bluuebunny/crossref_metadata_2025_split huggingface dataset:
Promoter G-quadruplexes and transcription factors cooperate to shape the cell type-specific transcriptome
Authors: Lago Sara , Nadai Matteo , Cernilogar Filippo M. , Kazerani Maryam , Domíniguez Moreno Helena , Schotta Gunnar , Richter Sara N. 
Published: June 2021

AbstractCell identity is maintained by activation of cell-specific gene programs, regulated by epigenetic marks, transcription factors and chromatin organization. DNA G-quadruplex (G4)-folded regions in cells were reported to be associated with either increased or decreased transcriptional activity. By G4-ChIP-seq/RNA-seq analysis on liposarcoma cells we confirmed that G4s in promoters are invariably associated with high transcription levels in open chromatin. Comparing G4 presence, location and transcript levels in liposarcoma cells to available data on keratinocytes, we showed that the same promoter sequences of the same genes in the two cell lines had different G4-folding state: high transcript levels consistently associated with G4-folding. Transcription factors AP-1 and SP1, whose binding sites were the most significantly represented in G4-folded sequences, coimmunoprecipitated with their G4-folded promoters. Thus, G4s and their associated transcription factors cooperate to determine cell-specific transcriptional programs, making G4s to strongly emerge as new epigenetic regulators of the transcription machinery.
Hydrogen spillover-driven synthesis of high-entropy alloy nanoparticles as a robust catalyst for CO2 hydrogenation
Authors: Mori Kohsuke , Hashimoto Naoki , Kamiuchi Naoto , Yoshida Hideto , Kobayashi Hisayoshi , Yamashita Hiromi 
Published: June 2021

AbstractHigh-entropy alloys (HEAs) have been intensively pursued as potentially advanced materials because of their exceptional properties. However, the facile fabrication of nanometer-sized HEAs over conventional catalyst supports remains challenging, and the design of rational synthetic protocols would permit the development of innovative catalysts with a wide range of potential compositions. Herein, we demonstrate that titanium dioxide (TiO2) is a promising platform for the low-temperature synthesis of supported CoNiCuRuPd HEA nanoparticles (NPs) at 400 °C. This process is driven by the pronounced hydrogen spillover effect on TiO2 in conjunction with coupled proton/electron transfer. The CoNiCuRuPd HEA NPs on TiO2 produced in this work were found to be both active and extremely durable during the CO2 hydrogenation reaction. Characterization by means of various in situ techniques and theoretical calculations elucidated that cocktail effect and sluggish diffusion originating from the synergistic effect obtained by this combination of elements.
Developmental intestinal microbiome alterations in canine fading puppy syndrome: a prospective observational study
Authors: Tal Smadar , Tikhonov Evgenii , Aroch Itamar , Hefetz Lior , Turjeman Sondra , Koren Omry , Kuzi Sharon 
Published: June 2021

AbstractFading puppy syndrome (FPS) is a fatal condition in neonatal dogs. Intestinal microbial alterations, although never investigated, may be involved in its pathophysiology. The study examined the occurrence of FPS and its associations with dam, puppy, and husbandry characteristics, compared the intestinal microbial diversity of healthy puppies and those with FPS, and examined whether intestinal microbiomes are predictive of FPS. Day 1 and 8 post-partum (PP) rectal swabs were collected from healthy puppies and puppies which later developed FPS. Microbial compositional structure, including alpha and beta diversities and relative abundance of specific taxa were compared between groups, and microbial data was applied to a machine-learning model to assess the predictive performance of microbial indices of FPS or death. FPS occurred in 22/165 puppies (13%), with a 100% mortality rate. FPS was associated (P < 0.001) with decreased Day 1 PP puppy activity. Day 1 (P = 0.003) and 8 (P = 0.005) PP rectal beta diversities were different in puppies with FPS vs healthy ones. Increased Proteobacteria/Firmicutes ratio, increased relative abundance of Pasteurellaceae, and decreased relative abundance of Clostridia and Enterococcus were associated with FPS. A machine-learning model showed that Day 1 PP rectal microbiome composition accurately predicted FPS-related death. We found that specific rectal microbial phenotypes are associated with FPS, reflecting the significant role of microbiome alterations in this phenomenon. These findings may serve as useful microbial indices for early diagnosis of puppies at risk of FPS and may provide specific therapeutic targets.
A micro-genesis account of longer-form reinforcement learning in structured and unstructured environments
Authors: Dyson Benjamin James , Asad Ahad 
Published: June 2021

