bluuebunny/crossref_metadata_2025_split huggingface dataset:
People are more error-prone after committing an error
Authors: Adkins Tyler J. , Zhang Han , Lee Taraz G. 
Published: July 2024

AbstractHumans tend to slow down after making an error. A longstanding account of this post-error slowing is that people are simply more cautious. However, accuracy typically does not improve following an error, leading some researchers to suggest that an initial ‘orienting’ response may initially impair performance immediately following error. Unfortunately, characterizing the nature of this error-based impairment remains a challenge in standard tasks that use free response times. By exerting control over the timing of responses, we reveal the time course of stimulus-response processing. Participants are less accurate after an error even when given ample time to make a response. A computational model of response preparation rules out the possibility that errors lead to slower cognitive processing. Instead, we find that the efficacy of cognitive processing in producing an intended response is impaired following errors. Following an error, participants commit more slips of action that tend to be a repetition of the previous mistake. Rather than a strategic shift along a single speed-accuracy tradeoff function, post-error slowing observed in free response time tasks may be an adaptive response to impaired cognitive processing that reflects an altered relationship between the speed and accuracy of responses.
A library of 2D electronic material inks synthesized by liquid-metal-assisted intercalation of crystal powders
Authors: Wang Shengqi , Li Wenjie , Xue Junying , Ge Jifeng , He Jing , Hou Junyang , Xie Yu , Li Yuan , Zhang Hao , Sofer Zdeněk , Lin Zhaoyang 
Published: July 2024

AbstractSolution-processable 2D semiconductor inks based on electrochemical molecular intercalation and exfoliation of bulk layered crystals using organic cations has offered an alternative pathway to low-cost fabrication of large-area flexible and wearable electronic devices. However, the growth of large-piece bulk crystals as starting material relies on costly and prolonged high-temperature process, representing a critical roadblock towards practical and large-scale applications. Here we report a general liquid-metal-assisted approach that enables the electrochemical molecular intercalation of low-cost and readily available crystal powders. The resulted solution-processable MoS2 nanosheets are of comparable quality to those exfoliated from bulk crystals. Furthermore, this method can create a rich library of functional 2D electronic inks ( >50 types), including 2D wide-bandgap semiconductors of low electrical conductivity. Lastly, we demonstrated the all-solution-processable integration of 2D semiconductors with 2D conductors and 2D dielectrics for the fabrication of large-area thin-film transistors and memristors at a greatly reduced cost.
Machine learning-guided co-optimization of fitness and diversity facilitates combinatorial library design in enzyme engineering
Authors: Ding Kerr , Chin Michael , Zhao Yunlong , Huang Wei , Mai Binh Khanh , Wang Huanan , Liu Peng , Yang Yang , Luo Yunan 
Published: July 2024

AbstractThe effective design of combinatorial libraries to balance fitness and diversity facilitates the engineering of useful enzyme functions, particularly those that are poorly characterized or unknown in biology. We introduce MODIFY, a machine learning (ML) algorithm that learns from natural protein sequences to infer evolutionarily plausible mutations and predict enzyme fitness. MODIFY co-optimizes predicted fitness and sequence diversity of starting libraries, prioritizing high-fitness variants while ensuring broad sequence coverage. In silico evaluation shows that MODIFY outperforms state-of-the-art unsupervised methods in zero-shot fitness prediction and enables ML-guided directed evolution with enhanced efficiency. Using MODIFY, we engineer generalist biocatalysts derived from a thermostable cytochromecto achieve enantioselective C-B and C-Si bond formation via a new-to-nature carbene transfer mechanism, leading to biocatalysts six mutations away from previously developed enzymes while exhibiting superior or comparable activities. These results demonstrate MODIFY’s potential in solving challenging enzyme engineering problems beyond the reach of classic directed evolution.
Adult neurogenesis improves spatial information encoding in the mouse hippocampus
Authors: Frechou M. Agustina , Martin Sunaina S. , McDermott Kelsey D. , Huaman Evan A. , Gökhan Şölen , Tomé Wolfgang A. , Coen-Cagli Ruben , Gonçalves J. Tiago 
Published: July 2024

