bluuebunny/crossref_metadata_2025_split huggingface dataset:
RNA-binding deficient TDP-43 drives cognitive decline in a mouse model of TDP-43 proteinopathy
Authors: Necarsulmer Julie , Simon Jeremy , Evangelista Baggio , Chen Youjun , Tian Xu , Nafees Sara , Gonzalez Ariana Marquez , Jiang Huijun , Wang Ping , Ajit Deepa , Nikolova Viktoriya , Harper Kathryn , Ezzell Jennifer , Lin Feng-Chang , Beltran Adriana , Moy Sheryl , Cohen Todd 
Published: September 2023

Abstract
TDP-43 proteinopathies including frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS) are neurodegenerative disorders characterized by aggregation and mislocalization of the nucleic-acid binding protein TDP-43 and subsequent neuronal dysfunction. Here, we developed endogenous models of sporadic TDP-43 proteinopathy based on the principle that disease-associated TDP-43 acetylation at lysine 145 (K145) alters TDP-43 conformation, impairs RNA-binding capacity, and induces downstream mis-regulation of target genes. Expression of acetylation-mimic TDP-43K145Q resulted in stress-induced nuclear TDP-43 foci and loss of TDP-43 function in primary mouse and human induced pluripotent stem cell (hiPSC)-derived cortical neurons. Mice harboring the TDP-43K145Q mutation recapitulated key hallmarks of FTLD, including progressive TDP-43 phosphorylation and insolubility, TDP-43 mis-localization, transcriptomic and splicing alterations, and cognitive dysfunction. Our study supports a model in which TDP-43 acetylation drives neuronal dysfunction and cognitive decline through aberrant splicing and transcription of critical genes that regulate synaptic plasticity and stress response signaling. The neurodegenerative cascade initiated by TDP-43 acetylation recapitulates many aspects of human FTLD and provides a new paradigm to further interrogate TDP-43 proteinopathies.
Confusion and contamination of 8.2 ka cold climate records caused by the Storegga tsunami in the Nordic Seas
Authors: Bondevik Stein , Risebrobakken Bjørg , Gibbons Steven , Rasmussen Tine , Løvholt Finn 
Published: September 2023

Abstract
Since the end of the last ice age, no cold snap rivals the one dated to 8200 years ago. Its oceanic response has been reconstructed in part from sediments in the Norwegian Sea and North Sea. Here we show that these sediments have been reworked by currents generated by the Storegga tsunami, dated to the coldest decades of the 8.2 ka event. From a new simulation of the Storegga tsunami we calculated the maximum flow velocity to be 2–5 m/s on the shelf offshore western Norway and in the shallower parts of the North Sea, and up to about 1 m/s down to a water depth of 1000 m. We re-investigated sediment core MD95-2011, from which a large and abrupt 8.2 ka cooling had been inferred, and found the cold-water foraminifera to be re-deposited and 11,000 years of age. Oxygen isotopes of the recycled foraminifera and the content of sand grains, thought to be dropped from ice bergs, might have led to an interpretation of a too large and dramatic climate cooling. Our simulations imply that large parts of the sea floor in the North Sea and Norwegian Sea might have been reworked by currents during the Storegga tsunami.
Systemic inflammatory regulators and risk of chronic periodontitis: A two-sample Mendelian randomization study
Authors: Wang Zheqin , Wang Shengnan , Zhang Jinming , Hu Min 
Published: September 2023

Abstract
Background
To investigate the bidirectional causal relationship between systemic inflammatory regulators and chronic periodontitis.
Methods
We conducted a bidirectional two-sample Mendelian randomization (MR) study of the relationship between systemic inflammatory modifiers and chronic periodontitis using inverse variance weighting, weighted median, and MR‒Egger regression. The GWAS data included information on 41 inflammatory regulators in 8293 individuals and chronic periodontitis in 456,348 individuals (950 cases and 455398 controls).
Results
Increased systemic granulocyte colony-stimulating factor (GCSF) levels were found to be a risk factor for chronic periodontitis (odds ratio = 1.564, 95% confidence interval = (1.137, 2.150), P = 0.006), and chronic periodontitis resulted in decreased systemic stem cell growth factor beta (SCGFb) levels (beta = − 0.11, 95% confidence interval = (− 0.18, − 0.04), P = 0.001).
Conclusions
Our results suggest a potential causal relationship between elevated GCSF levels and an increased risk of chronic periodontitis, as well as a possible causal relationship between an increased risk of chronic periodontitis and elevated SCGFb levels.
Inhibition of soluble epoxide hydrolase induces POTCs to enhance the dentin-pulp complex regeneration mediated by crosstalk between vascular endothelial cells and dental pulp stem cells
Authors: Kongling Wenyao , Li Juanjuan , Bai Yuwen , Xu Shaoyang , Zhang Lin , Chen Weixian , Gao Lu , Wang Fu 
Published: September 2023