AbstractWe explored the possibility that in order for longer-form expressions of reinforcement learning (win-calmness, loss-restlessness) to manifest across tasks, they must first develop because of micro-transactions within tasks. We found no evidence of win-calmness or loss-restlessness when wins could not be maximised (unexploitable opponents), nor when the threat of win minimisation was presented (exploiting opponents), but evidence of win-calmness (but not loss-restlessness) when wins could be maximised (exploitable opponents).
PERSIANN-CCS-CDR, a 3-hourly 0.04° global precipitation climate data record for heavy precipitation studies
Authors: Sadeghi Mojtaba , Nguyen Phu , Naeini Matin Rahnamay , Hsu Kuolin , Braithwaite Dan , Sorooshian Soroosh 
Published: June 2021

AbstractAccurate long-term global precipitation estimates, especially for heavy precipitation rates, at fine spatial and temporal resolutions is vital for a wide variety of climatological studies. Most of the available operational precipitation estimation datasets provide either high spatial resolution with short-term duration estimates or lower spatial resolution with long-term duration estimates. Furthermore, previous research has stressed that most of the available satellite-based precipitation products show poor performance for capturing extreme events at high temporal resolution. Therefore, there is a need for a precipitation product that reliably detects heavy precipitation rates with fine spatiotemporal resolution and a longer period of record. Precipitation Estimation from Remotely Sensed Information using Artificial Neural Networks-Cloud Classification System-Climate Data Record (PERSIANN-CCS-CDR) is designed to address these limitations. This dataset provides precipitation estimates at 0.04° spatial and 3-hourly temporal resolutions from 1983 to present over the global domain of 60°S to 60°N. Evaluations of PERSIANN-CCS-CDR and PERSIANN-CDR against gauge and radar observations show the better performance of PERSIANN-CCS-CDR in representing the spatiotemporal resolution, magnitude, and spatial distribution patterns of precipitation, especially for extreme events.
Recommended implementation of electrical resistance tomography for conductivity mapping of metallic nanowire networks using voltage excitation
Authors: Cultrera Alessandro , Milano Gianluca , De Leo Natascia , Ricciardi Carlo , Boarino Luca , Callegaro Luca 
Published: June 2021

AbstractThe knowledge of the spatial distribution of the electrical conductivity of metallic nanowire networks (NWN) is important for tailoring the performance in applications. This work focuses on Electrical Resistance Tomography (ERT), a technique that maps the electrical conductivity of a sample from several resistance measurements performed on its border. We show that ERT can be successfully employed for NWN characterisation if a dedicated measurement protocol is employed. When applied to other materials, ERT measurements are typically performed with a constant current excitation; we show that, because of the peculiar microscopic structure and behaviour of metallic NWN, a constant voltage excitation protocols is preferable. This protocol maximises the signal to noise ratio in the resistance measurements—and thus the accuracy of ERT maps—while preventing the onset of sample alterations.
An empirical demonstration of the effect of study design on density estimations
Authors: Nawaz Muhammad Ali , Khan Barkat Ullah , Mahmood Amer , Younas Muhammad , Din Jaffar ud , Sutherland Chris 
Published: June 2021

