bluuebunny/crossref_metadata_2025_split huggingface dataset:
Histone demethylase KDM4B epigenetically controls NLRP3 expression
to enhance inflammatory responses
Authors: Zhao Wei , Tong Li , Song Hui , Qin Danhui , Li Qi , Fu Yue , Zhao Chunyuan , Gao Chengjiang , Qin Ying 
Published: July 2023

Abstract
NLRP3 inflammasome, as the archetypical molecular driver of inflammatory response, plays crucial roles in host defense and the maintenance of cell homeostasis. The demethylation of trimethylation of lysine 9 at histone 3 (H3K9me3, the repressive mark for euchromatic genes) is a prerequisite for the transcription of most genes. However, whether H3K9 demethylation is required for the induction of proinflammatory cytokines remains unknown. Here, we show that histone demethylase lysine-specific demethylase 4B (KDM4B) mediates demethylation of H3K9me3 at the Nlrp3 promoter to induce NLRP3 expression. It therefore selectively enhances NLRP3 inflammasome activation without affecting NF-κB activation. Concordantly, Kdm4b deficiency and the selective KDM4 inhibitor ML324 both inhibit NLRP3 inflammasome activation and ameliorate NLRP3-dependent inflammatory diseases in vivo. Moreover, high glucose upregulates KDM4B to promote NLRP3 inflammasome activation and IL-1β secretion, and therefore aggravates viral infection-induced aberrant inflammation. Therefore, we determine the role of H3K9me3 demethylation in initiating inflammation, identify KDM4B as an epigenetic enhancer of NLRP3, and suggest modulating H3K9me3 might be an anti-inflammatory strategy with better selectivity.
Corticobasal syndrome presenting Foix-Chavany-Marie syndrome with suggested 4-repeat tauopathy by tau PET
Authors: Nakamura Kosei , Kuroha Yasuko , Hatakeyama Masahiro , Kimura Atsushi Michael , Nakamura Yukimi , Murakami Yoshihiro , Watanabe Masaki , Igarashi Hironaka , Takahashi Tetsuya , Shimada Hitoshi 
Published: July 2023

Abstract
Background: Corticobasal syndrome (CBS) is a neurodegenerative disease diagnosed based on clinical manifestations such as asymmetrical parkinsonism, limb apraxia, and speech and language impairment. Foix-Chavany-Marie syndrome (FCMS) is a rare neurological disorder characterized by bilateral impairment of voluntary movement in the facial, pharyngeal, lingual, and masticatory muscles, leading to apraxia of speech. FCMS is commonly attributable to stroke. Transactive response DNA binding protein of 43 kD (TDP-43) proteinopathy is also known as the pathological background of FCMS, while the pathological background of the majority of CBS cases are diverse tauopathies instead of TDP-43 proteinopathy. In this report, we describe a case of FCMS that finally received a diagnosis of CBS with suggested 4-repeat tauopathy.Case presentation: A 68-year-old female started experiencing difficulty speaking followed by difficulty writing, especially texting difficulty, several years before her visit. Her impairment had been gradually worsening, and she came to our hospital. On neurological examination, she demonstrated the facial apraxia, frontal lobe dysfunction, and upper motor neuron signs. Based on her clinical features, she was diagnosed with FCMS. Her symptoms exhibited rapid progression and myoclonus, parkinsonism, and left-side dominant cortical sensory deficit occurred, resulting in the fulfillment of diagnostic criteria for CBS after 9 months. Tau PET imaging displayed notable ligand uptake in the brainstem, subthalamic nuclei, basal ganglia, and bilateral subcortical frontal lobe, suggesting her pathological background was 4-repeat tauopathy. As a result of the progressive dysphagia, she became unable to eat and passed away at 12 months.Conclusion: We hereby present an atypical case of CBS presenting with rapidly progressive FCMS. TDP-43 proteinopathy was suspected based on the clinical symptoms in the early stages of the disease; however, tau PET suggested that her pathological background was 4-repeat tauopathy.
Current Spectral Norm and Phase Variation Based Fault Region Identification for Active Distribution Network
Authors: Chen Jie , Li Yong , Zeng Rong , Wang Caiqiang , Liang Caiyuan , Hou Liang , Zhao Long , Shahidehpour Mohammad 
Published: July 2023