Abstract
Background
Revascularization and restoration of normal pulp-dentin complex are important for tissue-engineered pulp regeneration. Recently, a unique periodontal tip-like endothelial cells subtype (POTCs) specialized to dentinogenesis was identified. We have confirmed that TPPU, a soluble epoxide hydrolase (sEH) inhibitor targeting EETs metabolism, promotes bone growth and regeneration by angiogenesis and osteogenesis coupling. We hypothesized that TPPU could also promote revascularization and induce POTCs to contribute to pulp-dentin complex regeneration. Here, we in vitro and in vivo characterized the potential effect of TPPU on the coupling of angiogenesis and odontogenesis and investigated the relevant mechanism, providing new ideas for pulp-dentin regeneration by targeting sEH.
Methods
In vitro, the effects of TPPU on the proliferation, migration, and angiogenesis of dental pulp stem cells (DPSCs), human umbilical vein endothelial cells (HUVECs) and cocultured DPSCs and HUVECs were detected using CCK8, wound healing, transwell, tube formation and RT-qPCR. In vivo, Matrigel plug assay was performed to outline the roles of TPPU in revascularization and survival of grafts. Then we characterized the VEGFR2 + POTCs around odontoblast layer in the molar of pups from C57BL/6 female mice gavaged with TPPU. Finally, the root segments with DPSCs mixed Matrigel were implanted subcutaneously in BALB/c nude mice treated with TPPU and the root grafts were isolated for histological staining.
Results
In vitro, TPPU significantly promoted the migration and tube formation capability of cocultured DPSCs and HUVECs. ALP and ARS staining and RT-qPCR showed that TPPU promoted the osteogenic and odontogenic differentiation of cultured cells, treatment with an anti-TGF-β blocking antibody abrogated this effect. Knockdown of HIF-1α in HUVECs significantly reversed the effect of TPPU on the expression of angiogenesis, osteogenesis and odontogenesis-related genes in cocultured cells. Matrigel plug assay showed that TPPU increased VEGF/VEGFR2-expressed cells in transplanted grafts. TPPU contributed to angiogenic-odontogenic coupling featured by increased VEGFR2 + POTCs and odontoblast maturation during early dentinogenesis in molar of newborn pups from C57BL/6 female mice gavaged with TPPU. TPPU induced more dental pulp-like tissue with more vessels and collagen fibers in transplanted root segment.
Conclusions
TPPU promotes revascularization of dental pulp regeneration by enhancing migration and angiogenesis of HUVECs, and improves odontogenic differentiation of DPSCs by TGF-β. TPPU boosts the angiogenic–odontogenic coupling by enhancing VEGFR2 + POTCs meditated odontoblast maturation partly via upregulating HIF-1α, which contributes to increasing pulp-dentin complex for tissue-engineered pulp regeneration.
Testing the effectiveness and acceptability of online supportive supervision for mental health practitioners in humanitarian settings: A study protocol for the Caring for Carers Project
Authors: Wells Ruth , Acarturk Ceren , Mozumder Muhammad Kamruzzaman , Kurt Gülşah , Klein Louis , Lekkeh Salah , Beetar Ammar , Jahan Sabiha , Almeamari Fatema , Faruk Omar , McGrath Michael , Alam Syeda Fatema , Alokoud Mustafa , Dewan Ranak , Vecih Ahmed El , El-Dardery Hafsa , Hadzi-Pavlovic Dusan , Hammadi Hanan , Hamoud Mounir Al Shekh , Hasan Tasdik , Joshi Rohina , Kothaa Sowmic , Lamia Fauzia Kabir Chowdhury , Mastrogiovanni Chiara , Najjar Hussam , Nemorin Shaun , Nicholson-Perry Kathryn , Prokrity Tahmina Sarker , Saidyousef Rania , Tawakol Mamoun , Uygun Ersin , Wong Scarlett , Zarate Ariel , Steel Zachary , Rosenbaum Simon 
Published: September 2023