AbstractThe simultaneous development of technology (e.g. camera traps) and statistical methods, particularly spatially capture–recapture (SCR), has improved monitoring of large mammals in recent years. SCR estimates are known to be sensitive to sampling design, yet existing recommendations about trap spacing and coverage are often not achieved, particularly for sampling wide-ranging and rare species in landscapes that allow for limited accessibility. Consequently, most camera trap studies on large wide-ranging carnivores relies on convenience or judgmental sampling, and often yields compromised results. This study attempts to highlight the importance of carefully considered sampling design for large carnivores that, because of low densities and elusive behavior, are challenging to monitor. As a motivating example, we use two years of snow leopard camera trapping data from the same areas in the high mountains of Pakistan but with vastly different camera configurations, to demonstrate that estimates of density and space use are indeed sensitive to the trapping array. A compact design, one in which cameras were placed much closer together than generally recommended and therefore have lower spatial coverage, resulted in fewer individuals observed, but more recaptures, and estimates of density and space use were inconsistent with expectations for the region. In contrast, a diffuse design, one with larger spacing and spatial coverage and more consistent with general recommendations, detected more individuals, had fewer recaptures, but generated estimates of density and space use that were in line with expectations. Researchers often opt for compact camera configurations while monitoring wide-ranging and rare species, in an attempt to maximize the encounter probabilities. We empirically demonstrate the potential for biases when sampling a small area approximately the size of a single home range—this arises from exposing fewer individuals than deemed sufficient for estimation. The smaller trapping array may also underestimate density by significantly inflating$$\sigma$$σ. On the other hand, larger trapping array with fewer detectors and poor design induces uncertainties in the estimates. We conclude that existing design recommendations have limited utility on practical grounds for devising feasible sampling designs for large ranging species, and more research on SCR designs is required that allows for integrating biological and habitat traits of large carnivores in sampling framework. We also suggest that caution should be exercised when there is a reliance on convenience sampling.
Influence of plasma treatment on SiO2/Si and Si3N4/Si substrates for large-scale transfer of graphene
Authors: Lukose R. , Lisker M. , Akhtar F. , Fraschke M. , Grabolla T. , Mai A. , Lukosius M. 
Published: June 2021

AbstractOne of the limiting factors of graphene integration into electronic, photonic, or sensing devices is the unavailability of large-scale graphene directly grown on the isolators. Therefore, it is necessary to transfer graphene from the donor growth wafers onto the isolating target wafers. In the present research, graphene was transferred from the chemical vapor deposited 200 mm Germanium/Silicon (Ge/Si) wafers onto isolating (SiO2/Si and Si3N4/Si) wafers by electrochemical delamination procedure, employing poly(methylmethacrylate) as an intermediate support layer. In order to influence the adhesion properties of graphene, the wettability properties of the target substrates were investigated in this study. To increase the adhesion of the graphene on the isolating surfaces, they were pre-treated with oxygen plasma prior the transfer process of graphene. The wetting contact angle measurements revealed the increase of the hydrophilicity after surface interaction with oxygen plasma, leading to improved adhesion of the graphene on 200 mm target wafers and possible proof-of-concept development of graphene-based devices in standard Si technologies.
Handedness effects on motor imagery during kinesthetic and visual-motor conditions
Authors: Zapała Dariusz , Iwanowicz Paulina , Francuz Piotr , Augustynowicz Paweł 
Published: June 2021

AbstractRecent studies show that during a simple movement imagery task, the power of sensorimotor rhythms differs according to handedness. However, the effects of motor imagery perspectives on these differences have not been investigated yet. Our study aimed to check how handedness impacts the activity of alpha (8–13 Hz) and beta (15–30 Hz) oscillations during creating a kinesthetic (KMI) or visual-motor (VMI) representation of movement. Forty subjects (20 right-handed and 20 left-handed) who participated in the experiment were tasked with imagining sequential finger movement from a visual or kinesthetic perspective. Both the electroencephalographic (EEG) activity and behavioral correctness of the imagery task performance were measured. After the registration, we used independent component analysis (ICA) on EEG data to localize visual- and motor-related EEG sources of activity shared by both motor imagery conditions. Significant differences were obtained in the visual cortex (the occipital ICs cluster) and the right motor-related area (right parietal ICs cluster). In comparison to right-handers who, regardless of the task, demonstrated the same pattern in the visual area, left-handers obtained higher power in the alpha waves in the VMI task and better performance in this condition. On the other hand, only the right-handed showed different patterns in the alpha waves in the right motor cortex during the KMI condition. The results indicate that left-handers imagine movement differently than right-handers, focusing on visual experience. This provides new empirical evidence on the influence of movement preferences on imagery processes and has possible future implications for research in the area of neurorehabilitation and motor imagery-based brain–computer interfaces (MI-BCIs).
Change point detection with multiple alternatives reveals parallel evaluation of the same stream of evidence along distinct timescales
Authors: Booras Alexa , Stevenson Tanner , McCormack Connor N. , Rhoads Marie E. , Hanks Timothy D. 
Published: June 2021

