bluuebunny/crossref_metadata_2025_split huggingface dataset:
CircSNX6 promotes proliferation, metastasis, and angiogenesis in hepatocellular carcinoma via miR-383-5p/VEGFA signaling pathway
Authors: Tian Yuan , Han Wenwen , Lv Kaiji , Fu Long , Zhou Xinhua 
Published: April 2024

AbstractThe role of circular RNA (circRNAs) in hepatocellular carcinoma (HCC) has been extensively studied. Previous research has highlighted the regulatory role of circSNX6 in HCC cells and tissues. However, the precise mechanism underlying HCC progression still requires comprehensive investigation. The study initially utilized quantitative reverse transcription-polymerase chain reaction (qRT-PCR) to assess circSNX6 expression levels in HCC cell lines and tissues. Subsequently, the stability of circRNA was evaluated through Ribonuclease R and actinomycin D treatment assays. The impact of circSNX6 knockdown on proliferation, migration, invasion, and angiogenesis abilities was determined using various assays including colony formation, Transwell culture system, tube formation assay, and cell counting kit (CCK)-8 assays. Additionally, RNA immunoprecipitation chip and dual-luciferase reporter assays were employed to investigate the interactions between circSNX6 and miR-383-5p. Finally, an HCC xenograft tumor model in mice was established to assess the in vivo expression of circSNX6 and its functional role in HCC. Our findings revealed an elevated circSNX6 expression in HCC tissues, which was correlated with poor patient prognosis. Knockdown of circSNX6 suppressed HCC cell growth, invasion, metastasis, and angiogenesis. The downregulation of miR-383-5p, a target of circSNX6, significantly attenuated the tumor-suppressive effects induced by circSNX6 knockdown. Moreover, circSNX6 was found to modulate VEGFA expression by targeting miR-383-5p. The inhibition of HCC cell proliferation by miR-383-5p could be partially reversed by overexpressing VEGFA. Silencing circSNX6 also suppressed tumor formation and the metastasis of HCC cells in a mouse model. In summary, our findings suggest that circSNX6 promotes cell proliferation, metastasis, and angiogenesis in HCC by regulating the miR-383-5p/VEGFA pathway.
Effect of an exercise-based cardiac rehabilitation program on quality of life of patients with chronic Chagas cardiomyopathy: results from the PEACH randomized clinical trial
Authors: Vieira Marcelo Carvalho , Mendes Fernanda de Souza Nogueira Sardinha , da Silva Paula Simplício , da Silva Gilberto Marcelo Sperandio , Mazzoli-Rocha Flavia , de Sousa Andrea Silvestre , Saraiva Roberto Magalhães , de Holanda Marcelo Teixeira , Kasal Daniel Arthur Barata , Costa Henrique Silveira , Borges Juliana Pereira , Reis Michel Silva , Rodrigues Junior Luiz Fernando , Hasslocher-Moreno Alejandro Marcel , do Brasil Pedro Emmanuel Alvarenga Americano , Mediano Mauro Felippe Felix 
Published: April 2024

AbstractTo investigate the effect of an exercise-based cardiac rehabilitation program on the quality of life (QoL) of patients with chronic Chagas cardiomyopathy (CCC). PEACH study was a single-center, superiority randomized clinical trial of exercise training versus no exercise (control). The sample comprised Chagas disease patients with CCC, left ventricular ejection fraction < 45%, without or with HF symptoms (CCC stages B2 or C, respectively). QoL was assessed at baseline, after three months, and at the end of six months of follow-up using the SF-36 questionnaire. Patients randomized for the exercise group (n = 15) performed exercise training (aerobic, strength and stretching exercises) for 60 min, three times a week, during six months. Patients in the control group (n = 15) were not provided with a formal exercise prescription. Both groups received identical nutritional and pharmaceutical counseling during the study. Longitudinal analysis of the effects of exercise training on QoL, considering the interaction term (group × time) to estimate the rate of changes between groups in the outcomes (represented as beta coefficient), was performed using linear mixed models. Models were fitted adjusting for each respective baseline QoL value. There were significant improvements in physical functioning (β =  + 10.7; p = 0.02), role limitations due to physical problems (β =  + 25.0; p = 0.01), and social functioning (β =  + 19.2; p < 0.01) scales during the first three months in the exercise compared to the control group. No significant differences were observed between groups after six months. Exercise-based cardiac rehabilitation provided short-term improvements in the physical and mental aspects of QoL of patients with CCC.Trial registration: ClinicalTrials.gov Identifier: NCT02517632; August 7, 2015.
Mapping the race between crop phenology and climate risks for wheat in France under climate change
Authors: Le Roux Renan , Furusho-Percot Carina , Deswarte Jean-Charles , Bancal Marie-Odile , Chenu Karine , de Noblet-Ducoudré Nathalie , de Cortázar-Atauri Iñaki García , Durand Alexis , Bulut Burak , Maury Olivier , Décome Jérémie , Launay Marie 
Published: April 2024

