bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cooperative supramolecular polymerization of styrylpyrenes for color-dependent circularly polarized luminescence and photocycloaddition
Authors: Yuan Wei , Chen Letian , Yuan Chuting , Zhang Zidan , Chen Xiaokai , Zhang Xiaodong , Guo Jingjing , Qian Cheng , Zhao Zujin , Zhao Yanli 
Published: December 2023

AbstractDeveloping facile and efficient methods to obtain circularly polarized luminescence (CPL) materials with a large luminescence dissymmetry factor (glum) and fluorescence quantum yield (ΦY) is attractive but still challenging. Herein, supramolecular polymerization of styrylpyrenes (R/S-PEB) is utilized to attain this aim, which can self-assemble into helical nanoribbons. Benefiting from the dominant CH-π interactions between the chromophores, the supramolecular solution of S-PEB shows remarkable blue-color CPL property (glum: 0.011, ΦY: 69%). From supramolecular solution to gel, the emission color (blue to yellow-green) and handedness of CPL (glum: –0.011 to +0.005) are concurrently manipulated, while the corresponding supramolecular chirality maintains unchanged, representing the rare example of color-dependent CPL materials. Thanks to the supramolecular confine effect, the [2 + 2] cycloaddition reaction rate of the supramolecular solution is 10.5 times higher than that of the monomeric solution. In contrast, no cycloaddition reaction occurs for the gel and assembled solid samples. Our findings provide a vision for fabricating multi-modal and high-performance CPL-active materials, paving the way for the development of advanced photo-responsive chiral systems.
Fluorescence lifetime Hong-Ou-Mandel sensing
Authors: Lyons Ashley , Zickus Vytautas , Álvarez-Mendoza Raúl , Triggiani Danilo , Tamma Vincenzo , Westerberg Niclas , Tassieri Manlio , Faccio Daniele 
Published: December 2023

AbstractFluorescence Lifetime Imaging Microscopy in the time domain is typically performed by recording the arrival time of photons either by using electronic time tagging or a gated detector. As such the temporal resolution is limited by the performance of the electronics to 100’s of picoseconds. Here, we demonstrate a fluorescence lifetime measurement technique based on photon-bunching statistics with a resolution that is only dependent on the duration of the reference photon or laser pulse, which can readily reach the 1–0.1 picosecond timescale. A range of fluorescent dyes having lifetimes spanning from 1.6 to 7 picoseconds have been here measured with only ~1 s measurement duration. We corroborate the effectiveness of the technique by measuring the Newtonian viscosity of glycerol/water mixtures by means of a molecular rotor having over an order of magnitude variability in lifetime, thus introducing a new method for contact-free nanorheology. Accessing fluorescence lifetime information at such high temporal resolution opens a doorway for a wide range of fluorescent markers to be adopted for studying yet unexplored fast biological processes, as well as fundamental interactions such as lifetime shortening in resonant plasmonic devices.
Automated classification of big X-ray diffraction data using deep learning models
Authors: Salgado Jerardo E. , Lerman Samuel , Du Zhaotong , Xu Chenliang , Abdolrahim Niaz 
Published: December 2023

AbstractIn current in situ X-ray diffraction (XRD) techniques, data generation surpasses human analytical capabilities, potentially leading to the loss of insights. Automated techniques require human intervention, and lack the performance and adaptability required for material exploration. Given the critical need for high-throughput automated XRD pattern analysis, we present a generalized deep learning model to classify a diverse set of materials’ crystal systems and space groups. In our approach, we generate training data with a holistic representation of patterns that emerge from varying experimental conditions and crystal properties. We also employ an expedited learning technique to refine our model’s expertise to experimental conditions. In addition, we optimize model architecture to elicit classification based on Bragg’s Law and use evaluation data to interpret our model’s decision-making. We evaluate our models using experimental data, materials unseen in training, and altered cubic crystals, where we observe state-of-the-art performance and even greater advances in space group classification.
The evolution of human altriciality and brain development in comparative context
Authors: Gómez-Robles Aida , Nicolaou Christos , Smaers Jeroen B. , Sherwood Chet C. 
Published: December 2023