AbstractIn order to behave appropriately in a rapidly changing world, individuals must be able to detect when changes occur in that environment. However, at any given moment, there are a multitude of potential changes of behavioral significance that could occur. Here we investigate how knowledge about the space of possible changes affects human change point detection. We used a stochastic auditory change point detection task that allowed model-free and model-based characterization of the decision process people employ. We found that subjects can simultaneously apply distinct timescales of evidence evaluation to the same stream of evidence when there are multiple types of changes possible. Informative cues that specified the nature of the change led to improved accuracy for change point detection through mechanisms involving both the timescales of evidence evaluation and adjustments of decision bounds. These results establish three important capacities of information processing for decision making that any proposed neural mechanism of evidence evaluation must be able to support: the ability to simultaneously employ multiple timescales of evidence evaluation, the ability to rapidly adjust those timescales, and the ability to modify the amount of information required to make a decision in the context of flexible timescales.
Saccadic suppression in schizophrenia
Authors: Lencer Rebekka , Meyhöfer Inga , Triebsch Janina , Rolfes Karen , Lappe Markus , Watson Tamara 
Published: June 2021

AbstractAbout 40% of schizophrenia patients report discrete visual disturbances which could occur if saccadic suppression, the decrease of visual sensitivity around saccade onset, is impaired. Two mechanisms contribute to saccadic suppression: efference copy processing and backwards masking. Both are reportedly altered in schizophrenia. However, saccadic suppression has not been investigated in schizophrenia. 17 schizophrenia patients and 18 healthy controls performed a saccadic suppression task using a Gabor stimulus with individually adjusted contrast, which was presented within an interval 300 ms around saccade onset. Visual disturbance scores were higher in patients than controls, but saccadic suppression strength and time course were similar in both groups with lower saccadic suppression rates being similarly related to smaller saccade amplitudes. Saccade amplitudes in the saccadic suppression task were reduced in patients, in contrast to unaltered amplitudes during a saccade control task. Notably, smaller saccade amplitudes were related to higher visual disturbances scores in patients. Saccadic suppression performance was unrelated to symptom expression and antipsychotic medication. Unaltered saccadic suppression in patients suggests sufficiently intact efference copy processing and backward masking as required for this task. Instead, visual disturbances in patients may be related to restricted saccadic amplitudes arising from cognitive load while completing a task.
Experimental modeling and optimization for the reduction of hexavalent chromium in aqueous solutions using ascorbic acid
Authors: Zaib Qammer , Park Hung Suck , Kyung Daeseung 
Published: June 2021

AbstractIn this study, we investigated the reduction of toxic Cr(VI) to less toxic Cr(III) using ascorbic acid in various aqueous solutions: deionized water, synthetic soft water, synthetic hard water, and real tap water. The experiments were performed using a statistical experimental design. Response surface methodology (RSM) was used to correlate Cr(VI) reduction (response variable) with experimental parameters such as initial Cr(VI) concentration, humic acid concentration, and ascorbic acid dosage. The empirical model obtained from the experiments was used to estimate and optimize the quantity of ascorbic acid required for the reduction of ≥ 99% Cr(VI) in water. The optimized dosages of ascorbic acid were predicted and experimentally validated for > 99.5% reduction of Cr(VI) (1, 10, 20, and 100 mg/L) in the solutions. Even a solution containing an initial Cr(VI) concentration of 100 mg/L was reduced in concentration ≥ 99.9% with optimal dosage of ascorbic acid (500 mg/L) in the presence of 20 mg/L humic acid. Moreover, the reaction kinetics (kobs-Cr(VI) = 0.71 mM−1 s−1) were sufficient to reduce the ≥ 99.9% Cr(VI) in 20 min. This study sheds new light on the effect of ascorbic acid on Cr(VI) reduction, and provides knowledge fundamental to optimize treatment of Cr(VI) contaminated water to environmentally acceptable endpoints.
Genetic engineering of porcine endothelial cell lines for evaluation of human-to-pig xenoreactive immune responses
Authors: Li Ping , Walsh Julia R. , Lopez Kevin , Isidan Abdulkadir , Zhang Wenjun , Chen Angela M. , Goggins William C. , Higgins Nancy G. , Liu Jianyun , Brutkiewicz Randy R. , Smith Lester J. , Hara Hidetaka , Cooper David K. C. , Ekser Burcin 
Published: June 2021

