bluuebunny/crossref_metadata_2025_split huggingface dataset:
sFlt-1/PIGF ratio positive associated with non-dipper type change in ambulatory blood pressure monitoring(ABPM) for preeclampsia development
Authors: Chen Yunshan , Di Xiaodan , Xiang Guochun , Liu Yunfeng , Pan Xiuyu , Deng Wenfeng , Zhu Xiongjie , Lei Ming , Zhang Guozheng , Liu Huishu 
Published: November 2023

AbstractIn order to explore relationship of ambulatory blood pressure monitoring (ABPM) and soluble fms-like tyrosine kinase-1/placental growth factor (sFlt-1/PlGF) in suspected preeclampsia(PE), suspected PE participants in 28 + 0 to 33 + 6 weeks underwent ABPM and sFlt-1/PlGF from July 2020 to July 2022 were included(N = 476) in study. ABPM parameters were compared between sFlt-1/PlGF ≥38 and <38 groups. Correlation analysis was performed between ABPM and sFlt-1/PlGF, and logistic regression was used to explore prediction value for PE in 2 weeks. One hundred eighteen cases developed PE in 2 weeks with 114 from sFlt-1/PlGF ≥38 group. Daytime and nighttime BP were all increased,with increased non-dipper (58.4% vs. 30.3%), riser (22.1% vs. 13.1%) and and decreased Dipper (15.4% vs. 45.9%) type of ABPM in sFlt-1/PlGF ≥38 groups (P < 0.05).The riser group had the highest sFlt-1 and lowest PlGF. sFlt-1/PlGF and sFlt-1 were all positively correlated with systolic (SBP) & diastolic blood pressure(DBP)(P < 0.01), in which correlation coefficients of daytime and nighttime BP with sFlt-1 were β = 150.05 & 157.67 for SBP, β = 234 and 199.01 for DBP, respectively. However, PlGF was only negatively associated with nighttime SBP and DBP(P < 0.05), with no correlation with daytime BP (P > 0.05).Combining sFlt-1/PlGF and ABPM model, showed sFlt-1/PlGF (aOR = 2.01 (1.69–2.36)), Nighttime DBP (aOR = 1.14 (1.02–1.28)) contributed to preeclampsia prediction, and had improved predictive value compared to ABPM or sFlt-1/PlGF models alone(P < 0.05). sFlt-1/PlGF ratio was positively correlated with BP parameters, whereas PIGF was only negatively correlated with nocturnal BP and increased non-dipper type change in ABPM, which had a synergistic effect with sFlt-1/PlGF on PE prediction.
Emulator-based Bayesian inference on non-proportional scintillation models by compton-edge probing
Authors: Breitenmoser David , Cerutti Francesco , Butterweck Gernot , Kasprzak Malgorzata Magdalena , Mayer Sabine 
Published: November 2023

AbstractScintillator detector response modeling has become an essential tool in various research fields such as particle and nuclear physics, astronomy or geophysics. Yet, due to the system complexity and the requirement for accurate electron response measurements, model inference and calibration remains a challenge. Here, we propose Compton edge probing to perform non-proportional scintillation model (NPSM) inference for inorganic scintillators. We use laboratory-based gamma-ray radiation measurements with a NaI(Tl) scintillator to perform Bayesian inference on a NPSM. Further, we apply machine learning to emulate the detector response obtained by Monte Carlo simulations. We show that the proposed methodology successfully constrains the NPSM and hereby quantifies the intrinsic resolution. Moreover, using the trained emulators, we can predict the spectral Compton edge dynamics as a function of the parameterized scintillation mechanisms. The presented framework offers a simple way to infer NPSMs for any inorganic scintillator without the need for additional electron response measurements.
Xylose and shikimate transporters facilitates microbial consortium as a chassis for benzylisoquinoline alkaloid production
Authors: Gao Meirong , Zhao Yuxin , Yao Zhanyi , Su Qianhe , Van Beek Payton , Shao Zengyi 
Published: November 2023

