bluuebunny/crossref_metadata_2025_split huggingface dataset:
Drainage Divide Migration on Asymmetrically Uplifted Horsts, Western Türkiye
Authors: Özpolat Emrah , Yıldırım Cengiz , Görüm Tolga , Sarıkaya M. Akif 
Published: February 2025

AbstractThe migration of a main drainage divide is pivotal in landscape evolution, providing key insights into how tectonic and erosional processes shape landscapes. However, the dynamics of divide migration in response to asymmetric uplift and erosion are not well constrained in natural settings compared to modeling studies. This study examines drainage divide migration in response to gradient in uplift and erosional contrast in the horst systems of the western Anatolia Extensional Province, Türkiye. Using 11 new cosmogenic 10Be‐derived erosion rates and topographic metrics, we demonstrate that differing positions of main drainage divides result from variations in uplift gradient and erosional contrast, despite the simultaneous exhumation of horsts under the same extensional regime. The findings show that Madran Horst's main drainage divide is closer to its more uplifted eastern flank and is controlled by a higher uplift gradient between the flanks. The higher erosion rates in the eastern flanks suggest a quasi‐steady‐state equilibrium in which the high erosional contrast between the flanks and the gradient in uplift is already balancing each other as supported by Gilbert metrics in contrast to χ. In contrast, the Karıncalıdağ Horst's main drainage divide is approaching its geometric center supported by closer values in χ anomalies, stability in Gilbert metrics, and a decreasing gradient in uplift between flanks. Although the main drainage divide is close to the geometric center, higher erosion rates in the eastern flank suggest ongoing erosion‐driven migration. This study provides empirical evidence for drainage divide migration driven by asymmetric uplift and erosional contrast.
Endoplasmic reticulum stress-related super enhancer promotes epithelial-mesenchymal transformation in hepatocellular carcinoma through CREB5 mediated activation of TNC
Authors: Wang Anqi , Yan Sitong , Liu Jiatao , Chen Xiang , Hu Mengyao , Du Xiao , Jiang Weijia , Pan Zhipeng , Fan Lulu , Sun Guoping 
Published: February 2025

Abstract
Super-enhancers (SEs) are associated with key genes that control cellular state and cell identity. Endoplasmic reticulum stress (ERS) regulates epithelial-mesenchymal transformation (EMT). However, whether SEs are involved in ERS-related activation of EMT in hepatocellular carcinoma (HCC) is unknown. In this study, we identified 17 ERS-related SEs by comparing ERS-HCC cells with untreated control cells using ChIP-seq and RNA-seq. CRISPR-Cas9 and RT-qPCR identified CAMP responsive element binding protein 5 (CREB5) as a key target of ERS-related SE. Analyses of TCGA datasets and tissue arrays showed that CREB5 mRNA and protein expression levels were higher in liver cancer tissues than in paired normal tissues. In addition, overexpression of CREB5 was associated with poor prognosis and an aggressive phenotype in patients with HCC. We also found that activation of ERS enhanced the expression of CREB5, and upregulation of CREB5 significantly increased cell proliferation, migration, and invasion, and promoted EMT, but inhibited apoptosis. More importantly, ERS activation increased the expression of several EMT markers by modulating the expression of CREB5. Mechanistically, CREB5 upregulates the transcription of tenascin-C (TNC) by directly binding to its promoter region, thereby promoting EMT in liver cancer cells. In summary, our findings suggest that ERS activation promotes EMT in liver cancer cells via SE-mediated upregulation of the CREB5/TNC pathway. This result provides a new direction for uncovering how ERS regulates EMT and a foundation for preventing the progression of EMT in HCC.
TAp63γ is the primary isoform of TP63 for tumor suppression but not development
Authors: Chen Xinbin , Sun Wenqiang , Kong Xiangmudong , Ming Xin , Zhang Yanhong , Yan Wensheng , Mohibi Shakur , Chen Mingyi , Mitchell Keith , Zhang Jin 
Published: February 2025

