pipeline model, it was found that the energy capture efficiency and electron transfer efficiency of photosystem II decreased as the root cutting ratio increased. Therefore, we also inferred that the threshold for the plant root cutting ratio at which leaf photosynthetic mechanisms begin to change is 30–50%.ConclusionThese results indicate that OJIP transient analysis can serve as a non-destructive, rapid technique for detecting plant root cutting stress in coal mining subsidence areas, which is of great value for non-destructive monitoring of plant root damage.
The psychosocial functioning in adolescents with severe obesity evaluated throughout the strengths and difficulties questionnaire (SDQ): a preliminary report
Authors: Guerrini Usubini Anna , Bottacchi Michela , Morelli Giovanna , Caroli Diana , Marazzi Nicoletta , Castelnuovo Gianluca , Sartorio Alessandro 
Published: January 2024

IntroductionChildhood obesity is associated with poor psychological adjustment. Severely impacts the psychological adjustment of young patients. To assess the psychological functioning of children and adolescents, several questionnaires have been proposed so far. Although the Strengths and Difficulties Questionnaire (SDQ) is one of the most well-used tools, its application in obesity research is scarce. The study is aimed at assessing the psychological profile of a sample of Italian children and adolescents seeking an in-hospital multidisciplinary body weight reduction program for obesity, via SDQ.MethodsOne hundred and fourteen consecutive Italian children and adolescents with obesity (43 males/71 females, age range: 11–17 years, mean age ± SD: 15.1 ± 1.66, body mass index-BMI ± SD: 37.4 ± 6.13 kg/m2), were recruited at the Division of Auxology, Istituto Auxologico Italiano IRCCS, Piancavallo (VB).ResultsObese Females reported worse conditions of emotional symptoms (t = 5.48; p &lt; 0.001) and peer problems (t = 2.34; p = 0.021), as well as higher which were associated with greater scores of pro-social behaviors than obese males (t = 3.07; p = 0.003). The total difficulties score (t = 4.00; p &lt; 0.001) and the total impact score (t = 4.53; p &lt; 0.001) were significantly higher in females than males. No statistically significant differences in SDQ variables were found in relation to the degree of obesity (BMI SDS: 2–2.99; BMI SDS: &gt; 3).DiscussionThese findings can contribute to understand the psychological condition of adolescents with obesity in a better way and also to develop effective interventions for the treatment of pediatric obesity which not only take into account the medical and physical aspects but also the emotional and social difficulties expressed by adolescents with obesity.
PTCHD1 gene mutation/deletion: the cognitive-behavioral phenotyping of four case reports
Authors: Montanaro Federica Alice Maria , Mandarino Alessandra , Alesi Viola , Schwartz Charles , Sepulveda Daniela Judith Claps , Skinner Cindy , Friez Michael , Piccolo Gabriele , Novelli Antonio , Zanni Ginevra , Dentici Maria Lisa , Vicari Stefano , Alfieri Paolo 
Published: January 2024

IntroductionX-linked PTCHD1 gene has recently been pointed as one of the most interesting candidates for involvement in neurodevelopmental disorders (NDs), such as intellectual disability (ID) and autism spectrum disorder (ASD). PTCHD1 encodes the patched domain-containing protein 1 (PTCHD1), which is mainly expressed in the developing brain and adult brain tissues. To date, major studies have focused on the biological function of the PTCHD1 gene, while the mechanisms underlying neuronal alterations and the cognitive-behavioral phenotype associated with mutations still remain unclear.MethodsWith the aim of incorporating information on the clinical profile of affected individuals and enhancing the characterization of the genotype–phenotype correlation, in this study, we analyze the clinical features of four individuals (two children and two adults) in which array-CGH detected a PTCHD1 deletion or in which panel for screening non-syndromal XLID (X-linked ID) detected a PTCHD1 gene variant. We define the neuropsychological and psychopathological profiles, providing quantitative data from standardized evaluations. The assessment consisted of clinical observations, structured interviews, and parent/self-reported questionnaires.ResultsOur descriptive analysis align with previous findings on the involvement of the PTCHD1 gene in NDs. Specifically, our patients exhibited a clinical phenotype characterized by psychomotor developmental delay- ID of varying severity. Interestingly, while ID during early childhood was associated with autistic-like symptomatology, this interrelation was no longer observed in the adult subjects. Furthermore, our cohort did not display peculiar dysmorphic features, congenital abnormalities or comorbidity with epilepsy.DiscussionOur analysis shows that the psychopathological and behavioral comorbidities along with cognitive impairment interfere with development, therefore contributing to the severity of disability associated with PTCHD1 gene mutation. Awareness of this profile by professionals and caregivers can promote prompt diagnosis as well as early cognitive and occupational enhancement interventions.