Abstract

The paper presents a fault region identification method for the active distribution network (ADN) with limited PMU. First, PMU configuration and region partition are developed based on the network topology. Next, the difference in three-phase current variations between the normal and fault areas of the ADN is analyzed. A multi-dimensional state monitoring matrix is built using the measured current data. The spectral norm ratio coefficient is constructed based on the 2-norm to lower the complexity of the multi-dimensional state monitoring matrix and quantify the difference in state changes before and after the fault occurs in each region. Then, the fault region is identified by combining each region’s spectral norm ratio coefficient and the change of the current phase. Finally, an IEEE 33-node simulation model is created to simulate faults under different working conditions. According to the simulation results, the suggested approach is less impacted by fault type, neutral point grounding mode, and transition resistance. Furthermore, even if the communication does not match the rigorous synchronization requirements, the suggested technique can still complete the fault identification of the distribution network correctly and has high robustness.
From Platform to Knowledge Graph: Distributed Self-Driving Laboratories
Authors: Kraft Markus , Bai Jiaru , Mosbach Sebastian , Taylor Connor , Karan Dogancan , Lee Kok Foong , Rihm Simon , Akroyd Jethro , Lapkin Alexei 
Published: July 2023

Abstract
The ability to integrate resources and share knowledge across organisations empowers scientists to expedite the scientific discovery process. This is especially crucial in addressing emerging global challenges that require global solutions. In this work, we develop an architecture to enable distributed self-driving laboratories as part of The World Avatar project, which seeks to demonstrate how to create an all-encompassing digital twin based on a dynamic knowledge graph. Our approach utilises ontologies to capture the data and material flows involved in design-make-test-analyse cycles, and employs autonomous agents as executable knowledge components to carry out the experimentation workflow. All data provenance is recorded following the FAIR principles, ensuring its accessibility and interoperability. We demonstrate the practical application of our framework by linking two robots in Cambridge and Singapore to achieve a collaborative closed-loop optimisation for a pharmaceutically-relevant aldol condensation reaction in real time. The knowledge graph evolves autonomously while progressing towards the research goals set by the scientist. The two robots effectively produced a Pareto front for the cost-yield optimisation problem over the course of three days of operation.
Low profile posterior lumbar-sacral interbody fusion for lumbosacral degenerative diseases: A technical note
Authors: Cheng Fengqi , Ding Zihao , Pan Aixing , Liu Yuzeng , Hai Yong 
Published: July 2023

Abstract
Background: The purpose of this study was to report our surgical experience in patients with lumbosacral degenerative diseases who underwent low-profile posterior lumbosacral interbody fusion (LP-PLSIF) and analyze surgery-related indicators and postoperative outcomes.
Methods: This study included nine patients with lumbosacral degenerative diseases who underwent LP-PLSIF between March 2021 and March 2022. Perioperative clinical presentations, operative variables, and perioperative complications were recorded.
Results: Complete and authentic clinical data, including satisfactory surgical efficacy, short hospitalization time, and low estimated blood loss were obtained. The condition and muscle strength along with preoperative neurological deficits improved in all the patients, and no postoperative neurological complications occurred. The mean operation time was 156 min (range, 120–220 min), and the average wound length was 5.9 cm (range, 5–9 cm). There were no postoperative complications, such as nerve root compression, dural tears, or wound infection. All patients showed an improvement of approximately four points on the visual analog scale after surgery. The mean Oswestry Disability Index after 6-month follow-up (19.7%) was significantly lower than that at the preoperative follow-up (62.8%). In addition, the mean Japanese Orthopedic Association score was 12.4 before surgery and improved to 22.7 after surgery.
Conclusions: LP-PLSIF may be effective in protecting the soft tissue, paravertebral muscle, and superior facet joint along with maintaining stress balance in the lumbosacral region. In conclusion, LP-PLSIF was efficient in enhancing the fusion rates and eventually provided a minimally invasive, effective, and safe spinal fusion surgery for patients with osteoporosis.
Single-cell transcriptome and TCR profiling revealed the immunosuppression caused by Macrophages and T cells in the chemoresistant oral tongue squamous cell carcinoma
Authors: Song Dandan , Sun Yang , Wu Xingwen , Zhou Qianrong , Bi Wei , Sun Jian , Yang Fei , Yu Youcheng 
Published: July 2023