Abstract
TP63 is expressed as TAp63 and ΔNp63 from the P1 and P2 promoters, respectively. While TAp63 and ΔNp63 are expressed as three TAp63α/β/γ and ΔNp63α/β/γ due to alternative splicing, only p63α (TA and ΔN) and p63γ (TA and ΔN) proteins are found to be detectable and likely to be responsible for p63-dependent activity. Previous studies implied and/or demonstrated that TAp63α, which contains an N-terminal activation domain conserved in p53, functions as a tumor suppressor by regulating an array of genes for growth suppression. By contrast, ΔNp63α, which also contains an N-terminal activation domain but is different from that in TAp63, regulates a unique set of genes and functions as a master regulator for development of epidermis and other stratified epithelial tissues. However, the biological function of p63γ is largely unexplored. To explore this, we generated a mouse model in that exon 10’, a coding exon specific for p63γ, was deleted by CRISPR-cas9. We showed that mice deficient in p63γ are viable and futile, which is different from mice deficient in total TP63 or p63α. Like TAp63-deficient mice, p63γ-deficient mice have a short lifespan and are prone to spontanenous tumors. Additionally, loss of p63γ shortens the lifespan of tumor-free mice potentially via increased cellular senescence. Moreover, mice deficient in p63γ are prone to chronic inflammation in multiple organs and liver steatosis potentially via altered lipid metabolism. Single-cell RNA-seq revealed that loss of p63γ increases the expression of SCD1, a rate-limiting enzyme for synthesis of monounsaturated fatty acids, leading to altered lipid homeostasis. Together, our data indicate that TP63γ is the primary isoform of TP63 for tumor suppression but not development by maintaining normal inflammatory response and lipid homeostasis.
Replication-IDentifier links epigenetic and metabolic pathways to the replication stress response
Authors: van der Horst Sophie C. , Kollenstart Leonie , Batté Amandine , Keizer Sander , Vreeken Kees , Pandey Praveen , Chabes Andrei , van Attikum Haico 
Published: February 2025

Abstract
Perturbation of DNA replication, for instance by hydroxyurea-dependent dNTP exhaustion, often leads to stalling or collapse of replication forks. This triggers a replication stress response that stabilizes these forks, activates cell cycle checkpoints, and induces expression of DNA damage response genes. While several factors are known to act in this response, the full repertoire of proteins involved remains largely elusive. Here, we develop Replication-IDentifier (Repli-ID), which allows for genome-wide identification of regulators of DNA replication in Saccharomyces cerevisiae. During Repli-ID, the replicative polymerase epsilon (Pol ε) is tracked at a barcoded origin of replication by chromatin immunoprecipitation (ChIP) coupled to next-generation sequencing of the barcode in thousands of hydroxyurea-treated yeast mutants. Using this approach, 423 genes that promote Pol ε binding at replication forks were uncovered, including LGE1 and ROX1. Mechanistically, we show that Lge1 affects replication initiation and/or fork stability by promoting Bre1-dependent H2B mono-ubiquitylation. Rox1 affects replication fork progression by regulating S-phase entry and checkpoint activation, hinging on cellular ceramide levels via transcriptional repression of SUR2. Thus, Repli-ID provides a unique resource for the identification and further characterization of factors and pathways involved in the cellular response to DNA replication perturbation.
The hypolipidemic effect of MI-883, the combined CAR agonist/ PXR antagonist, in diet-induced hypercholesterolemia model
Authors: Dusek Jan , Mejdrová Ivana , Dohnalová Klára , Smutny Tomas , Chalupsky Karel , Krutakova Maria , Skoda Josef , Rashidian Azam , Pavkova Ivona , Škach Kryštof , Hricová Jana , Chocholouskova Michaela , Smutna Lucie , Kamaraj Rajamanikkam , Hroch Miloš , Leníček Martin , Mičuda Stanislav , Pijnenburg Dirk , van Beuningen Rinie , Holčapek Michal , Vítek Libor , Ingelman-Sundberg Magnus , Burk Oliver , Kronenberger Thales , Nencka Radim , Pavek Petr 
Published: February 2025

Abstract
Constitutive androstane receptor (CAR) and pregnane X receptor (PXR) are closely related nuclear receptors with overlapping regulatory functions in xenobiotic clearance but distinct roles in endobiotic metabolism. Car activation has been demonstrated to ameliorate hypercholesterolemia by regulating cholesterol metabolism and bile acid elimination, whereas PXR activation is associated with hypercholesterolemia and liver steatosis. Here we show a human CAR agonist/PXR antagonist, MI-883, which effectively regulates genes related to xenobiotic metabolism and cholesterol/bile acid homeostasis by leveraging CAR and PXR interactions in gene regulation. Through comprehensive analyses utilizing lipidomics, bile acid metabolomics, and transcriptomics in humanized PXR-CAR-CYP3A4/3A7 mice fed high-fat and high-cholesterol diets, we demonstrate that MI-883 significantly reduces plasma cholesterol levels and enhances fecal bile acid excretion. This work paves the way for the development of ligands targeting multiple xenobiotic nuclear receptors. Such ligands hold the potential for precise modulation of liver metabolism, offering new therapeutic strategies for metabolic disorders.
Live imaging of the extracellular matrix with a glycan-binding fluorophore
Authors: Fiore Antonio , Yu Guoqiang , Northey Jason J. , Patel Ronak , Ravenscroft Thomas A. , Ikegami Richard , Kolkman Wiert , Kumar Pratik , Dilan Tanya L. , Ruetten Virginia M. S. , Ahrens Misha B. , Shroff Hari , Wang Shaohe , Weaver Valerie M. , Pedram Kayvon 
Published: February 2025