AbstractClimate change threatens food security by affecting the productivity of major cereal crops. To date, agroclimatic risk projections through indicators have focused on expected hazards exposure during the crop’s current vulnerable seasons, without considering the non-stationarity of their phenology under evolving climatic conditions. We propose a new method for spatially classifying agroclimatic risks for wheat, combining high-resolution climatic data with a wheat’s phenological model. The method is implemented for French wheat involving three GCM-RCM model pairs and two emission scenarios. We found that the precocity of phenological stages allows wheat to avoid periods of water deficit in the near future. Nevertheless, in the coming decades the emergence of heat stress and increasing water deficit will deteriorate wheat cultivation over the French territory. Projections show the appearance of combined risks of heat and water deficit up to 4 years per decade under the RCP 8.5 scenario. The proposed method provides a deep level of information that enables regional adaptation strategies: the nature of the risk, its temporal and spatial occurrence, and its potential combination with other risks. It’s a first step towards identifying potential sites for breeding crop varieties to increase the resilience of agricultural systems.
Succession of medico-legal important flesh flies (Diptera: Sarcophagidae) in the temporal gradient of pig decomposition in the Brazilian Cerrado
Authors: de Almeida Silva José Orlando , da Silva Carvalho-Filho Fernando , Brasil Leandro Schlemmer 
Published: April 2024

AbstractFlies belonging to the Sarcophagidae family play a significant role in forensic investigations by aiding in the estimation of post-mortem interval through the assessment of the developmental time of their immature stages and/or the succession patterns of species on carcasses and cadavers. In this regard, this study aimed to investigate the ecological succession of these flies on pig carcasses within Cerrado of Brazil. The progression of fly succession was examined over a 10-day period using the Threshold Indicator Taxa Analysis (TITAN) approach. Six Z + species (Oxysarcodexia thornax (Walker), Peckia (Sarcodexia) lambens (Wiedemann), Peckia (Euboettcheria) collusor (Curran & Walley), Ravinia belforti (Prado & Fonseca), Tricharaea (Sarcophagula) canuta (Wulp) and Tricharaea (Sarcophagula) occidua (Fabricius)) were identified, with change points ranging from 2.5 to 3 days during the dry season and 2.5 to 5.5 days during the rainy season. Two Z−  species (Dexosarcophaga carvalhoi (Lopes) and Peckia (Sarcodexia) tridentata (Hall)) were present, with a change point of 6.5 days during the rainy season. This study provides a continuous analysis of the temporal succession of flies, enabling an investigation into species progression based on their change points and directions (Z + and Z− ), thereby offering methodological advancements to avoid the arbitrary categorization of inherently continuous data.
A solar cycle clock for extreme space weather
Authors: Chapman S. C. , Dudok de Wit T. 
Published: April 2024

AbstractThe variable solar cycle of activity is a long-standing problem in physics. It modulates the overall level of space weather activity at earth, which in turn can have significant societal impact. The Hilbert transform of the sunspot number is used to map the variable length, approximately 11 year Schwabe cycle onto a uniform clock. The clock is used to correlate extreme space weather seen in the aa index, the longest continuous geomagnetic record at earth, with the record of solar active region areas and latitudes since 1874. This shows that a clear switch-off of the most extreme space weather events occurs when $$>90$$

