bluuebunny/crossref_metadata_2025_split huggingface dataset:
A novel algorithm to detect non-wear time from raw accelerometer data using deep convolutional neural networks
Authors: Syed Shaheen , Morseth Bente , Hopstock Laila A. , Horsch Alexander 
Published: April 2021

AbstractTo date, non-wear detection algorithms commonly employ a 30, 60, or even 90 mins interval or window in which acceleration values need to be below a threshold value. A major drawback of such intervals is that they need to be long enough to prevent false positives (type I errors), while short enough to prevent false negatives (type II errors), which limits detecting both short and longer episodes of non-wear time. In this paper, we propose a novel non-wear detection algorithm that eliminates the need for an interval. Rather than inspecting acceleration within intervals, we explore acceleration right before and right after an episode of non-wear time. We trained a deep convolutional neural network that was able to infer non-wear time by detecting when the accelerometer was removed and when it was placed back on again. We evaluate our algorithm against several baseline and existing non-wear algorithms, and our algorithm achieves a perfect precision, a recall of 0.9962, and an F1 score of 0.9981, outperforming all evaluated algorithms. Although our algorithm was developed using patterns learned from a hip-worn accelerometer, we propose algorithmic steps that can easily be applied to a wrist-worn accelerometer and a retrained classification model.
Peripheral endocannabinoid serum level in association with repetitive transcranial magnetic stimulation (rTMS) treatment in patients with major depressive disorder
Authors: Lazary Judit , Elemery Monika , Dome Peter , Kiss Szilvia , Gonda Xenia , Tombor Laszlo , Pogany Laszlo , Becskereki Gergely , Toth Blanka , Faludi Gabor 
Published: April 2021

AbstractRepetitive transcranial magnetic stimulation (rTMS) is an effective and well tolerable biological intervention in major depressive disorder (MDD) contributing to rapid symptom improvement. Molecular mechanisms underpinning the therapeutic effects of rTMS have still not been clarified. Recently published animal data implicated relevant associations with changes in endocannabinoid (eCB) brain levels during rTMS treatment, human studies, however, have not been published. In our study we assessed the detailed phenotypic spectrum of MDD and serum 2-arachidnoylglycerol (2-AG) and anandamide (AEA) levels in 18 patients with treatment-resistant depression before, immediately following, and two weeks after completion of a 10-day rTMS treatment. We found significant associations between serum 2-AG level changes from pretreatment to 2 weeks after treatment and symptom reduction. The greater the increase of 2-AG levels, the greater the improvement of depressive (p = 0.031), anxious (p = 0.007) and anhedonia symptoms (p = 0.047). Here we report for the first time a significant association of human circulating eCB and antidepressant effect of rTMS. Our data may indicate that direct stimulation of targeted brain areas can rapidly alleviate depressive complaints via activation of the eCB system.
Differences in host immune populations between rhesus macaques and cynomolgus macaque subspecies in relation to susceptibility to Mycobacterium tuberculosis infection
Authors: Sibley Laura , Daykin-Pont Owen , Sarfas Charlotte , Pascoe Jordan , White Andrew D. , Sharpe Sally 
Published: April 2021

AbstractRhesus (Macaca mulatta) and cynomolgus (Macaca fasicularis) macaques of distinct genetic origin are understood to vary in susceptibility to Mycobacterium tuberculosis, and therefore differences in their immune systems may account for the differences in disease control. Monocyte:lymphocyte (M:L) ratio has been identified as a risk factor for M. tuberculosis infection and is known to vary between macaque species. We aimed to characterise the constituent monocyte and lymphocyte populations between macaque species, and profile other major immune cell subsets including: CD4+ and CD8+ T-cells, NK-cells, B-cells, monocyte subsets and myeloid dendritic cells. We found immune cell subsets to vary significantly between macaque species. Frequencies of CD4+ and CD8+ T-cells and the CD4:CD8 ratio showed significant separation between species, while myeloid dendritic cells best associated macaque populations by M. tuberculosis susceptibility. A more comprehensive understanding of the immune parameters between macaque species may contribute to the identification of new biomarkers and correlates of protection.
Clinical characteristics and prognostic factors in hypertensive anterior uveitis diagnosed with polymerase chain reaction
Authors: Yoo Woong-Sun , Kim Gyu-Nam , Chung Inyoung , Cho Min-Chul , Han Yong Seop , Kang Sang Soo , Yun Seung Pil , Seo Seong-Wook , Kim Seong-Jae 
Published: April 2021