AbstractPlant-sourced aromatic amino acid (AAA) derivatives are a vast group of compounds with broad applications. Here, we present the development of a yeast consortium for efficient production of (S)-norcoclaurine, the key precursor for benzylisoquinoline alkaloid biosynthesis. A xylose transporter enables the concurrent mixed-sugar utilization in Scheffersomyces stipitis, which plays a crucial role in enhancing the flux entering the highly regulated shikimate pathway located upstream of AAA biosynthesis. Two quinate permeases isolated from Aspergillus niger facilitates shikimate translocation to the co-cultured Saccharomyces cerevisiae that converts shikimate to (S)-norcoclaurine, resulting in the maximal titer (11.5 mg/L), nearly 110-fold higher than the titer reported for an S. cerevisiae monoculture. Our findings magnify the potential of microbial consortium platforms for the economical de novo synthesis of complex compounds, where pathway modularization and compartmentalization in distinct specialty strains enable effective fine-tuning of long biosynthetic pathways and diminish intermediate buildup, thereby leading to increases in production.
Temporal morphogen gradient-driven neural induction shapes single expanded neuroepithelium brain organoids with enhanced cortical identity
Authors: Pagliaro Anna , Finger Roxy , Zoutendijk Iris , Bunschuh Saskia , Clevers Hans , Hendriks Delilah , Artegiani Benedetta 
Published: November 2023

AbstractPluripotent stem cell (PSC)-derived human brain organoids enable the study of human brain development in vitro. Typically, the fate of PSCs is guided into subsequent specification steps through static medium switches. In vivo, morphogen gradients are critical for proper brain development and determine cell specification, and associated defects result in neurodevelopmental disorders. Here, we show that initiating neural induction in a temporal stepwise gradient guides the generation of brain organoids composed of a single, self-organized apical-out neuroepithelium, termed ENOs (expanded neuroepithelium organoids). This is at odds with standard brain organoid protocols in which multiple and independent neuroepithelium units (rosettes) are formed. We find that a prolonged, decreasing gradient of TGF-β signaling is a determining factor in ENO formation and allows for an extended phase of neuroepithelium expansion. In-depth characterization reveals that ENOs display improved cellular morphology and tissue architectural features that resemble in vivo human brain development, including expanded germinal zones. Consequently, cortical specification is enhanced in ENOs. ENOs constitute a platform to study the early events of human cortical development and allow interrogation of the complex relationship between tissue architecture and cellular states in shaping the developing human brain.
Nuclear actin polymerization rapidly mediates replication fork remodeling upon stress by limiting PrimPol activity
Authors: Palumbieri Maria Dilia , Merigliano Chiara , González-Acosta Daniel , Kuster Danina , Krietsch Jana , Stoy Henriette , von Känel Thomas , Ulferts Svenja , Welter Bettina , Frey Joël , Doerdelmann Cyril , Sanchi Andrea , Grosse Robert , Chiolo Irene , Lopes Massimo 
Published: November 2023

AbstractCells rapidly respond to replication stress actively slowing fork progression and inducing fork reversal. How replication fork plasticity is achieved in the context of nuclear organization is currently unknown. Using nuclear actin probes in living and fixed cells, we visualized nuclear actin filaments in unperturbed S phase and observed their rapid extension in number and length upon genotoxic treatments, frequently taking contact with replication factories. Chemically or genetically impairing nuclear actin polymerization shortly before these treatments prevents active fork slowing and abolishes fork reversal. Defective fork remodeling is linked to deregulated chromatin loading of PrimPol, which promotes unrestrained and discontinuous DNA synthesis and limits the recruitment of RAD51 and SMARCAL1 to nascent DNA. Moreover, defective nuclear actin polymerization upon mild replication interference induces chromosomal instability in a PRIMPOL-dependent manner. Hence, by limiting PrimPol activity, nuclear F-actin orchestrates replication fork plasticity and is a key molecular determinant in the rapid cellular response to genotoxic treatments.
Functional Janus structured liquids and aerogels
Authors: Ghaffarkhah Ahmadreza , Hashemi Seyyed Alireza , Ahmadijokani Farhad , Goodarzi Milad , Riazi Hossein , Mhatre Sameer E. , Zaremba Orysia , Rojas Orlando J. , Soroush Masoud , Russell Thomas P. , Wuttke Stefan , Kamkar Milad , Arjmand Mohammad 
Published: November 2023