Abstract
All multicellular systems produce and dynamically regulate extracellular matrices (ECMs) that play essential roles in both biochemical and mechanical signaling. Though the spatial arrangement of these extracellular assemblies is critical to their biological functions, visualization of ECM structure is challenging, in part because the biomolecules that compose the ECM are difficult to fluorescently label individually and collectively. Here, we present a cell-impermeable small-molecule fluorophore, termed Rhobo6, that turns on and red shifts upon reversible binding to glycans. Given that most ECM components are densely glycosylated, the dye enables wash-free visualization of ECM, in systems ranging from in vitro substrates to in vivo mouse mammary tumors. Relative to existing techniques, Rhobo6 provides a broad substrate profile, superior tissue penetration, non-perturbative labeling, and negligible photobleaching. This work establishes a straightforward method for imaging the distribution of ECM in live tissues and organisms, lowering barriers for investigation of extracellular biology.
WAND: A multi-modal dataset integrating advanced MRI, MEG, and TMS for multi-scale brain analysis
Authors: McNabb Carolyn B. , Driver Ian D. , Hyde Vanessa , Hughes Garin , Chandler Hannah L. , Thomas Hannah , Allen Christopher , Messaritaki Eirini , Hodgetts Carl J. , Hedge Craig , Engel Maria , Standen Sophie F. , Morgan Emma L. , Stylianopoulou Elena , Manolova Svetla , Reed Lucie , Ploszajski Matthew , Drakesmith Mark , Germuska Michael , Shaw Alexander D. , Mueller Lars , Rossiter Holly , Davies-Jenkins Christopher W. , Lancaster Tom , Evans C. John , Owen David , Perry Gavin , Kusmia Slawomir , Lambe Emily , Partridge Adam M. , Cooper Allison , Hobden Peter , Lu Hanzhang , Graham Kim S. , Lawrence Andrew D. , Wise Richard G. , Walters James T. R. , Sumner Petroc , Singh Krish D. , Jones Derek K. 
Published: February 2025

Abstract
This paper introduces the Welsh Advanced Neuroimaging Database (WAND), a multi-scale, multi-modal imaging dataset comprising in vivo brain data from 170 healthy volunteers (aged 18–63 years), including 3 Tesla (3 T) magnetic resonance imaging (MRI) with ultra-strong (300 mT/m) magnetic field gradients, structural and functional MRI and nuclear magnetic resonance spectroscopy at 3 T and 7 T, magnetoencephalography (MEG), and transcranial magnetic stimulation (TMS), together with trait questionnaire and cognitive data. Data are organised using the Brain Imaging Data Structure (BIDS). In addition to raw data, we provide brain-extracted T1-weighted images, and quality reports for diffusion, T1- and T2-weighted structural data, and blood-oxygen level dependent functional tasks. Reasons for participant exclusion are also included. Data are available for download through our GIN repository, a data access management system designed to reduce storage requirements. Users can interact with and retrieve data as needed, without downloading the complete dataset. Given the depth of neuroimaging phenotyping, leveraging ultra-high-gradient, high-field MRI, MEG and TMS, this dataset will facilitate multi-scale and multi-modal investigations of the healthy human brain.
A realistic 2D multi-offset, multi-frequency synthetic GPR data set as a benchmark for testing new algorithms
Authors: Roncoroni G. , Koyan P. , Forte E. , Tronicke J. , Pipan M. 
Published: February 2025