AbstractHuman newborns are considered altricial compared with other primates because they are relatively underdeveloped at birth. However, in a broader comparative context, other mammals are more altricial than humans. It has been proposed that altricial development evolved secondarily in humans due to obstetrical or metabolic constraints, and in association with increased brain plasticity. To explore this association, we used comparative data from 140 placental mammals to measure how altriciality evolved in humans and other species. We also estimated how changes in brain size and gestation length influenced the timing of neurodevelopment during hominin evolution. Based on our data, humans show the highest evolutionary rate to become more altricial (measured as the proportion of adult brain size at birth) across all placental mammals, but this results primarily from the pronounced postnatal enlargement of brain size rather than neonatal changes. In addition, we show that only a small number of neurodevelopmental events were shifted to the postnatal period during hominin evolution, and that they were primarily related to the myelination of certain brain pathways. These results indicate that the perception of human altriciality is mostly driven by postnatal changes, and they point to a possible association between the timing of myelination and human neuroplasticity.
The role of APOBEC3B in lung tumor evolution and targeted cancer therapy resistance
Authors: Caswell Deborah R. , Gui Philippe , Mayekar Manasi K. , Law Emily K. , Pich Oriol , Bailey Chris , Boumelha Jesse , Kerr D. Lucas , Blakely Collin M. , Manabe Tadashi , Martinez-Ruiz Carlos , Bakker Bjorn , De Dios Palomino Villcas Juan , I. Vokes Natalie , Dietzen Michelle , Angelova Mihaela , Gini Beatrice , Tamaki Whitney , Allegakoen Paul , Wu Wei , Humpton Timothy J. , Hill William , Tomaschko Mona , Lu Wei-Ting , Haderk Franziska , Al Bakir Maise , Nagano Ai , Gimeno-Valiente Francisco , de Carné Trécesson Sophie , Vendramin Roberto , Barbè Vittorio , Mugabo Miriam , Weeden Clare E. , Rowan Andrew , McCoach Caroline E. , Almeida Bruna , Green Mary , Gomez Carlos , Nanjo Shigeki , Barbosa Dora , Moore Chris , Przewrocka Joanna , Black James R. M. , Grönroos Eva , Suarez-Bonnet Alejandro , Priestnall Simon L. , Zverev Caroline , Lighterness Scott , Cormack James , Olivas Victor , Cech Lauren , Andrews Trisha , Rule Brandon , Jiao Yuwei , Zhang Xinzhu , Ashford Paul , Durfee Cameron , Venkatesan Subramanian , Temiz Nuri Alpay , Tan Lisa , Larson Lindsay K. , Argyris Prokopios P. , Brown William L. , Yu Elizabeth A. , Rotow Julia K. , Guha Udayan , Roper Nitin , Yu Johnny , Vogel Rachel I. , Thomas Nicholas J. , Marra Antonio , Selenica Pier , Yu Helena , Bakhoum Samuel F. , Chew Su Kit , Reis-Filho Jorge S. , Jamal-Hanjani Mariam , Vousden Karen H. , McGranahan Nicholas , Van Allen Eliezer M. , Kanu Nnennaya , Harris Reuben S. , Downward Julian , Bivona Trever G. , Swanton Charles 
Published: December 2023

AbstractIn this study, the impact of the apolipoprotein B mRNA-editing catalytic subunit-like (APOBEC) enzyme APOBEC3B (A3B) on epidermal growth factor receptor (EGFR)-driven lung cancer was assessed. A3B expression in EGFR mutant (EGFRmut) non-small-cell lung cancer (NSCLC) mouse models constrained tumorigenesis, while A3B expression in tumors treated with EGFR-targeted cancer therapy was associated with treatment resistance. Analyses of human NSCLC models treated with EGFR-targeted therapy showed upregulation of A3B and revealed therapy-induced activation of nuclear factor kappa B (NF-κB) as an inducer of A3B expression. Significantly reduced viability was observed with A3B deficiency, and A3B was required for the enrichment of APOBEC mutation signatures, in targeted therapy-treated human NSCLC preclinical models. Upregulation of A3B was confirmed in patients with NSCLC treated with EGFR-targeted therapy. This study uncovers the multifaceted roles of A3B in NSCLC and identifies A3B as a potential target for more durable responses to targeted cancer therapy.
Dynamic encounters with red blood cells trigger splenic marginal zone B cell retention and function
Authors: Liu Dan , Winer Benjamin Y. , Chou Marissa Y. , Tam Hanson , Xu Ying , An Jinping , Gardner James M. , Cyster Jason G. 
Published: December 2023