>
90

% of solar active region areas have moved to within about 15° of the solar equator, from regions of high gradient in solar differential rotation which can power coronal mass ejections, to a region where solar differential rotation is almost constant with latitude. More moderate space weather events which coincide with 27 day solar rotation recurrences in the aa index, consistent with stable, persistent source regions of high speed streams, commence when the centroid of solar active region areas moves to within 15° of the solar equator. This offers a physical explanation for the longstanding identification of a two component cycle of activity in the aa index.
Tubulin alpha-1b chain was identified as a prognosis and immune biomarker in pan-cancer combing with experimental validation in breast cancer
Authors: Wang Yiyang , Li Yongxiang , Jing Yubo , Yang Yuqi , Wang Haiyan , Ismtula Dilimulati , Guo Chenming 
Published: April 2024

AbstractThe α-tubulin subtype, Tubulin α-1b chain (TUBA1B), has been shown to influence immune cell infiltration, cancer growth, and survival across various malignancies. However, a comprehensive study has not yet been undertaken examining the immunological and predictive effects of TUBA1B in a pan-carcinoma context. Using data from TCGA, GEO, and other databases, we analyzed TUBA1B expression across various carcinoma types using transcriptional profiling, prognostic implications, genetic and epigenetic alterations, methylation patterns, and immunological significance. To validate our findings, we conducted Western blot analysis to assess TUBA1B protein levels in matched breast cancer tissue samples and performed CCK-8 proliferation assay, flow cytometry, transwell invasion, and migration assays to comprehensively examine the functional impact of TUBA1B on breast cancer cells. Our pan-cancer analysis found TUBA1B upregulation across most tumor types, with varying expression patterns in distinct immune and molecular subtypes. High TUBA1B expression was an independent risk factor and associated with poor prognoses in several cancers, including BRCA, KICH, LGG, LUAD, and MESO. TUBA1B also demonstrates moderate to high diagnostic accuracy in most tumor types. Increased m6A methylation levels were observed in the TUBA1B gene, while its promoter region displayed low methylation levels. TUBA1B's expression impacted some cancers by elevating tumor mutation burden, microsatellite instability, neoantigen formation, immune cell infiltration, and the modulation of immune checkpoints. Functional enrichment analysis highlights TUBA1B’s involvement in important cellular processes such as the cell cycle, p53 signaling, cell senescence, programmed cell death, and the regulation of immune-related pathways. Moreover, our study reveals higher TUBA1B protein expression in breast cancer tissues compared to adjacent tissues. In vitro experiments confirm that TUBA1B deletion reduces breast cancer cell proliferation, invasion, and migration while increasing apoptosis. In conclusion, our study suggests that TUBA1B could potentially serve as a diagnostic marker for predicting cancer immunological profiles and survival outcomes and shed light on the expression and role of TUBA1B in breast cancer, providing a solid foundation for considering it as a promising therapeutic target for breast cancer patient treatment.
Predicting the effect of chemicals on fruit using graph neural networks
Authors: Han Junming , Li Tong , He Yun , Yang Ziyi 
Published: April 2024

AbstractThe neural network method is a type of machine learning that has made significant advances over the past few years in a variety of fields, particularly text, speech, images, videos, etc. In areas where data is unstructured, traditional machine learning has not been able to surpass the ’glass ceiling’; therefore, researchers have turned to neural networks as auxiliary tools to achieve significant breakthroughs or develop new research methods. An array of computational chemistry challenges can be addressed using neural networks, including virtual screening, quantitative structure-activity relationships, protein structure prediction, materials design, quantum chemistry, and property prediction, among others. This paper proposes a strategy for predicting the chemical properties of fruits by using graph neural networks, and it aims to provide some guidance to researchers and streamline the identification process.
Selective impact of ALK and MELK inhibition on ERα stability and cell proliferation in cell lines representing distinct molecular phenotypes of breast cancer
Authors: Bartoloni Stefania , Pescatori Sara , Bianchi Fabrizio , Cipolletti Manuela , Acconcia Filippo 
Published: April 2024