Abstract
We present a 2D multi-offset, multi-frequency synthetic GPR data set specifically designed to evaluate and test processing, analysis and inversion techniques. The data set replicates realistic subsurface conditions at four sections separated by 2 m. We modeled four multi-offset GPR profiles at 50, 100 and 200 MHz frequencies using realistic wavelets. The data set provides a robust framework for validating advanced GPR algorithms and techniques such as pre-stack depth migration, amplitude versus offset analysis and full waveform inversion. Extensive technical validation ensures data reproducibility and affordability. The standardized, realistic synthetic data set can be used as a reliable benchmark for developing and testing new algorithms and methods, thereby advancing the understanding of subsurface imaging and real-world data interpretation.
Preconceptional brain structure and future conception: a prospective brain MRI study among 321 women
Authors: de Vries Merel W. , Poels Eline M. P. , Roshchupkin Gennady V. , Muetzel Ryan L. , Zarchev Milan , Kamperman Astrid M. , Tiemeier Henning , Vernooij Meike W. , Kushner Steven A. 
Published: February 2025

Abstract
Brain structure may influence female fertility through its reciprocal relationship with the endocrine system, but this hypothesis is underexplored. This study investigated the association between preconceptional brain structure and the likelihood of conception in a prospective population-based neuroimaging cohort. Women intending to conceive within a year were recruited and structural brain MRI scans were collected from 321 participants between June 2019 and March 2021. During the 12-month follow-up, 185 women became pregnant, and 136 did not. Logistic regression was used to examine associations between global brain parameters and conception, adjusting for age, intracranial volume, BMI, prior STD diagnosis, ethnicity, education, household income, smoking, and alcohol use. Unadjusted analyses showed associations between conception and larger occipital lobe and nucleus accumbens volume, increased surface area across all lobes, and occipital cortical thickness, and conception. Adjusted analyses identified a positive association between nucleus accumbens volume and conception (OR = 1.50 (95% CI: 1.12, 1.99), p-value = 0.007). Sensitivity analyses linked caudate volume to conception, but no findings remained significant after correction for multiple comparisons. Further research is needed to understand the potential role of brain structure and function in conception, in relationship with general health and socioeconomic factors.
Decoherence in spin wave propagation via precursor pulses during signal equilibration
Authors: McEleney Cameron Aidan , Camley Robert E. , Macêdo Rair 
Published: February 2025

Abstract
The processes for generation, amplification, and protraction of oscillating signals—often for information transfer—are inherently associated with dispersive decoherence and nonlinear phenomena. One such example is the case of wave patterns of non-negligible amplitudes that can emerge due to dispersion of a signal propagating through matter; for a continuously applied drive these patterns precede the main signal. Here, we investigate how spin wave generation inherently results in dispersive decoherence in the form of precursors. By quantifying three different frequency regimes, we investigate how decoherence is affected, or predetermined by the shape of the spin wave dispersion relation and, what is perhaps most interesting, it does not require non-linearity. Understanding the relationship between spin wave dispersion and decoherence can enable engineering magnonic devices supporting well-resolved signals for magnonic computing and signal processing.
Design of a CrZrOx–Cu2MnOx@Na2WO4 catalyst–oxygen carrier system for efficient chemical looping oxidative dehydrogenation of propane
Authors: Liu Ziyang , Bai Peng , Xu Benjing , Wu Pingping , Wu Hao , Sun Haoran , Li Junji , Yan Zifeng 
Published: February 2025

CrZrOx catalyst was prepared by co-precipitation method with sufficient surface oxygen vacancies, and showed enhanced propane conversion in Chemical Looping Oxidative Dehydrogenation(CL-ODH) combined with a Cu2MnOx@Na2WO4 oxygen carrier.
A Comparison of Vestibular Function in Young Adult Musicians and Nonmusician Peers
Authors: Greene Alexandria W. , Flagge Ashley G. , Stanley Nic S. 
Published: February 2025

Purpose:
The majority of college-level musicians exceed the daily recommended noise dose level during instrumental practices and performances, although less than one third report wearing hearing protection while playing their instruments. Although the hazardous effects of music on the auditory system have been established, even in young adult musicians still early in their musical careers, the effects of music on the vestibular system are still unclear. The purpose of the present study was to examine vestibular/balance differences between young adult musicians and nonmusicians to determine the effects of music exposure on the vestibular system.

Method:

Young adult participants aged 18–27 years without any history of hearing loss, vestibular/balance disorder, otologic disorder, or nervous system disorder were included in this study. Participants were divided into musician (
n
= 19) and nonmusician (
n
= 18) groups. Vestibular function was assessed and compared via the cervical vestibular evoked myogenic potential (cVEMP), ocular vestibular evoked myogenic potential (oVEMP), video head impulse test (vHIT), and modified clinical test of sensory interaction in balance (mCTSIB).