Abstract
Background
After surgical treatment, chemotherapy is one of the most common strategies for advanced oral squamous cell carcinoma (OSCC). The majority of patients, especially those with advanced OSCC of the tongue, are refractory to chemotherapy or have acquired resistance, and the underlying mechanism remains unknown.
Methods
The transcriptomes of 62,375 single cells from 15 samples (14 primary OTSCC (PT, n = 13), recurrent OTSCC (RT, n = 1), and normal tongue tissue (NT, n = 1) were analyzed. The recurrent OTSCC tissue was obtained from the patient who has received a combination of chemotherapeutic drugs for the past four years since the initial surgery in 2018. Additionally, TCR sequencing was undertaken on three samples (RT, PT, and NT; n = 1 each). The composition, purpose, and lineage relationship of macrophage and T lymphocytes within three different groups were then determined using an integrative analysis.
Results
We observed a greater infiltration of immune cells in recurrent OTSCC than in primary OTSCC, as indicated by the accumulation of dysfunctional cytotoxic CD8 + T cells and macrophages. As indicated by the distinct distribution and functions of C1Qs + and SPP1 + tumor-associated macrophages, respectively, macrophages in PT exhibited pro-tumor and anti-inflammatory effects, whereas macrophages in RT showed greater non-polarization. In addition, we identified a substantial population of CD8 + T cells in RT patients that exhibited a continuous transition from regulatory to cytotoxic T cells. In addition, we identified two clusters of substantially increased cytotoxic CD8 + T cells and regulatory CD4 + T cells in RT patients. The interaction between macrophages and T cells was evaluated lastly. We found that SPP1 and MIF may be responsible for immunosuppression in the microenvironment of OTSCC tumors following long-term chemotherapy.
Conclusion
Long-term chemotherapy induced distinct OTSCC tumor microenvironment transcriptomes, particularly immunosuppression in recurrent tumors, which may correlate with tumor chemoresistance.
Rapid detection of Human T-cell leukemia virus-1 in blood donors by a real time loop-mediated isothermal amplification assay
Authors: wang ziqiang , Lin Huiyan , Pu Fei , Wu Yonglun , Li Qiao , Ge Feng , Ou Hengyi , Liao Tingyan , Peng Rui , Cai Zhicheng 
Published: July 2023

Abstract
It is essential to detect Human T-cell Leukemia Virus-1 (HTLV-1) accurately and quickly in order to develop prevention strategies to reduce its transmission rates. However, the development of HTLV-1 testing in blood centers (stations) laboratories faces two challenges, including expensive reagents and labor-intensive processes .Thus, for the first time, a rapid real time loop-mediated isothermal amplification (RT-LAMP) was operated to detect HTLV-1 in blood donors. Methods: As a first step, we combined the hybridization of fluorescent dye with the powerful amplification of LAMP to detect the presence of HTLV-1 plasmids containing PX gene. After that, we validated the method by performing gene test verification on blood samples and attempted to achieve one-step DNA extraction. The method was finally applied to the testing of blood donors for the presence of the HTLV-1 virus. Results: It was successful to construct an RT-LAMP to detect HTLV-1, and the level of sensitivity was as low as 34 copies of the DNA from an HTLV-1-infected blood sample, which is sufficient for a primary blood screening. It was possible to achieve high specificity in detecting HTLV-1 virus in blood donor. With simply processed blood samples, it has shown good performance in helping establish negative donor pools in areas with high rates of HTLV-1. Conclusion: With the above method, crudely treated blood samples can be detected in one step, are fluorescent, specific and sensitive, showing great potential for use in hematology and POCT.
The relationship between vitamin D nutritional status and ultrasound classifications of thyroid nodules in young and middle-aged euthyroid male petroleum workers
Authors: Wang Deping , Luo Dongdong , Leng Song , Gao Bingrui , Hu Jialin , Zhang Chenxi , Chen Zhaoying , Li Bojuan , Shan Zhongyan , Teng Weiping , Li Jing 
Published: July 2023