Abstract
Background Local humanitarian workers in low and middle-income countries must often contend with potentially morally injurious situations, often with limited resources. This creates barriers to providing sustainable mental health and psychosocial support (MHPSS) to displaced individuals. Clinical supervision is an often neglected part of ensuring high-quality, sustainable care. The Caring for Carers (C4C) project aims to test the effectiveness and acceptability of online group-based supportive supervision on the well-being of MHPSS practitioners, as well as service-user-reported service satisfaction and quality when working with displaced communities in Türkiye, Syria, and Bangladesh. This protocol paper describes the aim, design, and methodology of the C4C project.Method A quasi-experimental, mixed-method, community-based participatory research study will be conducted to test the effectiveness of online group-based supportive clinical supervision provided to 50 Syrian and 50 Bangladeshi MHPSS practitioners working with Syrian and Rohingya displaced communities. Monthly data will be collected from the practitioners and their beneficiaries during the active control (six months) and supervision period (16 months over two terms). Outcomes are psychological distress (Kessler-6), burnout (the Copenhagen Burnout Inventory), compassion fatigue, compassion satisfaction, and secondary traumatic stress (Professional Quality of Life Scale), perceived injustice, clinical self-efficacy (Counseling Activity Self-Efficacy Scale), service satisfaction, and quality (Client Satisfaction Questionnaire and an 18-item measure developed in this project). A realist evaluation framework will be used to elucidate the contextual factors, mechanisms, and outcomes of the supervision intervention.Discussion There is a scarcity of evidence on the role of clinical supervision in improving the well-being of MHPSS practitioners and the quality of service they provide to displaced people. By combining qualitative and quantitative data collection, the C4C project will address the long-standing question of the effectiveness and acceptability of clinical supervision in humanitarian settings.
Assessment of Entrustable Professional Activities among Dutch Endocrine Supervisors
Authors: Laat J. M. , Horst-Schrivers A. N.A. van der , Appelman-Dijkstra N. M. , Bisschop P. H. , Dreijerink K. M.A. , Drent M. L. , de Klauw M. M. van , De Ranitz W. L. , Stades A. M.E. , Stikkelbroeck N. M.M.L. , Timmers H. J.L.M. , Cate O. ten 
Published: September 2023

Abstract
Objective
Entrustable Professional Activities (EPAs) are an important tool to support individualization of medical training in a competency-based setting and are increasingly implemented in the clinical speciality training for endocrinologist. This study aims to assess interrater agreement and factors that potentially impact EPA scores.
Design
A case-vignette study using standardized written cases
Methods
Case vignettes (n=6) on the topics thyroid disease, pituitary disease, adrenal disease, calcium and bone disorders, diabetes mellitus, and gonadal disorders were written by two endocrinologists and a medical education expert and assessed by endocrinologists experienced in the supervision of residents in training.
Primary outcome is the interrater agreement of entrustment decisions for endocrine EPAs among raters. Secondary outcomes included the dichotomous interrater agreement (entrusted vs. non-entrusted), and an exploration of factors that impact decision-making.
The study protocol was registered and approved by the Ethical Review Board of the Netherlands Association for Medical Education (NVMO-ERB # 2020.2.5).
Results
Nine endocrinologists from six different academic regions participated. Overall, the Fleiss Kappa for the EPA level was 0.11 (95% CI: 0.03-0.22) and for the entrustment decision 0.24 (95% CI 0.11-0.37). Of the five features that impacted the entrustment decision, capability was ranked as the most important by a majority of raters (56%- 67%) in every case.
Conclusions
There is a considerable discrepancy between the EPA levels assigned by different raters. These findings emphasize the need to base entrustment decisions on multiple observations, made by a team of supervisors and enriched with factors other than direct medical competence.
Optimization methods for the distortion of thin-walled box girders and investigation of distortion effects
Authors: Wang Zhaonan 
Published: September 2023

