bluuebunny/crossref_metadata_2025_split huggingface dataset:
Targeting Fascin1 maintains chondrocytes phenotype and attenuates osteoarthritis development
Authors: Yang Panpan , Xiao Yun , Chen Liangyu , Yang Chengliang , Cheng Qinwei , Li Honghao , Chen Dalin , Wu Junfeng , Liao Zhengquan , Yang Changsheng , Wang Chong , Wang Hong , Huang Bin , Ke Ee , Bai Xiaochun , Li Kai 
Published: September 2024

AbstractOsteoarthritis (OA) is the most common form of arthritic disease, and phenotypic modification of chondrocytes is an important mechanism that contributes to the loss of cartilage homeostasis. This study identified that Fascin actin-bundling protein 1 (FSCN1) plays a pivotal role in regulating chondrocytes phenotype and maintaining cartilage homeostasis. Proteome-wide screening revealed markedly upregulated FSCN1 protein expression in human OA cartilage. FSCN1 accumulation was confirmed in the superficial layer of OA cartilage from humans and mice, primarily in dedifferentiated-like chondrocytes, associated with enhanced actin stress fiber formation and upregulated type I and III collagens. FSCN1-inducible knockout mice exhibited delayed cartilage degeneration following experimental OA surgery. Mechanistically, FSCN1 promoted actin polymerization and disrupted the inhibition of Decorin on TGF-β1, leading to excessive TGF-β1 production and ALK1/Smad1/5 signaling activation, thus, accelerated chondrocyte dedifferentiation. Intra-articular injection of FSCN1-overexpressing adeno-associated virus exacerbated OA progression in mice, which was mitigated by an ALK1 inhibitor. Moreover, FSCN1 inhibitor NP-G2-044 effectively reduced extracellular matrix degradation in OA mice, cultured human OA chondrocytes, and cartilage explants by suppressing ALK1/Smad1/5 signaling. These findings suggest that targeting FSCN1 represents a promising therapeutic approach for OA.
Single-cell and spatial proteo-transcriptomic profiling reveals immune infiltration heterogeneity associated with neuroendocrine features in small cell lung cancer
Authors: Jin Ying , Wu Yuefeng , Reuben Alexandre , Zhu Liang , Gay Carl M. , Wu Qingzhe , Zhou Xintong , Mo Haomin , Zheng Qi , Ren Junyu , Fang Zhaoyuan , Peng Teng , Wang Nan , Ma Liang ,   Lungevity PANSHI Initiative Consortium, Wu Yuefeng , Fan Yun , Song Hai , Zhang Jianjun , Chen Ming 
Published: September 2024

AbstractSmall cell lung cancer (SCLC) is an aggressive pulmonary neuroendocrine malignancy featured by cold tumor immune microenvironment (TIME), limited benefit from immunotherapy, and poor survival. The spatial heterogeneity of TIME significantly associated with anti-tumor immunity has not been systemically studied in SCLC. We performed ultra-high-plex Digital Spatial Profiling on 132 tissue microarray cores from 44 treatment-naive limited-stage SCLC tumors. Incorporating single-cell RNA-sequencing data from a local cohort and published SCLC data, we established a spatial proteo-transcriptomic landscape covering over 18,000 genes and 60 key immuno-oncology proteins that participate in signaling pathways affecting tumorigenesis, immune regulation, and cancer metabolism across 3 pathologically defined spatial compartments (pan-CK-positive tumor nest; CD45/CD3-positive tumor stroma; para-tumor). Our study depicted the spatial transcriptomic and proteomic TIME architecture of SCLC, indicating clear intra-tumor heterogeneity dictated via canonical neuroendocrine subtyping markers; revealed the enrichment of innate immune cells and functionally impaired B cells in tumor nest and suggested potentially important immunoregulatory roles of monocytes/macrophages. We identified RE1 silencing factor (REST) as a potential biomarker for SCLC associated with low neuroendocrine features, more active anti-tumor immunity, and prolonged survival.
Effects of electric vehicle charging stations on the economic vitality of local businesses
Authors: Zheng Yunhan , Keith David R. , Wang Shenhao , Diao Mi , Zhao Jinhua 
Published: September 2024