Abstract
Background
Previous studies on the relationship between Thyroid Nodules(TNs) and Vitamin D (VD) have produced conflicting results. These discrepancies may be attributed to variations in the study populations, different methods of VD measurement, unclear thyroid function status, and the potential confounding effects of VD2 and VD3. This study was aimed to analyze the relationship between VD2 and VD3 nutritional status and the occurrence risk of TNs in young and middle-aged euthyroid male (YMAEM) petroleum workers without thyroid autoimmunity (TAI).
Methods
The health check-up database of 2037 YMAEM petroleum workers between the ages of 30 and 60 without TAI was retrospectively analyzed. Serum 25-hydroxy vitamin D [25(OH)VD], 25(OH)VD3 and 25(OH)VD2 levels were assayed by liquid chromatography-tandem mass spectrometry (LC-MS/MS). The participants were classified into different groups according to their ultrasound images of TNs based on Chinese-Thyroid Imaging Reporting and Data System (C-TRIADS). C-TRIADS consist of 6 grades, and the upper three indicate TNs with potential malignancy.
Results
No C-TRIADS 5 or 6 nodules were found in these participants. The serum 25(OH)VD level in the C-TIRADS 4 TN group was significantly lower than that in the C-TIRADS 1, C-TIRADS 2, and C-TIRADS 3 groups. The overall prevalence of TNs was similar among the VD-deficient, insufficient, and sufficient groups. However, the prevalence of patients with C-TIRADS 4 TNs was markedly higher in the VD-deficient group (18.5%) than in the insufficient (5.5%, P.adj < .05) and sufficient groups (4.1%, P.adj < .05). Identical findings were observed among the groups with low, medium, and high serum 25(OH)VD3 levels, but not among those with different serum 25(OH)VD2 levels. A binary logistic regression analysis indicated that, compared to the VD-sufficiency group, the VD-deficiency group [OR = 5.02 (95% CI: 3.08–8.17; P < .001)] significantly increased the risk of developing C-TIRADS 4 TNs.
Conclusions
VD deficiency [25(OH)VD < 20.00 ng/mL] was an independent risk factor for the development of TNs with malignant ultrasound characteristics in YMAEM petroleum workers without TAI. Low levels of VD3, rather than VD2, may increase the prevalence of C-TIRADS 4 TNs in YMAEM petroleum workers.
Factors associated with high HIV infection among adolescents and young adults in Mozambique: Sub-Analysis of Immunization, Malaria and HIV/AIDS Indicators Survey in Mozambique-IMASIDA 2015
Authors: Chicanequisso Eduardo Mangue , Sabonete Acácio , Sacarlal Jahit , Rossetto Erika Valeska , Baltazar Cynthia Sema 
Published: July 2023

Abstract
Background
HIV infection is of concern, especially in Eastern and Southern Africa, which contains 54.5% of the total number of people living with HIV (PLHIV) in the world. In Southern Africa, Mozambique ranks second, with about 2.2 million PLHIV. Adolescents and youth not only have a high prevalence, but also represent priority groups due to their high vulnerability to HIV. We set out to assess factors associated with HIV infection among adolescents and young adults which are priority groups for HIV prevention, due to their increased vulnerability to infection.
Methods
The 2015 Immunization, Malaria and HIV/AIDS Indicators Survey in Mozambique was used to identify factors associated with HIV infection among 4,247 adolescents and young adult participants aged 15–24 years. In bivariate analyses, these variables were included in multiple logistic regression models that were run separately for men and women. Modeled adjusted odds ratios (AOR) with 95% confidence intervals (CI) were reported for variables independently associated with HIV infection.
Results
In 2015, 295/4,247 (6.9%) of adolescents and young adults were HIV-positive (females, 237/2,427 [9.8%]). Factors associated with HIV-infection in males was being a widower (AOR = 52.69, 95%CI: 2.07-1340.33, p = 0.02). To live in Niassa and Sofala is protective factor. In females were being aged 20–24 years (AOR = 2.06, 95%CI: 1.41-3.00, p < 0.001), being a widow (AOR = 15.59, 95%CI: 3.99–60.77, p < 0.001) or separated (OR = 2.11, 95%CI: 1.09–4.08, p = 0.03), age of first cohabitation below 18 years (AOR = 1.71, 95%1.14–2.59, p = 0.01), residing in Zambézia (AOR = 3.52, 95%CI:1.06–11.65, p = 0.04) and being richer (AOR = 2.20, 95%CI: 1.11–4.36, p = 0.02). Having studied at a higher school is a protective factor (AOR = 0.07, 95%CI:0.01–0.58, p = 0.02).
Conclusion and recommendations:
The factors associated with HIV in women are biological and sociocultural. Strategies tailored to girls and young women with the aim of reducing gender inequalities, combating harmful traditional practices and increasing educational opportunities are needed.
Full-Spectrum Neuronal Diversity and Stereotypy through Whole Brain Morphometry
Authors: Peng Hanchuan , Liu Yufeng , Jiang Shengdian , Li Yingxin , Zhao Sujun , Yun Zhixi , Zhao Zuo-Han , Zhang Lingli , Wang Gaoyu , Chen Xin , Manubens-Gil Linus , Hang Yuning , Garcia-forn Marta , Wang Wei , De Rubeis Silvia , Wu Zhuhao , Osten Pavel , Gong Hui , Hawrylycz Michael , Mitra Partha , Dong Hong-Wei , Luo Qingming , Ascoli Giorgio , Zeng Hongkui , Liu Lijuan 
Published: July 2023