Abstract
To investigate the distortion process of thin-walled box girders, three commonly used methods based on energy variational calculus and static balance analysis are optimized. A generalized analytical formula for box-girder distortion research is derived, and a fourth-order distortion control differential equation is obtained. Typical numerical examples are used to verify and compare the three methods. The results show that the value of distortional warping normal stress calculated by the optimized methods is slightly different from the literature values and that the maximum error between methods does not exceed 5.39%. The calculation results of Method 2 and Method 3 are similar. The values of the geometric distortion characteristics calculated by the three methods are related to the cross-sectional form of the box girder and the distortion analysis process, and the calculated values are not unique. The absolute value of the peak normal stress of distortion on the top plate of a thin-walled box girder with a cantilever plate is smaller than that on the bottom plate. Under a concentrated distortion load, the distribution of the distortion deformation along the length of a simply supported box girder with only end diaphragm is not consistent, and there is reverse deformation near the beam end.
The shell proteome of the deep-sea barnacle Bathylasma hirsutum and the convergency in barnacle and molluscan shell proteins
Authors: Xu Yu-Tao , Taylor James , Liu Hao-Cheng , Dreyer Niklas , Cho Qian-Qian , Zhang Yu , Guo Shi-Feng , Brix Saskia , Wong Yue Him 
Published: September 2023

AbstractBackgroundAs a group of sessile crustaceans that were being misclassified as mollusks by Carl Linnaeus, barnacles produce calcareous shell plates which, in most species, are permanently attached to the substratum. As biomineralization has independently evolved in multiple marine invertebrate taxa, a key question is how biomineralization has driven the evolution of genetic toolkits underlying shell formation. Here, we explore the shell proteome of the deep-sea acorn barnacleBathylasma hirsutum(Hoek, 1883) using an integrated transcriptomic-proteomic approach and compare the properties of barnacle shell proteins with molluscan shell matrix proteins.ResultsWe identified 31B. hirsutumbarnacle shell proteins (BSPs), including a series of key biomineralization proteins, such as carbonic anhydrase and C-type lectin. More than half of barnacle specific shell proteins (BSSPs) exhibit unknown functions. The amino acid composition of these BSSPs were biased toward A, D, E, G, S, P and Q, and were acidic and hydrophilic. Almost all BSSPs were detected with repetitive low complexity domains. Similar to molluscan shell matrix proteins, RLCDs in D-, and E-rich BSSPs constituted up to 50% amino acid of the whole protein. RLCDs in Q-rich proteins also exhibited similarity to a Q-rich abalone shell matrix protein and an insect cuticle protein.ConclusionFrom theB. hirsutumshell proteome, certain proteins such as carbonic anhydrase, C-type lectin, and peroxidase were implicated in shell formation or protein cross-linking across sessile invertebrate taxa. Despite the lack of sequence homology, D- and Q-rich BSSPs share similar features with molluscan shell matrix proteins in sequence redundancy, amino acid bias and thereby protein isoelectric point and hydropathy. Such convergence may reflect that similar selection pressures shape the molecular evolution of biomineralization and shell formation genes in marine invertebrates.
The Characteristic of infection in BA.2, BA.5 to BF7：A retrospective study
Authors: Lyu Hongxin , Xiong Huawei , Liu Lingyu , Feng Yunlong 
Published: September 2023

Abstract
Background
Omicron has become the dominant SARS-CoV-2 variant worldwide. While comparisons of infection characteristics in various evolutionary variants remain scarce, it is essential to analyse the evolution and make important additions to the disease spectrum.
Methods
We used a retrospective case study to collect 802 cases of primary infection with BA.2, BA.5, and BF.7 sub-variants in three SAR-COV 2 outbreaks in China and identified infection characteristics using demographic, laboratory examinations, and clinical data. All data were analyzed using the Chi-square test and One-way ANOVA, with p < 0.05 as a statistically significant criterion.
Results
The results showed that the proportion of symptomatic cases of infection by BA.2, BA.5, BF.7 were 80.9%, 70.5%, and 61.4%. Moreover, the initial asymptomatic cases without clinical progression among the three variants were 41.8%, 35.9%, and 57.5%, respectively. Our statistical results suggest that mutations confer more asymptomatic infections and shorter incubation periods, sequence intervals, and HT. In the population receiving the booster vaccine, a longer duration of vaccination to positive indicates lighter symptoms. The emergence of sub-mutant strains has led to a decrease in the proportion of symptoms in the elderly and the clinical severity and viral load of those infected at lower ages. Gender differences caused by mutations were more commonly manifested in neurological symptoms such as myalgia. The CT value of the initial positive test reflected the severity of the disease in the BF.7 infected individuals in contrast to the early variants. All manifestations of infection with BF.7 became milder compared to the previous sub-variants.
Conclusion
The effect of the variation was gradually weakening but showed differences in ages and genders. Although the mutation causes immune evasion, the vaccine significantly reduces symptoms and disease duration as the mutation appears. More attention should be paid to the evolution of mutant strains to prevent a larger epidemic.
Constructing Population-Specific Atlases from Whole Body MRI: Application to the UKBB
Authors: Starck Sophie , Sideri-Lampretsa Vasiliki , Ritter Jessica , Zimmer Veronika , Braren Rickmer , Mueller Tamara , Rueckert Daniel 
Published: September 2023