AbstractSpleen marginal zone (MZ) B cells are important for antibody responses against blood-borne antigens. The signals they use to detect exposure to blood are not well defined. Here, using intravital two-photon microscopy in mice, we observe transient contacts between MZ B cells and red blood cells that are in flow. We show that MZ B cells use adhesion G-protein-coupled receptor ADGRE5 (CD97) for retention in the spleen. CD97 function in MZ B cells depends on its ability to undergo autoproteolytic cleavage and signaling via Gα13 and ARHGEF1. Red blood cell expression of the CD97 ligand CD55 is required for MZ B cell homeostasis. Applying a pulling force on CD97-transfected cells using an optical C-trap and CD55+ beads leads to accumulation of active RhoA and membrane retraction. Finally, we show that CD97 deficiency leads to a reduced T cell-independent IgM response. Thus, our studies provide evidence that MZ B cells use mechanosensing to position in a manner that enhances antibody responses against blood-borne antigens.
A Satellite Imagery Dataset for Long-Term Sustainable Development in United States Cities
Authors: Xi Yanxin , Liu Yu , Li Tong , Ding Jingtao , Zhang Yunke , Tarkoma Sasu , Li Yong , Hui Pan 
Published: December 2023

AbstractCities play an important role in achieving sustainable development goals (SDGs) to promote economic growth and meet social needs. Especially satellite imagery is a potential data source for studying sustainable urban development. However, a comprehensive dataset in the United States (U.S.) covering multiple cities, multiple years, multiple scales, and multiple indicators for SDG monitoring is lacking. To support the research on SDGs in U.S. cities, we develop a satellite imagery dataset using deep learning models for five SDGs containing 25 sustainable development indicators. The proposed dataset covers the 100 most populated U.S. cities and corresponding Census Block Groups from 2014 to 2023. Specifically, we collect satellite imagery and identify objects with state-of-the-art object detection and semantic segmentation models to observe cities’ bird’s-eye view. We further gather population, nighttime light, survey, and built environment data to depict SDGs regarding poverty, health, education, inequality, and living environment. We anticipate the dataset to help urban policymakers and researchers to advance SDGs-related studies, especially applying satellite imagery to monitor long-term and multi-scale SDGs in cities.
Introducing MEG-MASC a high-quality magneto-encephalography dataset for evaluating natural speech processing
Authors: Gwilliams Laura , Flick Graham , Marantz Alec , Pylkkänen Liina , Poeppel David , King Jean-Rémi 
Published: December 2023

AbstractThe “MEG-MASC” dataset provides a curated set of raw magnetoencephalography (MEG) recordings of 27 English speakers who listened to two hours of naturalistic stories. Each participant performed two identical sessions, involving listening to four fictional stories from the Manually Annotated Sub-Corpus (MASC) intermixed with random word lists and comprehension questions. We time-stamp the onset and offset of each word and phoneme in the metadata of the recording, and organize the dataset according to the ‘Brain Imaging Data Structure’ (BIDS). This data collection provides a suitable benchmark to large-scale encoding and decoding analyses of temporally-resolved brain responses to speech. We provide the Python code to replicate several validations analyses of the MEG evoked responses such as the temporal decoding of phonetic features and word frequency. All code and MEG, audio and text data are publicly available to keep with best practices in transparent and reproducible research.
Unveiling Hypothalamic Molecular Signatures via Retrograde Viral Tracing and Single-Cell Transcriptomics
Authors: Junaid Muhammad , Choe Han Kyoung , Kondoh Kunio , Lee Eun Jeong , Lim Su Bin 
Published: December 2023