AbstractAdult neurogenesis is a unique form of neuronal plasticity in which newly generated neurons are integrated into the adult dentate gyrus in a process that is modulated by environmental stimuli. Adult-born neurons can contribute to spatial memory, but it is unknown whether they alter neural representations of space in the hippocampus. Using in vivo two-photon calcium imaging, we find that male and female mice previously housed in an enriched environment, which triggers an increase in neurogenesis, have increased spatial information encoding in the dentate gyrus. Ablating adult neurogenesis blocks the effect of enrichment and lowers spatial information, as does the chemogenetic silencing of adult-born neurons. Both ablating neurogenesis and silencing adult-born neurons decreases the calcium activity of dentate gyrus neurons, resulting in a decreased amplitude of place-specific responses. These findings are in contrast with previous studies that suggested a predominantly inhibitory action for adult-born neurons. We propose that adult neurogenesis improves representations of space by increasing the gain of dentate gyrus neurons and thereby improving their ability to tune to spatial features. This mechanism may mediate the beneficial effects of environmental enrichment on spatial learning and memory.
Comparison of uridine and N1-methylpseudouridine mRNA platforms in development of an Andes virus vaccine
Authors: Kuzmin Ivan V. , Soto Acosta Ruben , Pruitt Layne , Wasdin Perry T. , Kedarinath Kritika , Hernandez Keziah R. , Gonzales Kristyn A. , Hill Kharighan , Weidner Nicole G. , Mire Chad , Engdahl Taylor B. , Moon Woohyun J. , Popov Vsevolod , Crowe James E. , Georgiev Ivelin S. , Garcia-Blanco Mariano A. , Abbott Robert K. , Bukreyev Alexander 
Published: July 2024

AbstractThe rodent-borne Andes virus (ANDV) causes a severe disease in humans. We developed an ANDV mRNA vaccine based on the M segment of the viral genome, either with regular uridine (U-mRNA) or N1-methylpseudouridine (m1Ψ-mRNA). Female mice immunized by m1Ψ-mRNA developed slightly greater germinal center (GC) responses than U-mRNA-immunized mice. Single cell RNA and BCR sequencing of the GC B cells revealed similar levels of activation, except an additional cluster of cells exhibiting interferon response in animals vaccinated with U-mRNA but not m1Ψ-mRNA. Similar immunoglobulin class-switching and somatic hypermutations were observed in response to the vaccines. Female Syrian hamsters were immunized via a prime–boost regimen with two doses of each vaccine. The titers of glycoprotein-binding antibodies were greater for U-mRNA construct than for m1Ψ-mRNA construct; however, the titers of ANDV-neutralizing antibodies were similar. Vaccinated animals were challenged with a lethal dose of ANDV, along with a naïve control group. All control animals and two animals vaccinated with a lower dose of m1Ψ-mRNA succumbed to infection whereas other vaccinated animals survived without evidence of virus replication. The data demonstrate the development of a protective vaccine against ANDV and the lack of a substantial effect of m1Ψ modification on immunogenicity and protection in rodents.
A novel integrated extraction protocol for multi-omic studies in heavily degraded samples
Authors: Boggi Byron , Sharpen Jack D. A. , Taylor George , Drosou Konstantina 
Published: July 2024

AbstractThe combination of multi-omic techniques, such as genomics, transcriptomics, proteomics, metabolomics and epigenomics, has revolutionised studies in medical research. These techniques are employed to support biomarker discovery, better understand molecular pathways and identify novel drug targets. Despite concerted efforts in integrating omic datasets, there is an absence of protocols that integrate all four biomolecules in a single extraction process. Here, we demonstrate for the first time a minimally destructive integrated protocol for the simultaneous extraction of artificially degraded DNA, proteins, lipids and metabolites from pig brain samples. We used an MTBE-based approach to separate lipids and metabolites, followed by subsequent isolation of DNA and proteins. We have validated this protocol against standalone extraction protocols and show comparable or higher yields of all four biomolecules. This integrated protocol is key to facilitating the preservation of irreplaceable samples while promoting downstream analyses and successful data integration by removing bias from univariate dataset noise and varied distribution characteristics.
The failure mechanism of the Baishi landslide in Beichuan County, Sichuan, China
Authors: Tang Ran , Ren Suichun , Li Juntao , Feng Peng , Li Huajin , Deng Ren , Li Daxin , Kasama Kiyonobu 
Published: July 2024