AbstractJanus structures have unique properties due to their distinct functionalities on opposing faces, but have yet to be realized with flowing liquids. We demonstrate such Janus liquids with a customizable distribution of nanoparticles (NPs) throughout their structures by joining two aqueous streams of NP dispersions in an apolar liquid. Using this anisotropic integration platform, different magnetic, conductive, or non-responsive NPs can be spatially confined to opposite sides of the original interface using magnetic graphene oxide (mGO)/GO, Ti3C2Tx/GO, or GO suspensions. The resultant Janus liquids can be used as templates for versatile, responsive, and mechanically robust aerogels suitable for piezoresistive sensing, human motion monitoring, and electromagnetic interference (EMI) shielding with a tuned absorption mechanism. The EMI shields outperform their current counterparts in terms of wave absorption, i.e., SET ≈ 51 dB, SER ≈ 0.4 dB, and A = 0.91, due to their high porosity ranging from micro- to macro-scales along with non-interfering magnetic and conductive networks imparted by the Janus architecture.
Data-driven grading of acute graft-versus-host disease
Authors: Bayraktar Evren , Graf Theresa , Ayuk Francis A. , Beutel Gernot , Penack Olaf , Luft Thomas , Brueder Nicole , Castellani Gastone , Reinhardt H. Christian , Kröger Nicolaus , Beelen Dietrich W. , Turki Amin T. 
Published: November 2023

AbstractDespite advances in allogeneic hematopoietic cell transplantation, acute graft-versus-host disease (aGVHD) remains its leading complication, yet with heterogeneous outcomes. Here, we analyzed aGVHD phenotypes and clinical classifications in depth in large, multicenter cohorts involving 3019 patients and addressed prevailing gaps by developing data-driven models. We compared, tested and verified these along with all conventional classifications in independent cohorts and found that data-driven grading outperformed conventional grading in Akaike information criterion and concordance index metrics. Data-driven classifications refined aGVHD assessment with up to 12 severity grades, which were associated with distinct nonrelapse mortality (NRM) and confirmed the key role of intestinal aGVHD. We developed an online calculator for physicians to implement principal component-derived grading (PC1). These results provide substantial insight into the evaluation of aGVHD phenotypes and multiorgan involvement, which relegates the exclusive reporting of overall aGVHD severity grades in transplant registries and clinical trials. Data-driven aGVHD grading provides an expandable platform to refine classification and transplant risk assessment.
Compensating transport trends in the Drake Passage frontal regions yield no acceleration in net transport
Authors: Gutierrez-Villanueva Manuel O. , Chereskin Teresa K. , Sprintall Janet 
Published: November 2023

AbstractAlthough the westerly winds that drive the Antarctic Circumpolar Current (ACC) have increased over the past several decades, the ACC response remains an open question. Here we use a 15-year time series of concurrent upper-ocean temperature, salinity, and ocean velocity with high spatial resolution across Drake Passage to analyze whether the net Drake Passage transport has accelerated in the last 15 years. We find that, although the net Drake Passage transport relative to 760 m shows insignificant acceleration, the net transport trend comprises compensating trends across the ACC frontal regions. Our results show an increase in the mesoscale eddy activity between the fronts consistent with buoyancy changes in the fronts and with an eddy saturation state. Furthermore, the increased eddy activity may play a role in redistributing momentum across the ACC frontal regions. The increase in eddy activity is expected to intensify the eddy-driven upwelling of deep warm waters around Antarctica, which has significant implications for ice-melting, sea level rise, and global climate.
Hidden magnetism uncovered in a charge ordered bilayer kagome material ScV6Sn6
Authors: Guguchia Z. , Gawryluk D. J. , Shin S. , Hao Z. , Mielke III C. , Das D. , Plokhikh I. , Liborio L. , Shenton J. Kane , Hu Y. , Sazgari V. , Medarde M. , Deng H. , Cai Y. , Chen C. , Jiang Y. , Amato A. , Shi M. , Hasan M. Z. , Yin J.-X. , Khasanov R. , Pomjakushina E. , Luetkens H. 
Published: November 2023

AbstractCharge ordered kagome lattices have been demonstrated to be intriguing platforms for studying the intertwining of topology, correlation, and magnetism. The recently discovered charge ordered kagome material ScV6Sn6does not feature a magnetic groundstate or excitations, thus it is often regarded as a conventional paramagnet. Here, using advanced muon-spin rotation spectroscopy, we uncover an unexpected hidden magnetism of the charge order. We observe an enhancement of the internal field width sensed by the muon ensemble, which takes place within the charge ordered state. More importantly, the muon spin relaxation rate below the charge ordering temperature is substantially enhanced by applying an external magnetic field. Taken together with the hidden magnetism found inAV3Sb5(A= K, Rb, Cs) and FeGe kagome systems, our results suggest ubiqitous time-reversal symmetry-breaking in charge ordered kagome lattices.
The genetic relationships between brain structure and schizophrenia
Authors: Stauffer Eva-Maria , Bethlehem Richard A. I. , Dorfschmidt Lena , Won Hyejung , Warrier Varun , Bullmore Edward T. 
Published: November 2023