AbstractAim of the study is to report the clinical characteristics and prognostic factors in hypertensive anterior uveitis (AU) diagnosed with multiplex polymerase chain reaction (PCR). Eighty-eight eyes of 88 patients with hypertensive AU were enrolled from 2015 to 2019 in a tertiary center in South Korea. All patients underwent multiplex PCR that was performed using aqueous humor samples collected at first visit to detect the DNA of six herpesviruses. Twenty-eight (31.8%) eyes were PCR positive. Herpes simplex virus was found in 6 (6.8%) eyes, varicella-zoster virus in 7 (8.0%) eyes, cytomegalovirus in 14 (15.9%) eyes, and Epstein–Barr virus in 1 (1.1%) eye. On multivariate regression analysis, PCR positivity was significantly associated with coin-shaped keratic precipitates (odds ratio (OR) = 6.01, P = 0.044). Recurrence and final visual acuity were significantly associated with a presumed diagnosis of viral endotheliitis (OR = 21.69, P = 0.04 and OR = 6.3, P = 0.004, respectively). This study showed the importance of PCR positivity, suggesting that identification of the virus through active PCR testing could affect the course, treatment, and prognosis of hypertensive AU.
A sensitivity study on carbon nanotubes significance in Darcy–Forchheimer flow towards a rotating disk by response surface methodology
Authors: Shafiq Anum , Sindhu Tabassum Naz , Al-Mdallal Qasem M. 
Published: April 2021

AbstractThe current research explores incremental effect of thermal radiation on heat transfer improvement corresponds to Darcy–Forchheimer (DF) flow of carbon nanotubes along a stretched rotating surface using RSM. Casson carbon nanotubes’ constructed model in boundary layer flow is being investigated with implications of both single-walled CNTs and multi-walled CNTs. Water and Ethylene glycol are considered a basic fluid. The heat transfer rate is scrutinized via convective condition. Outcomes are observed and evaluated for both SWCNTs and MWCNTs. The Runge–Kutta Fehlberg technique of shooting is utilized to numerically solve transformed nonlinear ordinary differential system. The output parameters of interest are presumed to depend on governing input variables. In addition, sensitivity study is incorporated. It is noted that sensitivity of SFC via SWCNT-Water becomes higher by increasing values of permeability number. Additionaly, sensitivity of SFC via SWCNT-water towards the permeability number is higher than the solid volume fraction for medium and higher permeability levels. It is also noted that sensitivity of SFC (SWCNT-Ethylene-glycol) towards volume fraction is higher for increasing permeability as well as inertia coefficient. Additionally, the sensitivity of LNN towards the Solid volume fraction is higher than the radiation and Biot number for all levels of Biot number. The findings will provide initial direction for future device manufacturing.
Short term survival of critically ill COVID-19 Egyptian patients on assisted ventilation treated by either Dexamethasone or Tocilizumab
Authors: Rashad Alaa , Mousa Sherif , Nafady-Hego Hanaa , Nafady Asmaa , Elgendy Hamed 
Published: April 2021