Results:
Musicians were found to produce significantly more saccades in the left horizontal semicircular canal during vHIT assessment compared to nonmusicians. Group differences were not found in the cVEMP, oVEMP, or mCTSIB.

Conclusions:
This study shows the effects of music exposure on the vestibular system in young adult musicians who show early-onset, subclinical findings on the vHIT that could develop into abnormal results on vestibular assessments if hearing protection use is not increased.
Interpreting Pediatric Laryngeal Ultrasonography: A Training Protocol for Novice Examiners
Authors: Lee Julianne T. , Siu Alice K.-Y. , Ma Estella P.-M. 
Published: February 2025

Objective:
Laryngeal ultrasonography (LUS) is a noninvasive alternative to nasal endoscopy for diagnosing vocal fold pathologies in the pediatric population. Inducing less discomfort and physiological impact, LUS is more well tolerated by young patients. Despite its advantages, interpreting ultrasound images is highly subjective, potentially undermining diagnostic accuracy. To address the limitation, this research aims to evaluate the effect of training on novice examiners' LUS interpretation proficiency and, secondly, whether examiners' interpretation confidence increases after receiving the training.

Method:
Thirty-eight novice examiners were randomly assigned to the experimental and control group where the former received training. A stimulus–response–feedback–stimulus paradigm was employed in the training. Qualitatively, the presence of vocal fold lesions and vocal fold motion impairment was examined. Quantitatively, the left and right vocal fold–arytenoid angles were measured.

Results:
Results showed that training significantly improved diagnostic accuracy in qualitative measurements. Quantitatively, statistically significant effects were found posttraining with enhanced intrarater agreement and reduced interrater variability. A substantial increase in interpretation confidence was observed following training.

Conclusions:
In conclusion, there is an overall significant training effect on novice examiners' proficiency in LUS image interpretation. For future directions, it is recommended to investigate the training effect on the proficiency from ultrasound image acquisition to interpretation.
Recent star formation episodes in the Galaxy: Impact on its chemical properties and the evolution of its abundance gradient
Authors: Chen Tianxiang , Prantzos Nikos 
Published: February 2025

Aims. We investigate the chemical evolution of the Milky Way disc exploring various schemes of recent (past several Gyr) star formation episodes, as reported in recent observational works.
Methods. We used a semi-analytical model with parametrized radial migration, and we introduced Gaussian star formation episodes constrained by the recent observations.
Results. We find significant impact from the star formation episodes on several observables, including the local age–metallicity and [α/Fe] versus metallicity relations, as well as the local stellar metallicity distribution and the existence of young [α/Fe] -rich stars. Moreover, we show that the recently found ‘wiggly’ behaviour of the disc abundance gradient with age can be interpreted in terms of either star formation or infall episodes.
Performance of ultra-high-frequency ultrasound in the evaluation of skin atrophy in patients with long-term oral glucocorticoid therapy in a tertiary rheumatology center
Authors: Turowski Timo , Fleck Martin , Ehrenstein Boris , Hartung Wolfgang , Günther Florian 
Published: February 2025

AbstractUltra-high-frequency ultrasound (UHF-US) allows visualization of the epidermis, dermis, and subcutis and precise measurement of skin thickness. The aim of this study was to assess the performance and interobserver reliability of UHF-US for measuring skin thickness in patients with long-term systemic glucocorticoid (GC) therapy compared to patients without GC therapy or treated for a shorter period.156 patients with known or suspected inflammatory rheumatic diseases underwent US evaluation for skin thickness by 3 experts in 3 anatomical sites (hand, distal, and proximal forearm). 87 patients were classified as “frequent users” who had received continuous oral GCs for at least one year or at least 3 years with various interruptions. 69 patients without any oral GC therapy in the past or treated for a shorter period were classified as “non-frequent users”.UHF-US allowed a precise measurement of skin thickness. Skin thickness at all 3 anatomical sites was significantly decreased in “frequent users” of GCs compared to “non-frequent users” (distal and proximal forearm: p < 0.001; hand: p < 0.05). At all 3 anatomical sites, skin thickness was decreased in patients with clinically assessed parchment-like skin compared to patients without parchment-like skin (distal and proximal forearm: p < 0.001; hand: p < 0.05). Interobserver variability was excellent [hand intraclass correlation coefficient (ICC) = 0.99; proximal forearm ICC = 0.85; distal forearm ICC = 0.84].These data support the idea of UHF-US as an objective and reliable imaging tool for monitoring skin atrophy as adverse effects of GC therapy.