Abstract

Population atlases are commonly utilised in medical imaging to facilitate the investigation of variability across populations.
Such atlases enable the mapping of medical images into a common coordinate system, promoting comparability and enabling the study of inter-subject differences.
Constructing such atlases becomes particularly challenging when working with highly heterogeneous datasets, such as whole-body images, where subjects show significant anatomical variations.
In this work, we propose a pipeline for generating a standardised whole-body atlas for a highly heterogeneous population by partitioning the population into meaningful subgroups.
We create six whole-body atlases that represent a healthy population average using magnetic resonance (MR) images from the UK Biobank dataset. We furthermore unbias them, and this way obtain a realistic representation of the population.
In addition to the anatomical atlases, we generate probabilistic atlases that capture the distributions of abdominal fat and five abdominal organs across the population.
We demonstrate different applications of these atlases, using the differences between subjects with medical conditions such as diabetes and cardiovascular diseases and healthy subjects from the atlas space.
With this work, we make the constructed anatomical and label atlases publically available and anticipate them to support medical research conducted on whole-body MR images. They are available for download at this address (https://zenodo.org/record/8226039)
The association of urinary chlorpyrifos, paraquat, and cyproconazole levels with the severity of fatty liver based on MRI
Authors: Ma Peiqi , Gao Hongliang , Shen Ning , Zhang Lei , Zhang Yang , Zheng Kai , Xu Boqun , Qin Jian , He Jian , Xu Tao , Li Yan , Wu Jing , Yuan Yushan , Xue Bin 
Published: September 2023

Abstract
Background: The objective of this study was to detect the urinary levels of chlorpyrifos, paraquat, and cyproconazole in residents living in Fuyang City and to analyze the correlation between these urinary pesticides levels and the severity of fatty liver disease (FLD).
Methods: All participants’ fat fraction (FF) values were recorded by MRI (Magnetic resonance imaging). First-morning urine samples were collected from 53 participants from Fuyang Peoples’Hospital. The levels of three urinary pesticides were measured using β-glucuronidase hydrolysis followed by a high-performance liquid chromatography-tandem mass spectrometry-based (LC-MS) method. The results were analyzed by using Pearson correlation analysis and binary logistic regression analysis to reveal the correlation between three urinary pesticides and the severity of fatty liver.
Results: 53 individuals were divided into 3 groups based on the results from MRI, with 20 cases in the normal control group, 16 cases in the mild fatty liver group, and 17 cases in the moderate and severe fatty liver group. Urinary chlorpyrifos level was increased along with the increase of the severity of fatty liver. Urinary paraquat level was significantly higher both in the low-grade fatty liver group and moderate & serve grade fatty liver group compared with the control group but there was no significant difference between the low-grade fatty liver group and moderate & serve grade fatty liver group. No significant differences in urinary cyproconazole levels were observed among the three groups. Furthermore, urinary chlorpyrifos and paraquat levels were positively correlated with FF value. Binary logistic regression analysis showed that chlorpyrifos was the risk factor that may be involved in the development of FLD and ROC curve analysis showed that chlorpyrifos and paraquat may serve as potential predictors of FLD.
Conclusion: The present findings indicate urinary chlorpyrifos and paraquat were positively correlated with the severity of fatty liver. Moreover, urinary chlorpyrifos and paraquat have the potential to be considered as the predictors for development of FLD. Thus, this study may provide a new perspective from the environmental factors for the diagnosis, prevention, and treatment of FLD.