AbstractThe Baishi landslide was located in the western part of Beichuan County, Sichuan Province, China. The landslide experienced multiple minor collapses at the front part, accompanying with numerous tensile cracks. To comprehensively grasp the stability conditions and predict the moment of failure of the landslide, deformation monitoring of the landslide has been carried out from the moment that the landslide was reported until it failed. This study analyzed the different phases of landslide deformation and its failure mechanism through the analysis of monitoring data. The result showed that the failure manifests both the retrogressive and advancing features. The landslide was divided into several zones based on the spatial variation of the deformation characteristics. Moreover, the improved tangential angle criterion is applied to categorize the deformation phases of a landslide. Investigating the surface displacement vectors and vector angles of landslides plays a significant role for ascertaining the failure and sliding mechanism. The monitoring results revealed that the front part of the landslide played a key role in the stability of the landslide. Therefore, the monitoring data from this zone were crucial for predicting the moment of complete landslide failure.
Rapid improvement of hepatic steatosis and liver stiffness after metabolic/bariatric surgery: a prospective study
Authors: Nixdorf Larissa , Hartl Lukas , Ströhl Stefanie , Felsenreich Daniel Moritz , Mairinger Magdalena , Jedamzik Julia , Richwien Paula , Mozayani Behrang , Semmler Georg , Balcar Lorenz , Schwarz Michael , Jachs Mathias , Dominik Nina , Bichler Christoph , Trauner Michael , Mandorfer Mattias , Reiberger Thomas , Langer Felix B. , Bauer David Josef Maria , Prager Gerhard 
Published: July 2024

AbstractMetabolic dysfunction-associated steatotic liver disease (MASLD) and related steatohepatitis (MASH) are common among obese patients and may improve after metabolic/bariatric surgery (MBS). 93 Patients undergoing MBS in 2021–2022 were prospectively enrolled. Liver stiffness measurement (LSM; via vibration-controlled transient elastography [VCTE], point [pSWE] and 2D [2DSWE] shear wave elastography) and non-invasive steatosis assessment (via controlled attenuation parameter [CAP]) were performed before (baseline [BL]) and three months (M3) after surgery. 93 patients (median age 40.9 years, 68.8% female, median BL-BMI: 46.0 kg/m2) were included. BL-liver biopsy showed MASLD in 82.8% and MASH in 34.4% of patients. At M3 the median relative total weight loss (%TWL) was 20.1% and the median BMI was 36.1 kg/m2. LSM assessed by VCTE and 2DSWE, as well as median CAP all decreased significantly from BL to M3 both in the overall cohort and among patients with MASH. There was a decrease from BL to M3 in median levels of ALT (34.0 U/L to 31 U/L; p = 0.025), gamma glutamyl transferase (BL: 30.0 to 21.0 U/L; p < 0.001) and MASLD fibrosis score (BL: − 0.97 to − 1.74; p < 0.001). Decreasing LSM and CAP, as well as liver injury markers suggest an improvement of MASLD/MASH as early as 3 months after MBS.
Eco-friendly lignin nanoparticles as antioxidant and antimicrobial material for enhanced textile production
Authors: Ali Mohamed Abdel-Shakur , Abdel-Moein Nadia Mohamed , Owis Amal Saber , Ahmed Shaimaa Elsayed , Hanafy Eman Ahmed 
Published: July 2024

AbstractNatural polymers are bioactive compounds that are used in the treatment of several disorders. Natural lignin, an amorphous polymer, offers significant potential for use as a building block in the production of bio-renovation materials. This study used an alkaline solvent technique to extract lignin from two Egyptian cotton cultivar byproducts, Giza 86 and 90. We then created nano-lignin to recycle cotton stalks into an environmentally beneficial product. The characterization of L86, L90, LNP86, and LNP90 was carried out using particle size, zeta potential, FT-IR, and TEM. Antioxidant activity using the DPPH assay and antimicrobial activity were determined for lignin and nano-lignin. Seven pathogenic bacteria (Bacillus cereus, Staphylococcus aureus, Staphylococcus sciuri, Salmonella typhi, Salmonella enterica, Escherichia coli, and Pseudomonas aeruginosa) and five mycotoxigenic fungi (Aspergillus flavus, Aspergillus ochraceus, Aspergillus niger, Fusarium proliferatum and Penicillium verrucosum) were used for antimicrobial activity. The results showed high antioxidant efficiency for LNP90, with an IC50 of 10.38 µg/mL. The antimicrobial activity showed positive growth inhibition for all studied microorganisms, with significant differences in nano-lignin compared to ordinary lignin. lignin and nano-lignin were effectively applied to treated textiles for medical purposes. The study concluded that single-use medical textiles with anti-microbial and anti-oxidant properties, made from lignin and nano-lignin, could benefit patients intolerant to antibiotics.
Dike volume derived from seismicity as a gauge of fracture toughness and propagation dynamics
Authors: Konstantinou K. I. 
Published: July 2024