AbstractGenetic risks for schizophrenia are theoretically mediated by genetic effects on brain structure but it has been unclear which genes are associated with both schizophrenia and cortical phenotypes. We accessed genome-wide association studies (GWAS) of schizophrenia (N = 69,369 cases; 236,642 controls), and of three magnetic resonance imaging (MRI) metrics (surface area, cortical thickness, neurite density index) measured at 180 cortical areas (N = 36,843, UK Biobank). Using Hi-C-coupled MAGMA, 61 genes were significantly associated with both schizophrenia and one or more MRI metrics. Whole genome analysis with partial least squares demonstrated significant genetic covariation between schizophrenia and area or thickness of most cortical regions. Genetic similarity between cortical areas was strongly coupled to their phenotypic covariance, and genetic covariation between schizophrenia and brain phenotypes was strongest in the hubs of structural covariance networks. Pleiotropically associated genes were enriched for neurodevelopmental processes and positionally concentrated in chromosomes 3p21, 17q21 and 11p11. Mendelian randomization analysis indicated that genetically determined variation in a posterior cingulate cortical area could be causal for schizophrenia. Parallel analyses of GWAS on bipolar disorder, Alzheimer’s disease and height showed that pleiotropic association with MRI metrics was stronger for schizophrenia compared to other disorders.
Plasma proteomic profiles predict individual future health risk
Authors: You Jia , Guo Yu , Zhang Yi , Kang Ju-Jiao , Wang Lin-Bo , Feng Jian-Feng , Cheng Wei , Yu Jin-Tai 
Published: November 2023

AbstractDeveloping a single-domain assay to identify individuals at high risk of future events is a priority for multi-disease and mortality prevention. By training a neural network, we developed a disease/mortality-specific proteomic risk score (ProRS) based on 1461 Olink plasma proteins measured in 52,006 UK Biobank participants. This integrative score markedly stratified the risk for 45 common conditions, including infectious, hematological, endocrine, psychiatric, neurological, sensory, circulatory, respiratory, digestive, cutaneous, musculoskeletal, and genitourinary diseases, cancers, and mortality. The discriminations witnessed high accuracies achieved by ProRS for 10 endpoints (e.g., cancer, dementia, and death), with C-indexes exceeding 0.80. Notably, ProRS produced much better or equivalent predictive performance than established clinical indicators for almost all endpoints. Incorporating clinical predictors with ProRS enhanced predictive power for most endpoints, but this combination only exhibited limited improvement when compared to ProRS alone. Some proteins, e.g., GDF15, exhibited important discriminative values for various diseases. We also showed that the good discriminative performance observed could be largely translated into practical clinical utility. Taken together, proteomic profiles may serve as a replacement for complex laboratory tests or clinical measures to refine the comprehensive risk assessments of multiple diseases and mortalities simultaneously. Our models were internally validated in the UK Biobank; thus, further independent external validations are necessary to confirm our findings before application in clinical settings.
PhenoSV: interpretable phenotype-aware model for the prioritization of genes affected by structural variants
Authors: Xu Zhuoran , Li Quan , Marchionni Luigi , Wang Kai 
Published: November 2023

AbstractStructural variants (SVs) represent a major source of genetic variation associated with phenotypic diversity and disease susceptibility. While long-read sequencing can discover over 20,000 SVs per human genome, interpreting their functional consequences remains challenging. Existing methods for identifying disease-related SVs focus on deletion/duplication only and cannot prioritize individual genes affected by SVs, especially for noncoding SVs. Here, we introduce PhenoSV, a phenotype-aware machine-learning model that interprets all major types of SVs and genes affected. PhenoSV segments and annotates SVs with diverse genomic features and employs a transformer-based architecture to predict their impacts under a multiple-instance learning framework. With phenotype information, PhenoSV further utilizes gene-phenotype associations to prioritize phenotype-related SVs. Evaluation on extensive human SV datasets covering all SV types demonstrates PhenoSV’s superior performance over competing methods. Applications in diseases suggest that PhenoSV can determine disease-related genes from SVs. A web server and a command-line tool for PhenoSV are available at https://phenosv.wglab.org.
Ultrasonic barrier-through imaging by Fabry-Perot resonance-tailoring panel
Authors: Park Chung Il , Choe Seungah , Lee Woorim , Choi Wonjae , Kim Miso , Seung Hong Min , Kim Yoon Young 
Published: November 2023