AbstractDespite the importance of hypothalamic neurocircuits in regulating homeostatic and survival-related behaviors, our understanding of the intrinsic molecular identities of neural components involved in these complex multi-synaptic interactions remains limited. In this study, we constructed a Cre recombinase-dependent pseudorabies virus (PRVs) capable of crossing synapses, coupled with transcriptome analysis of single upstream neurons post-infection. By utilizing this retrograde nuclear Connect-seq (nuConnect-seq) approach, we generated a single nuclei RNA-seq (snRNA-seq) dataset of 1,533 cells derived from the hypothalamus of CRH-IRES-Cre (CRH-Cre) mice. To ensure the technical validity of our nuConnect-seq dataset, we employed a label transfer technique against an integrated reference dataset of postnatal mouse hypothalamus comprising 152,524 QC-passed cells. The uniqueness of our approach lies in the integration of diverse datasets for validation, providing a more nuanced diversity of hypothalamic cell types. The presented validated dataset may deepen our understanding of hypothalamic neurocircuits and underscore the essential role of comprehensive integrated transcriptomic data for technical validity.
Correlation between birefringence and absorption mapping in large-size Sapphire substrates for gravitational-wave interferometry
Authors: Zeidler Simon , Eisenmann Marc , Bazzan Marco , Li Pengbo , Leonardi Matteo 
Published: December 2023

AbstractIn high-sensitive laser interferometers, such as the gravitational-wave detector KAGRA, ultra-high-quality mirrors are essential. In the case of KAGRA, where cavity mirrors are cooled down to 20 K, large-size Sapphire crystals are used as the substrate for the main mirrors to achieve both a good optical quality (i.e., low absorption and uniform refractive index) and optimized thermal behavior under cryogenic temperatures. To implement the very tight optical specifications required by this demanding application, it is mandatory to test the optical homogeneity of different substrates. In order to characterize refractive-index inhomogeneities of large-size uniaxial samples such as the KAGRA Sapphire test masses, we developed a dedicated setup, allowing to resolve birefringence changes with a sensitivity in the order of $$\Delta n\approx 2 \times 10^{-10}$$

Δ
n
≈
2
×

10

-
10

and a spatial resolution of $$1\,{{{\hbox {mm}}}}^{2}$$

1

mm

2

. Moreover, the same setup allows us to simultaneously record residual absorption maps, thus allowing for a comparison between birefringence and absorption features. In this paper, we will present for the first time measurements on a KAGRA-sized Sapphire substrate which has been characterized in terms of absorption already in an earlier work. Both birefringence inhomogeneities and absorption distributions will be compared and correlations discussed.
A computational spatial whole-Cell model for hepatitis B viral infection and drug interactions
Authors: Ghaemi Zhaleh , Nafiu Oluwadara , Tajkhorshid Emad , Gruebele Martin , Hu Jianming 
Published: December 2023

AbstractDespite a vaccine, hepatitis B virus (HBV) remains a world-wide source of infections and deaths. We develop a whole-cell computational platform combining spatial and kinetic models describing the infection cycle of HBV in a hepatocyte host. We simulate key parts of the infection cycle with this whole-cell platform for 10 min of biological time, to predict infection progression, map out virus-host and virus-drug interactions. We find that starting from an established infection, decreasing the copy number of the viral envelope proteins shifts the dominant infection pathway from capsid secretion to re-importing the capsids into the nucleus, resulting in more nuclear-localized viral covalently closed circular DNA (cccDNA) and boosting transcription. This scenario can mimic the consequence of drugs designed to manipulate viral gene expression. Mutating capsid proteins facilitates capsid destabilization and disassembly at nuclear pore complexes, resulting in an increase in cccDNA copy number. However, excessive destabilization leads to premature cytoplasmic disassembly and does not increase the cccDNA counts. Finally, our simulations can predict the best drug dosage and its administration timing to reduce the cccDNA counts. Our adaptable computational platform can be parameterized to study other viruses and identify the most central viral pathways that can be targeted by drugs.
African dust transport and deposition modelling verified through a citizen science campaign in Finland
Authors: Meinander Outi , Kouznetsov Rostislav , Uppstu Andreas , Sofiev Mikhail , Kaakinen Anu , Salminen Johanna , Rontu Laura , Welti André , Francis Diana , Piedehierro Ana A. , Heikkilä Pasi , Heikkinen Enna , Laaksonen Ari 
Published: December 2023