AbstractThe temporal evolution of dike volume can help elucidate its propagation dynamics, however, such an estimation is possible only when there are geodetic observations available along the dike path. Here it is shown that dike volume history during eight eruptions can be reconstructed from seismic moment release using high resolution earthquake catalogs. The critical volume needed for each dike to reach the surface is simulated and compared to the accumulated volume prior to eruption in order to infer fracture toughness, a measure of resistance to fracture. It is found that fracture toughness varies between 123–833 MPa m 1/2, with larger values corresponding to longer dikes. Resistance to fracture dominates over viscous dissipation when the dikes propagate through unfractured heterogeneous material with large rigidity contrast, or when there is dike segmentation. These results can be utilized for real time monitoring of dike growth, forecasting eruption volume, and for constraining analog or numerical models of dike propagation.
Mitigating data quality challenges in ambulatory wrist-worn wearable monitoring through analytical and practical approaches
Authors: Van Der Donckt Jonas , Vandenbussche Nicolas , Van Der Donckt Jeroen , Chen Stephanie , Stojchevska Marija , De Brouwer Mathias , Steenwinckel Bram , Paemeleire Koen , Ongenae Femke , Van Hoecke Sofie 
Published: July 2024

AbstractChronic disease management and follow-up are vital for realizing sustained patient well-being and optimal health outcomes. Recent advancements in wearable technologies, particularly wrist-worn devices, offer promising solutions for longitudinal patient monitoring, replacing subjective, intermittent self-reporting with objective, continuous monitoring. However, collecting and analyzing data from wearables presents several challenges, such as data entry errors, non-wear periods, missing data, and wearable artifacts. In this work, we explore these data analysis challenges using two real-world datasets (mBrain21 and ETRI lifelog2020). We introduce practical countermeasures, including participant compliance visualizations, interaction-triggered questionnaires to assess personal bias, and an optimized pipeline for detecting non-wear periods. Additionally, we propose a visualization-oriented approach to validate processing pipelines using scalable tools such as tsflex and Plotly-Resampler. Lastly, we present a bootstrapping methodology to evaluate the variability of wearable-derived features in the presence of partially missing data segments. Prioritizing transparency and reproducibility, we provide open access to our detailed code examples, facilitating adaptation in future wearable research. In conclusion, our contributions provide actionable approaches for improving wearable data collection and analysis.
Novel application for graphene oxide-based ionanofluids in flat plate solar thermal collectors
Authors: Moulefera I. , Pastor A. R. , Fuster M. G. , Delgado-Marín J. J. , Montalbán M. G. , Rodríguez-Pastor I. , López-Pérez A. , Martin-Gullon I. , Ramallo-González A. P. , Alarcón M. , Víllora G. 
Published: July 2024