AbstractXenotransplantation (cross-species transplantation) using genetically-engineered pig organs offers a potential solution to address persistent organ shortage. Current evaluation of porcine genetic modifications is to monitor the nonhuman primate immune response and survival after pig organ xenotransplantation. This measure is an essential step before clinical xenotransplantation trials, but it is time-consuming, costly, and inefficient with many variables. We developed an efficient approach to quickly examine human-to-pig xeno-immune responses in vitro. A porcine endothelial cell was characterized and immortalized for genetic modification. Five genes includingGGTA1,CMAH,β4galNT2,SLA-I α chain,andβ2-microglobulinthat are responsible for the production of major xenoantigens (αGal, Neu5Gc, Sda, and SLA-I) were sequentially disrupted in immortalized porcine endothelial cells using CRISPR/Cas9 technology. The elimination of αGal, Neu5Gc, Sda, and SLA-I dramatically reduced the antigenicity of the porcine cells, though the cells still retained their ability to provoke human natural killer cell activation. In summary, evaluation of human immune responses to genetically modified porcine cells in vitro provides an efficient method to identify ideal combinations of genetic modifications for improving pig-to-human compatibility, which should accelerate the application of xenotransplantation to humans.
Impact of neovascular age-related macular degeneration: burden of patients receiving therapies in Japan
Authors: Honda Shigeru , Yanagi Yasuo , Koizumi Hideki , Chen Yirong , Tanaka Satoru , Arimoto Manami , Imai Kota 
Published: June 2021

AbstractThe chronic eye disorder, neovascular age-related macular degeneration (nAMD), is a common cause of permanent vision impairment and blindness among the elderly in developed countries, including Japan. This study aimed to investigate the disease burden of nAMD patients under treatment, using data from the Japan National Health and Wellness surveys 2009–2014. Out of 147,272 respondents, 100 nAMD patients reported currently receiving treatment. Controls without nAMD were selected by 1:4 propensity score matching. Healthcare Resource Utilisation (HRU), Health-Related Quality of Life (HRQoL), and work productivity loss were compared between the groups. Regarding HRU, nAMD patients had significantly increased number of visits to any healthcare provider (HCP) (13.8 vs. 8.2), ophthalmologist (5.6 vs. 0.8), and other HCP (9.5 vs. 7.1) compared to controls after adjusting for confounding factors. Additionally, nAMD patients had reduced HRQoL and work productivity, i.e., reduced physical component summary (PCS) score (46.3 vs. 47.9), increased absenteeism (18.14% vs. 0.24%), presenteeism (23.89% vs. 12.44%), and total work productivity impairment (33.57% vs. 16.24%). The increased number of ophthalmologist visits were associated with decreased PCS score, increased presenteeism and total work productivity impairment. The current study highlighted substantial burden for nAMD patients, requiring further attention for future healthcare planning and treatment development.
Fatty acid desaturase 2 (FADS 2) rs174575 (C/G) polymorphism, circulating lipid levels and susceptibility to type-2 diabetes mellitus
Authors: Shetty Shilpa S. , Kumari N. Suchetha 
Published: June 2021

AbstractSeveral factors influence an individual’s susceptibility in inter-individual lipid changes and its role in the onset of type-2 diabetes mellitus (T2DM). Considering the above fact, the present investigation focuses on determining the association between fatty acid desaturase 2 (FADS2) rs174575 (C/G) polymorphism, circulating lipid levels and susceptibility to type-2 diabetes mellitus. As per the inclusion and exclusion criteria a total of 429 subjects (non-diabetic-216; diabetic-213) were recruited for the study. Glycemic and lipid profile status were assessed using commercially available kits. Based on the previous reports SNP rs174575 of fatty acid desaturase gene (FADS2) was selected and identified using the dbSNP database. The amplified products were sequenced by means of Sanger sequencing method. Lipid profile status and apolipoprotein levels revealed statistically significant difference between the groups. Three models were assessed namely, recessive model (CC vs CG + GG), dominant model (CC + CG vs GG) and additive model (CC vs CG vs GG). The recessive model, displayed a statistically significant variations between the circulating lipid levels in T2DM. The multivariate model with genotype (G allele carriers), triglyceride (TG) and insulin served as a predictive model. The study results potentiate the functional link between FADS2 gene polymorphism, lipid levels and type-2 diabetes mellitus.