AbstractImaging technologies that provide detailed information on intricate shapes and states of an object play critical roles in nanoscale dynamics, bio-organ and cell studies, medical diagnostics, and underwater detection. However, ultrasonic imaging of an object hidden by a nearly impenetrable metal barrier remains intractable. Here, we present the experimental results of ultrasonic imaging of an object in water behind a metal barrier of a high impedance mismatch. In comparison to direct ultrasonic images, our method yields sufficient object information on the shapes and locations with minimal errors. While our imaging principle is based on the Fabry-Perot (FP) resonance, our strategy for reducing attenuation in our experiments focuses on customising the resonance at any desired frequency. To tailor the resonance frequency, we placed an elaborately engineered panel of a specific material and thickness, called the FP resonance-tailoring panel (RTP), and installed the panel in front of a barrier at a controlled distance. Since our RTP-based imaging technique is readily compatible with conventional ultrasound devices, it can realise underwater barrier-through imaging and communication and enhance skull-through ultrasonic brain imaging.
The ELAVL3/MYCN positive feedback loop provides a therapeutic target for neuroendocrine prostate cancer
Authors: Ji Yiyi , Zhang Weiwei , Shen Kai , Su Ruopeng , Liu Xinyu , Ma Zehua , Liu Bo , Hu Cong , Xue Yizheng , Xin Zhixiang , Yang Yi , Li Ang , Jiang Zhou , Jing Na , Zhu Helen He , Dong Liang , Zhu Yinjie , Dong Baijun , Pan Jiahua , Wang Qi , Xue Wei 
Published: November 2023

AbstractNeuroendocrine prostate cancer is a rapidly progressive and lethal disease characterized by early visceral metastasis, poor prognosis, and limited treatment options. Uncovering the oncogenic mechanisms could lead to the discovery of potential therapeutic avenues. Here, we demonstrate that the RNA-binding protein ELAVL3 is specifically upregulated in neuroendocrine prostate cancer and that overexpression of ELAVL3 alone is sufficient to induce the neuroendocrine phenotype in prostate adenocarcinoma. Mechanistically, ELAVL3 is transcriptionally regulated by MYCN and subsequently binds to and stabilizes MYCN and RICTOR mRNA. Moreover, ELAVL3 is shown to be released in extracellular vesicles and induce neuroendocrine differentiation of adenocarcinoma cells via an intercellular mechanism. Pharmacological inhibition of ELAVL3 with pyrvinium pamoate, an FDA-approved drug, effectively suppresses tumor growth, reduces metastatic risk, and improves survival in neuroendocrine prostate cancer mouse models. Our results identify ELAVL3 as a critical regulator of neuroendocrine differentiation in prostate cancer and propose a drug repurposing strategy for targeted therapies.
Grammars Across Time Analyzed (GATA): a dataset of 52 languages
Authors: Blum Frederic , Barrientos Carlos , Ingunza Adriano , Blasi Damián E. , Zariquiey Roberto 
Published: November 2023

AbstractGrammars Across Time Analyzed (GATA) is a resource capturing two snapshots of the grammatical structure of a diverse range of languages separated in time, aimed at furthering research on historical linguistics, language evolution, and cultural change. GATA comprises grammatical information on 52 diverse languages across all continents, featuring morphological, syntactic, and phonological information based on published grammars of the same language at two different time points. Here we introduce the coding scheme and design features of GATA, and we describe some salient patterns related to language change and the coverage of grammatical descriptions over time.
Functional trait dataset of benthic macroinvertebrates in South Korean streams
Authors: Adhurya Sagar , Lee Da-Yeong , Lee Dae-Seong , Park Young-Seuk 
Published: November 2023

AbstractFunctional traits are the result of evolution and adaptation, providing important ecological insights into how organisms interact with their environment. Benthic macroinvertebrates, in particular, have garnered attention as biomonitoring indicators for freshwater ecosystems. This study presents a functional trait dataset for benthic macroinvertebrates, comprising 447 taxa (393 at genus level, 53 at family level and one at class level) from five phyla (Annelida, Arthropoda, Mollusca, Nematomorpha, and Platyhelmenthes), categorized into nine traits related to life history, morphology, and habit. To account for variation in available trait information, we assigned confidence levels to each taxon and functional trait based on the level of evidence using fuzzy coding. Our dataset provides an important resource for understanding the ecology of benthic macroinvertebrates in South Korea, serving as a valuable baseline dataset for studying their biodiversity, conservation, and biomonitoring in freshwater ecosystems.