AbstractElectric vehicle charging stations (EVCS) are essential for promoting cleaner transportation by facilitating electric vehicle recharging. This study explores their broader economic impact on nearby businesses, analyzing data from over 4000 EVCS and 140,000 business establishments in California. Results show that installing one EVCS boosts annual spending at a nearby establishment by 1.4% ($1,478) in 2019 and 0.8% ($404) from January 2021 to June 2023. The effect is more pronounced when a point of interest (POI) is within 100 meters of an EVCS, with spending increasing by 2.7% in 2019 and 3.2% from January 2021 to June 2023 for that POI. Public EVCS tend to attract higher-income, exploratory visitors, and local residents. Moreover, they notably enhance businesses in underprivileged areas, defined as disadvantaged and/or low-income areas designated by both California and Justice40, indicating the importance of expanding EVCS in such communities. This study highlights EVCS as drivers of local economic growth and stresses the economic benefits of multi-host EVCS setups.
Sex differences in functional cortical organization reflect differences in network topology rather than cortical morphometry
Authors: Serio Bianca , Hettwer Meike D. , Wiersch Lisa , Bignardi Giacomo , Sacher Julia , Weis Susanne , Eickhoff Simon B. , Valk Sofie L. 
Published: September 2024

AbstractDifferences in brain size between the sexes are consistently reported. However, the consequences of this anatomical difference on sex differences in intrinsic brain function remain unclear. In the current study, we investigate whether sex differences in intrinsic cortical functional organization may be associated with differences in cortical morphometry, namely different measures of brain size, microstructure, and the geodesic distance of connectivity profiles. For this, we compute a low dimensional representation of functional cortical organization, the sensory-association axis, and identify widespread sex differences. Contrary to our expectations, sex differences in functional organization do not appear to be systematically associated with differences in total surface area, microstructural organization, or geodesic distance, despite these morphometric properties being per se associated with functional organization and differing between sexes. Instead, functional sex differences in the sensory-association axis are associated with differences in functional connectivity profiles and network topology. Collectively, our findings suggest that sex differences in functional cortical organization extend beyond sex differences in cortical morphometry.
Engineered dissipation to mitigate barren plateaus
Authors: Sannia Antonio , Tacchino Francesco , Tavernelli Ivano , Giorgi Gian Luca , Zambrini Roberta 
Published: September 2024

AbstractVariational quantum algorithms represent a powerful approach for solving optimization problems on noisy quantum computers, with a broad spectrum of potential applications ranging from chemistry to machine learning. However, their performances in practical implementations crucially depend on the effectiveness of quantum circuit training, which can be severely limited by phenomena such as barren plateaus. While, in general, dissipation is detrimental for quantum algorithms, and noise itself can actually induce barren plateaus, here we describe how the inclusion of properly engineered Markovian losses after each unitary quantum circuit layer allows for the trainability of quantum models. We identify the required form of the dissipation processes and establish that their optimization is efficient. We benchmark the generality of our proposal in both a synthetic and a practical quantum chemistry example, demonstrating its effectiveness and potential impact across different domains.
Coassembly and binning of a twenty-year metagenomic time-series from Lake Mendota
Authors: Oliver Tiffany , Varghese Neha , Roux Simon , Schulz Frederik , Huntemann Marcel , Clum Alicia , Foster Brian , Foster Bryce , Riley Robert , LaButti Kurt , Egan Robert , Hajek Patrick , Mukherjee Supratim , Ovchinnikova Galina , Reddy T. B. K. , Calhoun Sara , Hayes Richard D. , Rohwer Robin R. , Zhou Zhichao , Daum Chris , Copeland Alex , Chen I-Min A. , Ivanova Natalia N. , Kyrpides Nikos C. , Mouncey Nigel J. , del Rio Tijana Glavina , Grigoriev Igor V. , Hofmeyr Steven , Oliker Leonid , Yelick Katherine , Anantharaman Karthik , McMahon Katherine D. , Woyke Tanja , Eloe-Fadrosh Emiley A. 
Published: September 2024