AbstractThis study presents new ionanofluids (INF) composed of 1-ethyl-3-methylimidazolium acetate ionic liquid (IL) and graphene oxide (GO) nanoparticles which have been assessed for the first time in an experimental flat plate solar thermal collector (FPSC). For this purpose, four types of INFs were synthesized, maintaining a constant concentration of GO nanoparticles dispersed in different base fluids: ionic liquid (IL/GO), a mixture of ionic liquid and water in varying concentrations (IL-water (75–25)%/GO and IL-water (50–50)%/GO), and water (Water/GO). These four INFs were characterized and their thermophysical and physicochemical properties were determined. The results indicated a 37.4% improvement in efficiency and up to a 2.5-fold increase in temperature within the collector when the IL was applied exclusively as the base fluid, compared to water. Furthermore, IL/GO demonstrated excellent stability, showing no signs of deterioration or nanoparticle precipitation two years after preparation and testing. These findings suggest that INFs based on IL and GO nanoparticles significantly enhance the efficiency of FPSC, presenting a promising option for solar energy applications and opening a new research avenue for INFs in the production of domestic hot water.
Distinct alterations in probabilistic reversal learning across at-risk mental state, first episode psychosis and persistent schizophrenia
Authors: Griffin J. D. , Diederen K. M. J. , Haarsma J. , Jarratt Barnham I. C. , Cook B. R. H. , Fernandez-Egea E. , Williamson S. , van Sprang E. D. , Gaillard R. , Vinckier F. , Goodyer I. M. ,   NSPN Consortium, Bullmore Edward , Dolan Raymond , Goodyer Ian , Fonagy Peter , Jones Peter , Chamberlain Samuel , Moutoussis Michael , Hauser Tobias , Neufeld Sharon , Romero-Garcia Rafael , Clair Michelle St , Vértes Petra , Whitaker Kirstie , Inkster Becky , Prabhu Gita , Ooi Cinly , Toseeb Umar , Widmer Barry , Bhatti Junaid , Villis Laura , Alrumaithi Ayesha , Birt Sarah , Bowler Aislinn , Cleridou Kalia , Dadabhoy Hina , Davies Emma , Firkins Ashlyn , Granville Sian , Harding Elizabeth , Hopkins Alexandra , Isaacs Daniel , King Janchai , Kokorikou Danae , Maurice Christina , McIntosh Cleo , Memarzia Jessica , Mills Harriet , O’Donnell Ciara , Pantaleone Sara , Scott Jenny , Kiddle Beatrice , Polek Ela , Fearon Pasco , Suckling John , van Harmelen Anne-Laura , Kievit Rogier , Bethlehem Richard , Murray G. K. , Fletcher P. C. 
Published: July 2024

AbstractWe used a probabilistic reversal learning task to examine prediction error-driven belief updating in three clinical groups with psychosis or psychosis-like symptoms. Study 1 compared people with at-risk mental state and first episode psychosis (FEP) to matched controls. Study 2 compared people diagnosed with treatment-resistant schizophrenia (TRS) to matched controls. The design replicated our previous work showing ketamine-related perturbations in how meta-level confidence maintained behavioural policy. We applied the same computational modelling analysis here, in order to compare the pharmacological model to three groups at different stages of psychosis. Accuracy was reduced in FEP, reflecting increased tendencies to shift strategy following probabilistic errors. The TRS group also showed a greater tendency to shift choice strategies though accuracy levels were not significantly reduced. Applying the previously-used computational modelling approach, we observed that only the TRS group showed altered confidence-based modulation of responding, previously observed under ketamine administration. Overall, our behavioural findings demonstrated resemblance between clinical groups (FEP and TRS) and ketamine in terms of a reduction in stabilisation of responding in a noisy environment. The computational analysis suggested that TRS, but not FEP, replicates ketamine effects but we consider the computational findings preliminary given limitations in performance of the model.
Comprehensive proteomic analysis of the differential expression of 62 proteins following intracortical microelectrode implantation
Authors: Song Sydney S. , Druschel Lindsey N. , Kasthuri Niveda M. , Wang Jaime J. , Conard Jacob H. , Chan E. Ricky , Acharya Abhinav P. , Capadona Jeffrey R. 
Published: July 2024

AbstractIntracortical microelectrodes (IMEs) are devices designed to be implanted into the cerebral cortex for various neuroscience and neuro-engineering applications. A critical feature of IMEs is their ability to detect neural activity from individual neurons. Currently, IMEs are limited by chronic failure, largely considered to be caused by the prolonged neuroinflammatory response to the implanted devices. Over the past few years, the characterization of the neuroinflammatory response has grown in sophistication, with the most recent advances focusing on mRNA expression following IME implantation. While gene expression studies increase our broad understanding of the relationship between IMEs and cortical tissue, advanced proteomic techniques have not been reported. Proteomic evaluation is necessary to describe the diverse changes in protein expression specific to neuroinflammation, neurodegeneration, or tissue and cellular viability, which could lead to the further development of targeted intervention strategies designed to improve IME functionality. In this study, we have characterized the expression of 62 proteins within 180 μm of the IME implant site at 4-, 8-, and 16-weeks post-implantation. We identified potential targets for immunotherapies, as well as key pathways that contribute to neuronal dieback around the IME implant.