AbstractBreast cancer (BC) is a leading cause of global cancer-related mortality in women, necessitating accurate tumor classification for timely intervention. Molecular and histological factors, including PAM50 classification, estrogen receptor α (ERα), breast cancer type 1 susceptibility protein (BRCA1), progesterone receptor (PR), and HER2 expression, contribute to intricate BC subtyping. In this work, through a combination of bioinformatic and wet lab screenings, followed by classical signal transduction and cell proliferation methods, and employing multiple BC cell lines, we identified enhanced sensitivity of ERα-positive BC cell lines to ALK and MELK inhibitors, inducing ERα degradation and diminishing proliferation in specific BC subtypes. MELK inhibition attenuated ERα transcriptional activity, impeding E2-induced gene expression, and hampering proliferation in MCF-7 cells. Synergies between MELK inhibition with 4OH-tamoxifen (Tam) and ALK inhibition with HER2 inhibitors revealed potential therapeutic avenues for ERα-positive/PR-positive/HER2-negative and ERα-positive/PR-negative/HER2-positive tumors, respectively. Our findings propose MELK as a promising target for ERα-positive/PR-positive/HER2-negative BC and highlight ALK as a potential focus for ERα-positive/PR-negative/HER2-positive BC. The synergistic anti-proliferative effects of MELK with Tam and ALK with HER2 inhibitors underscore kinase inhibitors’ potential for selective treatment in diverse BC subtypes, paving the way for personalized and effective therapeutic strategies in BC management.
Machine learning-based detection of acute psychosocial stress from body posture and movements
Authors: Richer Robert , Koch Veronika , Abel Luca , Hauck Felicitas , Kurz Miriam , Ringgold Veronika , Müller Victoria , Küderle Arne , Schindler-Gmelch Lena , Eskofier Bjoern M. , Rohleder Nicolas 
Published: April 2024

AbstractInvestigating acute stress responses is crucial to understanding the underlying mechanisms of stress. Current stress assessment methods include self-reports that can be biased and biomarkers that are often based on complex laboratory procedures. A promising additional modality for stress assessment might be the observation of body movements, which are affected by negative emotions and threatening situations. In this paper, we investigated the relationship between acute psychosocial stress induction and body posture and movements. We collected motion data from N = 59 individuals over two studies (Pilot Study: N = 20, Main Study: N = 39) using inertial measurement unit (IMU)-based motion capture suits. In both studies, individuals underwent the Trier Social Stress Test (TSST) and a stress-free control condition (friendly-TSST; f-TSST) in randomized order. Our results show that acute stress induction leads to a reproducible freezing behavior, characterized by less overall motion as well as more and longer periods of no movement. Based on these data, we trained machine learning pipelines to detect acute stress solely from movement information, achieving an accuracy of $${75.0 \pm 17.7}{\%}$$

75.0
±
17.7

%

(Pilot Study) and $${73.4 \pm 7.7}{\%}$$

73.4
±
7.7

%

(Main Study). This, for the first time, suggests that body posture and movements can be used to detect whether individuals are exposed to acute psychosocial stress. While more studies are needed to further validate our approach, we are convinced that motion information can be a valuable extension to the existing biomarkers and can help to obtain a more holistic picture of the human stress response. Our work is the first to systematically explore the use of full-body body posture and movement to gain novel insights into the human stress response and its effects on the body and mind.
Bacteriophages from human skin infecting coagulase-negative Staphylococcus: diversity, novelty and host resistance
Authors: Alsaadi Samah E. , Lu Hanshuo , Zhang Minxing , Dykes Gregory F. , Allison Heather E. , Horsburgh Malcolm J. 
Published: April 2024

AbstractThe human skin microbiome comprises diverse populations that differ temporally between body sites and individuals. The virome is a less studied component of the skin microbiome and the study of bacteriophages is required to increase knowledge of the modulation and stability of bacterial communities. Staphylococcus species are among the most abundant colonisers of skin and are associated with both health and disease yet the bacteriophages infecting the most abundant species on skin are less well studied. Here, we report the isolation and genome sequencing of 40 bacteriophages from human skin swabs that infect coagulase-negative Staphylococcus (CoNS) species, which extends our knowledge of phage diversity. Six genetic clusters of phages were identified with two clusters representing novel phages, one of which we characterise and name Alsa phage. We identified that Alsa phages have a greater ability to infect the species S. hominis that was otherwise infected less than other CoNS species by the isolated phages, indicating an undescribed barrier to phage infection that could be in part due to numerous restriction-modification systems. The extended diversity of Staphylococcus phages here enables further research to define their contribution to skin microbiome research and the mechanisms that limit phage infection.
Application of a hydrophobic coating to a pressurized pipe and its effect on energy losses and fluid flow profile
Authors: Muñóz Antonio J. , Reca Juan , Martínez Juan 
Published: April 2024