AbstractThe North Temperate Lakes Long-Term Ecological Research (NTL-LTER) program has been extensively used to improve understanding of how aquatic ecosystems respond to environmental stressors, climate fluctuations, and human activities. Here, we report on the metagenomes of samples collected between 2000 and 2019 from Lake Mendota, a freshwater eutrophic lake within the NTL-LTER site. We utilized the distributed metagenome assembler MetaHipMer to coassemble over 10 terabases (Tbp) of data from 471 individual Illumina-sequenced metagenomes. A total of 95,523,664 contigs were assembled and binned to generate 1,894 non-redundant metagenome-assembled genomes (MAGs) with ≥50% completeness and ≤10% contamination. Phylogenomic analysis revealed that the MAGs were nearly exclusively bacterial, dominated by Pseudomonadota (Proteobacteria, N = 623) and Bacteroidota (N = 321). Nine eukaryotic MAGs were identified by eukCC with six assigned to the phylum Chlorophyta. Additionally, 6,350 high-quality viral sequences were identified by geNomad with the majority classified in the phylum Uroviricota. This expansive coassembled metagenomic dataset provides an unprecedented foundation to advance understanding of microbial communities in freshwater ecosystems and explore temporal ecosystem dynamics.
Chromosome-level genome assembly of predatory Arma chinensis
Authors: Fu Luyao , Lin Changjin , Xu Wenyan , Cheng Hongmei , Liu Dianyu , Ma Le , Su Zhihan , Yan Xiaoyu , Dong Xiaolin , Liu Chenxi 
Published: September 2024

AbstractArma chinensis is a natural enemy that preys on various species and can suppress agricultural and forest pests in the orders Lepidoptera and Coleoptera. Here, we aimed to determine the genome of A. chinensis assembled at the chromosome-level using PacBio and Hi-C technologies. The assembled genome was 986 Mb, with a contig N50 of 2.40 Mb, scaffold N50 of 134.98 Mb, and BUSCO completeness of 96.10%. Hi-C data aided in anchoring the assembly onto seven chromosomes. A sequence of ~ 496.2 Mb was annotated as a repeat element, constituting 51.15% of the genome. We functionally annotated 84.79% of 20,853 predicted protein-encoding genes. This high-quality A. chinensis genome provides a novel genomic resource for future research on Pentatomidae insects.
Overtrust in AI Recommendations About Whether or Not to Kill: Evidence from Two Human-Robot Interaction Studies
Authors: Holbrook Colin , Holman Daniel , Clingo Joshua , Wagner Alan R. 
Published: September 2024

AbstractThis research explores prospective determinants of trust in the recommendations of artificial agents regarding decisions to kill, using a novel visual challenge paradigm simulating threat-identification (enemy combatants vs. civilians) under uncertainty. In Experiment 1, we compared trust in the advice of a physically embodied versus screen-mediated anthropomorphic robot, observing no effects of embodiment; in Experiment 2, we manipulated the relative anthropomorphism of virtual robots, observing modestly greater trust in the most anthropomorphic agent relative to the least. Across studies, when any version of the agent randomly disagreed, participants reversed their threat-identifications and decisions to kill in the majority of cases, substantially degrading their initial performance. Participants’ subjective confidence in their decisions tracked whether the agent (dis)agreed, while both decision-reversals and confidence were moderated by appraisals of the agent’s intelligence. The overall findings indicate a strong propensity to overtrust unreliable AI in life-or-death decisions made under uncertainty.
Skin cancer classification leveraging multi-directional compact convolutional neural network ensembles and gabor wavelets
Authors: Attallah Omneya 
Published: September 2024

AbstractSkin cancer (SC) is an important medical condition that necessitates prompt identification to ensure timely treatment. Although visual evaluation by dermatologists is considered the most reliable method, its efficacy is subjective and laborious. Deep learning-based computer-aided diagnostic (CAD) platforms have become valuable tools for supporting dermatologists. Nevertheless, current CAD tools frequently depend on Convolutional Neural Networks (CNNs) with huge amounts of deep layers and hyperparameters, single CNN model methodologies, large feature space, and exclusively utilise spatial image information, which restricts their effectiveness. This study presents SCaLiNG, an innovative CAD tool specifically developed to address and surpass these constraints. SCaLiNG leverages a collection of three compact CNNs and Gabor Wavelets (GW) to acquire a comprehensive feature vector consisting of spatial–textural–frequency attributes. SCaLiNG gathers a wide range of image details by breaking down these photos into multiple directional sub-bands using GW, and then learning several CNNs using those sub-bands and the original picture. SCaLiNG also combines attributes taken from various CNNs trained with the actual images and subbands derived from GW. This fusion process correspondingly improves diagnostic accuracy due to the thorough representation of attributes. Furthermore, SCaLiNG applies a feature selection approach which further enhances the model’s performance by choosing the most distinguishing features. Experimental findings indicate that SCaLiNG maintains a classification accuracy of 0.9170 in categorising SC subcategories, surpassing conventional single-CNN models. The outstanding performance of SCaLiNG underlines its ability to aid dermatologists in swiftly and precisely recognising and classifying SC, thereby enhancing patient outcomes.
Synthesis of nanogeopolymer adsorbent and its application and reusability in the removal of methylene blue from wastewater using response surface methodology (RSM)
Authors: Abdel Hamid E. M. , Aly H. M. , El Naggar K. A. M. 
Published: September 2024