AbstractTocilizumab (TCZ) and Dexamethasone are used for the treatment of critically ill COVID-19 patients. We compared the short-term survival of critically ill COVID-19 patients treated with either TCZ or Dexamethasone. 109 critically ill COVID-19 patients randomly assigned to either TCZ therapy (46 patients) or pulse Dexamethasone therapy (63 patients). Age, sex, neutrophil/ lymphocyte ratio, D-dimer, ferritin level, and CT chest pattern were comparable between groups. Kaplan–Meier survival analysis showed better survival in Dexamethasone group compared with TCZ (P = 0.002), patients didn’t need vasopressor at admission (P < 0.0001), patients on non-invasive ventilation compared to patients on mechanical ventilation (P<0.0001 ), and in patients with ground glass pattern in CT chest (P<0.0001 ) compared with those who have consolidation. Cox regression analysis showed that, TCZ therapy (HR = 2.162, 95% CI, 1.144–4.087, P <0.0001) compared with Dexamethasone group, higher neutrophil/Lymphocyte ratio (HR = 2.40, CI, 1.351–4.185, P = 0.003), lower PaO2/FiO2, 2 days after treatment, (HR = 1.147, 95% CI, 1.002–1.624, P < 0.0001) independently predicted higher probability of mortality. Dexamethasone showed better survival in severe COVID-19 compared to TCZ. Considering the risk factors mentioned here is crucial when dealing with severe COVID-19 cases.Clinical trial registration No clinicalTrials.gov: Nal protocol approved by Hospital
Authorities, for data collection and for participation in CT04519385 (19/08/2020).
Life stage-specific inbreeding depression in long-lived Pinaceae species depends on population connectivity
Authors: Ahlinder Jon , Giles Barbara E. , García-Gil M. Rosario 
Published: April 2021

AbstractInbreeding depression (ID) is a fundamental selective pressure that shapes mating systems and population genetic structures in plants. Although it has been shown that ID varies over the life stages of shorter-lived plants, less is known about how the fitness effects of inbreeding vary across life stages in long-lived species. We conducted a literature survey in the Pinaceae, a tree family known to harbour some of the highest mutational loads ever reported. Using a meta-regression model, we investigated distributions of inbreeding depression over life stages, adjusting for effects of inbreeding levels and the genetic differentiation of populations within species. The final dataset contained 147 estimates of ID across life stages from 41 studies. 44 Fst estimates were collected from 40 peer-reviewed studies for the 18 species to aid genetic differentiation modelling. Partitioning species into fragmented and well-connected groups using Fst resulted in the best way (i.e. trade-off between high goodness-of-fit of the model to the data and reduced model complexity) to incorporate genetic connectivity in the meta-regression analysis. Inclusion of a life stage term and its interaction with the inbreeding coefficient (F) dramatically increased model precision. We observed that the correlation between ID and F was significant at the earliest life stage. Although partitioning of species populations into fragmented and well-connected groups explained little of the between-study heterogeneity, the inclusion of an interaction between life stage and population differentiation revealed that populations with fragmented distributions suffered lower inbreeding depression at early embryonic stages than species with well-connected populations. There was no evidence for increased ID in late life stages in well-connected populations, although ID tended to increase across life stages in the fragmented group. These findings suggest that life stage data should be included in inbreeding depression studies and that inbreeding needs to be managed over life stages in commercial populations of long-lived plants.
Neural network predicts need for red blood cell transfusion for patients with acute gastrointestinal bleeding admitted to the intensive care unit
Authors: Shung Dennis , Huang Jessie , Castro Egbert , Tay J. Kenneth , Simonov Michael , Laine Loren , Batra Ramesh , Krishnaswamy Smita 
Published: April 2021

AbstractAcute gastrointestinal bleeding is the most common gastrointestinal cause for hospitalization. For high-risk patients requiring intensive care unit stay, predicting transfusion needs during the first 24 h using dynamic risk assessment may improve resuscitation with red blood cell transfusion in admitted patients with severe acute gastrointestinal bleeding. A patient cohort admitted for acute gastrointestinal bleeding (N = 2,524) was identified from the Medical Information Mart for Intensive Care III (MIMIC-III) critical care database and separated into training (N = 2,032) and internal validation (N = 492) sets. The external validation patient cohort was identified from the eICU collaborative database of patients admitted for acute gastrointestinal bleeding presenting to large urban hospitals (N = 1,526). 62 demographic, clinical, and laboratory test features were consolidated into 4-h time intervals over the first 24 h from admission. The outcome measure was the transfusion of red blood cells during each 4-h time interval. A long short-term memory (LSTM) model, a type of Recurrent Neural Network, was compared to a regression-based models on time-updated data. The LSTM model performed better than discrete time regression-based models for both internal validation (AUROC 0.81 vs 0.75 vs 0.75;P < 0.001)and external validation (AUROC 0.65 vs 0.56 vs 0.56;P < 0.001). A LSTM model can be used to predict the need for transfusion of packed red blood cells over the first 24 h from admission to help personalize the care of high-risk patients with acute gastrointestinal bleeding.
NK1 antagonists attenuate tau phosphorylation after blast and repeated concussive injury
Authors: Corrigan Frances , Cernak Ibolja , McAteer Kelly , Hellewell Sarah C. , Rosenfeld Jeffrey V. , Turner Renée J. , Vink Robert 
Published: April 2021