AbstractThe use of additives, generally called DRAs (Drag Reducing Additives), has been proposed to re-duce the energy consumption in pressurized pipes. Although many research works have been conducted to analyze the effect of these additives, less attention have been devoted to the application of coatings to the pipe wall. This paper demonstrates that the application of a hydrophobic coating to the pipe can lead to a head loss reduction for a transition flow regime with moderate Reynolds number values (Re). For this purpose, an experiment was conducted to compare the performance of both coated and uncoated pipes by measuring the head losses and assessing the Drag Reduction Percentage (%DR) and the pipe friction factor (f). This was done for two Polyvinylchloride (PVC) pipes with different nominal diameters (PVC90 and PVC63). In addition, the flow velocity distribution was also measured in all these tests. The %DR decreased as the Re values increased, with the reduction being notably less pronounced for higher Re values. This could be explained by the fact that a partial slip condition is induced by the hydrophobic product. Its effect is significant for a transition regime where the effect of viscosity is important, but it becomes negligible for increasing levels of turbulence. No significant differences were observed in the flow distribution between coated and uncoated pipes, which seems to indicate that the velocity change could be limited to the near-wall viscous sublayer. The results of this work open an important research line aimed at reducing energy costs and the carbon footprint in pipe fluid distribution systems.
Targeting TRIP13 in favorable histology Wilms tumor with nuclear export inhibitors synergizes with doxorubicin
Authors: Mittal Karuna , Cooper Garrett W. , Lee Benjamin P. , Su Yongdong , Skinner Katie T. , Shim Jenny , Jonus Hunter C. , Kim Won Jun , Doshi Mihir , Almanza Diego , Kynnap Bryan D. , Christie Amanda L. , Yang Xiaoping , Cowley Glenn S. , Leeper Brittaney A. , Morton Christopher L. , Dwivedi Bhakti , Lawrence Taylor , Rupji Manali , Keskula Paula , Meyer Stephanie , Clinton Catherine M. , Bhasin Manoj , Crompton Brian D. , Tseng Yuen-Yi , Boehm Jesse S. , Ligon Keith L. , Root David E. , Murphy Andrew J. , Weinstock David M. , Gokhale Prafulla C. , Spangle Jennifer M. , Rivera Miguel N. , Mullen Elizabeth A. , Stegmaier Kimberly , Goldsmith Kelly C. , Hahn William C. , Hong Andrew L. 
Published: April 2024

AbstractWilms tumor (WT) is the most common renal malignancy of childhood. Despite improvements in the overall survival, relapse occurs in ~15% of patients with favorable histology WT (FHWT). Half of these patients will succumb to their disease. Identifying novel targeted therapies remains challenging in part due to the lack of faithful preclinical in vitro models. Here we establish twelve patient-derived WT cell lines and demonstrate that these models faithfully recapitulate WT biology using genomic and transcriptomic techniques. We then perform loss-of-function screens to identify the nuclear export gene, XPO1, as a vulnerability. We find that the FDA approved XPO1 inhibitor, KPT-330, suppresses TRIP13 expression, which is required for survival. We further identify synergy between KPT-330 and doxorubicin, a chemotherapy used in high-risk FHWT. Taken together, we identify XPO1 inhibition with KPT-330 as a potential therapeutic option to treat FHWTs and in combination with doxorubicin, leads to durable remissions in vivo.
Coulomb exchange as source of Kitaev and off-diagonal symmetric anisotropic couplings
Authors: Bhattacharyya Pritam , Petersen Thorben , Bogdanov Nikolay A. , Hozoi Liviu 
Published: April 2024

AbstractExchange underpins the magnetic properties of quantum matter. In its most basic form, it occurs through the interplay of Pauli’s exclusion principle and Coulomb repulsion, being referred to as Coulomb or direct exchange. Pauli’s exclusion principle combined with inter-atomic electron hopping additionally leads to kinetic exchange and superexchange. Here we disentangle the different exchange channels in anisotropic Kitaev–Heisenberg context. By quantum chemical computations, we show that anisotropic Coulomb exchange, completely neglected so far in the field, may be as large as (or even larger than) other contributions — kinetic exchange and superexchange. This opens new perspectives onto anisotropic exchange mechanisms and sets the proper conceptual framework for further research on tuning Kitaev–Heisenberg magnetism.