AbstractOrganic dyestuff are mostly toxic compounds that pose serious dangers to the environment. Adsorption using low-cost adsorbents is the most favorable method for its economic aspects. Recently, geopolymers have been introduced as an effective adsorbent for dyes and heavy metals. In this investigation, the synthesis of geopolymers from fired brick waste (Homra) was studied with full characterization using X-ray Diffraction, Fourier Transform Infrared Spectroscopy, Brunauer–Emmett–Teller, Energy dispersive X-ray, Scanning electron microscope tests and Transmission electron microscopy. The synthesized nano-Homra geopolymer (NHGP) was then subjected to the removal of one of the most used basic dyes, Methylene Blue (MB). Adsorption optimization was applied using Response surface methodology to study dye adsorption by the synthesized nano-geopolymer. The independent variables studied were: temperature, contact time, and concentration of dye in the elimination process, which were varied in the range of (25–60 ℃), (10–180 min), and (20–300 mg/L) respectively. The results obtained from ANOVA indicated that the maximum removal efficiency of 95% and adsorption capacity of 80.65 mg/g at a temperature of 59 ℃, contact time of 163 min, and an initial concentration of 254 mg/L. The results showed that the data obtained from the adsorption of MB onto NHGP was compatible with the Pseudo second order (R2 = 0.9838) and Langmuir isotherm model (R2 = 0.9882).
Chemical short-range order increases the phonon heat conductivity in a refractory high-entropy alloy
Authors: Mora-Barzaga Geraudys , Urbassek Herbert M. , Deluigi Orlando R. , Pasinetti P. Marcelo , Bringa Eduardo M. 
Published: September 2024

AbstractWe study the effects of the chemical short-range order (SRO) on the thermal conductivity of the refractory high-entropy alloy HfNbTaTiZr using atomistic simulation. Samples with different degrees of chemical SRO are prepared by a Monte Carlo scheme. With increasing SRO, a tendency of forming HfTi and TiZr clusters is found. The phonon density of states is determined from the velocity auto-correlation function and chemical SRO modifies the high-frequency part of the phonon density of states. Lattice heat conductivity is calculated by non-equilibrium molecular dynamics simulations. The heat conductivity of the random alloy is lower than that of the segregated binary alloys. Phonon scattering by SRO precipitates might be expected to reduce scattering times and, therefore, decrease thermal conductivity. We find that, in contrast, due to the increase of the conductivity alongside SRO cluster percolation pathways, SRO increases the lattice heat conductivity by around 12 %. This is expected to be a general result, extending to other HEAs.
Quantifying trade-offs between therapeutic efficacy and resistance dissemination for enrofloxacin dose regimens in cattle
Authors: Chandra Deb Liton , Timsina Archana , Lenhart Suzanne , Foster Derek , Lanzas Cristina 
Published: September 2024