AbstractAfrican desert dust is emitted and long-range transported with multiple effects on climate, air quality, cryosphere, and ecosystems. On 21–23 February 2021, dust from a sand and dust storm in northern Africa was transported to Finland, north of 60°N. The episode was predicted 5 days in advance by the global operational SILAM forecast, and its key features were confirmed and detailed by a retrospective analysis. The scavenging of dust by snowfall and freezing rain in Finland resulted in a rare case of substantial mineral dust contamination of snow surfaces over a large area in the southern part of the country. A citizen science campaign was set up to collect contaminated snow samples prepared according to the scientists’ instructions. The campaign gained wide national interest in television, radio, newspapers and social media, and dust samples were received from 525 locations in Finland, up to 64.3°N. The samples were utilised in investigating the ability of an atmospheric dispersion model to simulate the dust episode. The analysis confirmed that dust came from a wide Sahara and Sahel area from 5000 km away. Our results reveal the features of this rare event and demonstrate how deposition samples can be used to evaluate the skills and limitations of current atmospheric models in simulating transport of African dust towards northern Europe.
Sustainable utilization of the vegetable oil manufacturing waste product in the formulation of eco-friendly emulsifiable cutting fluids
Authors: Hassan Toka , Kandeel Eman M. , Taher M. S. , Badr Entsar E. , El-Tabei A. S. 
Published: December 2023

AbstractThe conventional Metal cutting fluids (MCFs) used are mineral-based petroleum oils that perform well but are toxic and difficult to dispose of; therefore, these are hazardous to human health as well as the environment. This issue can be solved by using natural vegetable oil-based MCF, which are readily available, environment and human-friendly, and renewable. Therefore, we synthesized various types of emulsifiers (anionic, and nonionic with different ethylene oxide units as well as mono and gemini cationic surfactants as corrosion inhibitors and biocides) based on recycled vegetable oil (RO) from spent bleaching earth (SBE), and elucidated their chemical structures by different spectroscopic techniques. The individually synthesized emulsifiers (anionic, and nonionic with different ethylene oxide units) at different ratios (8–15 by wt.%) and mixed emulsifiers (anionic/nonionic, nonionic/nonionic with different degrees of ethylene oxide) at different ratios (8–12 by wt.%) were utilized as additives in the preparation of different vegetable residual oil-based MCF formulations. The mixed emulsifiers at different ratios of nonionic/nonionic with hydrophilic-lipophilic balance (HLB) value 10 (Formulas I, II, III, and IV), and anionic/nonionic (Formula V, and VI) exhibited stable emulsions compared to individual emulsifiers. Formulas (I and VI) displayed good protection effectiveness in corrosion tests. Formula VI had better wettability (25.22 on CS, 23.68 on Al, and 22.28 on WC) and a smaller particle size (63.97 nm). Tribological properties of Formula VI were also performed. The results exhibit that Formula VI is consistent with the commercial sample. As a result, this study contributed to the resolution of one of the industry's problems
Startup process, safety and risk assessment of biomass gasification for off-grid rural electrification
Authors: Rahman Md Mashiur , Henriksen Ulrik Birk , Ciolkosz Daniel 
Published: December 2023

AbstractBiomass gasification has significantly advanced in terms of performance and is increasingly used in rural off-grid electricity applications. The downdraft gasifier is primarily used in biomass gasification applications, in which it functions as a reactor into which biomass and gasifying air are introduced to generate producer gas that is then used in an engine generator to produce electricity. However, the safety and stability of biomass gasification remain challenging and depend on several factors, such as the startup heating process, which can affect risks of fire, explosion, and toxic gas emissions. As the biomass gasification is associated with high temperatures and demands safety measures, its startup process should follow a rigorous procedure that ensures reliable operation and minimizes the risk of hazard issues. This study presents a gasifier startup heating process based on a proposed safety protocols hazard analysis. The study indicates that the heating temperature in startup processes has been identified as a critical factor due to its role in impacting safety. The findings indicate that the biomass gasification process has significant risks, including the potential for fire, explosion, and release of environmental emissions via multiple pathways. The methods proposed here could lead to reduced risk from the abovementioned issues.