Abstract

We conducted a large-scale study of whole-brain morphometry, analyzing 3.7 peta-voxels of mouse brain images at the single-cell resolution, producing one of the largest multi-morphometry databases of mammalian brains to date. We spatially registered 205 mouse brains and associated data from six Brain Initiative Cell Census Network (BICCN) data sources covering three major imaging modalities from five collaborative projects to the Allen Common Coordinate Framework (CCF) atlas, annotated 3D locations of cell bodies of 227,581 neurons, modeled 15,441 dendritic microenvironments, characterized the full morphology of 1,891 neurons along with their axonal motifs, and detected 2.58 million putative synaptic boutons. Our analysis covers six levels of information related to neuronal populations, dendritic microenvironments, single-cell full morphology, sub-neuronal dendritic and axonal arborization, axonal boutons, and structural motifs, along with a quantitative characterization of the diversity and stereotypy of patterns at each level. We identified 16 modules consisting of highly intercorrelated brain regions in 13 functional brain areas corresponding to 314 anatomical regions in CCF. Our analysis revealed the dendritic microenvironment as a powerful method for delineating brain regions of cell types and potential subtypes. We also found that full neuronal morphologies can be categorized into four distinct classes based on spatially tuned morphological features, with substantial cross-areal diversity in apical dendrites, basal dendrites, and axonal arbors, along with quantified stereotypy within cortical, thalamic and striatal regions. The lamination of somas was found to be more effective in differentiating neuron arbors within the cortex. Further analysis of diverging and converging projections of individual neurons in 25 regions throughout the brain reveals branching preferences in the brain-wide and local distributions of axonal boutons. Overall, our study provides a comprehensive description of key anatomical structures of neurons and their types, covering a wide range of scales and features, and contributes to our understanding of neuronal diversity and its function in the mammalian brain.
Database-aided UHPLC-Q-orbitrap MS/MS Strategy Putatively Identifies 52 Compounds from Wushicha Granule to Propose Anti-counterfeiting Quality-markers for Pharmacopoeia
Authors: Li Xican , Chen Shaoman , Zeng Jingyuan , Cai Rongxin , Liang Yilan , Chen Chuanbin , Chen Ban , Li Chunhou 
Published: July 2023

Abstract
Wushicha Granule, an over-the-counter-drug (OTC) prescription, consists of 19 traditional Chinese herbals medicines (CHMs), such as Chaihu, Hongcha, Chuanxiong, Houpo, and Gancao. The five however have not been effectively characterized by the quality-markers (Q-markers) system in current Pharmacopoeia. The study therefore established a novel database-aided ultra-high performance liquid chromatography-quadrupole-orbitrap mass spectrometry (UHPLC-Q-orbitrap MS/MS) strategy. The strategy has putatively identified 52 compounds from Wushicha Granule, mainly including flavonoids, saponins, alkaloid, lignins, and lactones. Especially, saponin “glycyrrhetinic acid” in the Granule was specifically identified as 18β-configuration (rather than 18α-configuration). Meanwhile, two pairs of isomers were fully discriminated, including vitexin vs isovitexin and daidzein vs 7,4'-dihydroxyflavone. 8β-Glycyrrhetinic acid, together with saponin saikosaponin A, alkaloid caffeine, lactone S-senkyunolide A, and lignin magnolol, were further studied using quantum chemical calculation, UV-vis spectra, and anti-counterfeiting validation experiment. In the validation experiment, they have successfully recognized 6 counterfeit Wushicha Granules, by means of a LC-MS equipped extraction software. Based on these results, 8β-glycyrrhetinic acid is recommended to replace the old Q-marker “glycyrrhetinic acid”; while saikosaponin A, caffeine, S-senkyunolide A, and magnolol are recommended as new Q-markers. These recommendations can not only recognize the counterfeits regarding Chaihu, Hongcha, Chuanxiong, Houpo, and Gancao, but also prevent the possible safety-incident. All these will greatly improve the efficiency and specificity of current Pharmacopoeia.