AbstractThe use of antimicrobial drugs in food-producing animals contributes to the selection pressure on pathogenic and commensal bacteria to become resistant. This study aims to evaluate the existence of trade-offs between treatment effectiveness, cost, and the dynamics of resistance in gut commensal bacteria. We developed a within-host ordinary differential equation model to track the dynamics of antimicrobial drug concentrations and bacterial populations in the site of infection (lung) and the gut. The model was parameterized to represent enrofloxacin treatment for bovine respiratory disease (BRD) caused by Pastereulla multocida in cattle. Three approved enrofloxacin dosing regimens were compared for their effects on resistance on P. multocida and commensal E. coli: 12.5 mg/kg and 7.5 mg/kg as a single dose, and 5 mg/kg as three doses. Additionally, we explored non-FDA-approved regimes. Our results indicated that both 12.5 mg/kg and 7.5 mg/kg as a single dose scenario increased the most the treatment costs and prevalence of P. multocida resistance in the lungs, while 5 mg/kg as three doses increased resistance in commensal E. coli bacteria in the gut the most out of the approved scenarios. A proposed non-FDA-approved scenario (7.5 mg/kg, two doses 24 h apart) showed low economic costs, minimal P. multocida, and moderate effects on resistant E. coli. Overall, the scenarios that decrease P. multocida, including resistant P. multocida did not coincide with those that decrease resistant E. coli the most, suggesting a trade-off between both outcomes. The sensitivity analysis suggests that bacterial populations were the most sensitive to drug conversion factors into plasma ($${\beta}$$
β
), elimination of the drug from the colon ($$\vartheta$$
ϑ
), fifty percent sensitive bacteria (P. multocida) killing effect ($${\text{L}}_{\text{s50}}$$

L
s50

), fifty percent of bacteria (E. coli) above ECOFF killing effect ($${\text{C}}_{\text{r50}}$$

C
r50

), and net drug transfer rate in the lung ($$\gamma$$
γ
) parameters.
Pharmacokinetic model-based assessment of factor IX prophylaxis treatment regimens in severe hemophilia B
Authors: Vandewalle Björn , Castaman Giancarlo , Álvarez-Román Maria Teresa , Ettingshausen Carmen Escuriola , Nemes László , Tomic Radovan , Martins Paulo , Rodrigues Joana F. , Pinachyan Karen 
Published: September 2024

AbstractAn important aspect of improving care for people with hemophilia B (HB) is developing optimal treatment strategies. Here we aimed to provide in-silico evidence, comparing the estimated optimal posology of factor IX (FIX) products to support the patient-physician decision-making process. A population pharmacokinetic (popPK) model-based assessment comparing the performance of FIX products (rFIX, rIX-FP, rFIXFc, N9-GP) was developed. PopPK analyses were used to determine a product’s optimal posology to target predefined steady-state FIX activity trough levels in a hypothetical population of 10,000 people with severe HB. Model-derived optimal posologies were compared across several parameters including trough levels, proportion of patients per regimen and consumption, considering 64 hypothetical patient scenarios of different FIX trough level targets and ages. Results indicated a marked difference between FIX products estimated to achieve target trough levels, consumption and dosing frequencies. rIX-FP was associated with higher trough levels than rFIX and rFIXFc, at a lower weekly dose and administration frequency, across all age groups. N9-GP use in adolescents and adults was associated with lower consumption compared with rIX-FP. Insights from this study may be utilized by clinicians to inform decision-making, by considering the model-generated estimated optimal posologies alongside multiple clinical factors and patient preferences.
Uncovering the reasons behind the failure of pastoralists in adopting climate change adaptation strategies
Authors: Sharaftmandrad Mohsen , Abedi Sarvestani Ahmad , Shahraki Mohammadreza , Hassanzadeh Nafooti Mohammad 
Published: September 2024

AbstractClimate change has caused pastoralists to face serious challenges all around the world. To reduce climate change vulnerability, adaptation strategies need to be adopted by pastoralists. In this regard, the present research was done to seek the reasons for the failure of the northeastern pastoralists of Iran in adopting climate change adaptation strategies. The study is descriptive, which conducted by a field survey. The target population included 249 pastoralists from 7 pastoral units, of whom 148 people were selected as sample size using the stratified random sampling technique. The survey instrument was a researcher-made questionnaire. The content validity and face validity of the questionnaire were checked by the experts. Convergent validity was also confirmed based on the average variance extracted (AVE). Cronbach’s α coefficient and composite reliability (CR) were used to evaluate the internal consistency of the questionnaire. The results showed that social and, regulatory and insurance components were the most critical internal and external weaknesses of the pastoralists’ failure in adopting climate change adaptation strategies, respectively. Structural equation modeling showed that external weaknesses had positive and significant effects on internal weaknesses of the pastoralists’ failure in adopting climate change adaptation strategies.