AbstractExposure to repeated concussive traumatic brain injury (TBI) and to blast-induced TBI has been associated with the potential development of the neurodegenerative condition known as chronic traumatic encephalopathy (CTE). CTE is characterized by the accumulation of hyperphosphorylated tau protein, with the resultant tau tangles thought to initiate the cognitive and behavioral manifestations that appear as the condition progresses. However, the mechanisms linking concussive and blast TBI with tau hyperphosphorylation are unknown. Here we show that single moderate TBI, repeated concussive TBI and blast-induced mild TBI all result in hyperphosphorylation of tau via a substance P mediated mechanism. Post-injury administration of a substance P, NK1 receptor antagonist attenuated the injury-induced phosphorylation of tau by modulating the activity of several key kinases including Akt, ERK1/2 and JNK, and was associated with improvement in neurological outcome. We also demonstrate that inhibition of the TRPV1 mechanoreceptor, which is linked to substance P release, attenuated injury-associated tau hyperphosphorylation, but only when it was administered prior to injury. Our results demonstrate that TBI-mediated stimulation of brain mechanoreceptors is associated with substance P release and consequent tau hyperphosphorylation, with administration of an NK1 receptor antagonist attenuating tau phosphorylation and associated neurological deficits. NK1 antagonists may thus represent a pharmacological approach to attenuate the potential development of CTE following concussive and blast TBI.
Serum syndecan-1 reflects organ dysfunction in critically ill patients
Authors: Suzuki Keiko , Okada Hideshi , Sumi Kazuyuki , Tomita Hiroyuki , Kobayashi Ryo , Ishihara Takuma , Kakino Yoshinori , Suzuki Kodai , Yoshiyama Naomasa , Yasuda Ryu , Kitagawa Yuichiro , Fukuta Tetsuya , Miyake Takahito , Okamoto Haruka , Doi Tomoaki , Yoshida Takahiro , Yoshida Shozo , Ogura Shinji , Suzuki Akio 
Published: April 2021

AbstractSyndecan-1 (SDC-1) is found in the endothelial glycocalyx and shed into the blood during systemic inflammatory conditions. We investigated organ dysfunction associated with changing serum SDC-1 levels for early detection of organ dysfunction in critically ill patients. To evaluate the effect of SDC-1 on laboratory parameters measured the day after SDC-1 measurement with consideration for repeated measures, linear mixed effects models were constructed with each parameter as an outcome variable. A total of 94 patients were enrolled, and 831 samples were obtained. Analysis using mixed effects models for repeated measures with adjustment for age and sex showed that serum SDC-1 levels measured the day before significantly affected several outcomes, including aspartate aminotransferase (AST), alanine transaminase (ALT), creatinine (CRE), blood urea nitrogen (BUN), antithrombin III, fibrin degradation products, and D-dimer. Moreover, serum SDC-1 levels of the prior day significantly modified the effect between time and several outcomes, including AST, ALT, CRE, and BUN. Additionally, increasing serum SDC-1 level was a significant risk factor for mortality. Serum SDC-1 may be a useful biomarker for daily monitoring to detect early signs of kidney, liver and coagulation system dysfunction, and may be an important risk factor for mortality in critically ill patients.
A small interfering RNA (siRNA) database for SARS-CoV-2
Authors: Medeiros Inácio Gomes , Khayat André Salim , Stransky Beatriz , Santos Sidney , Assumpção Paulo , de Souza Jorge Estefano Santana 
Published: April 2021

AbstractCoronavirus disease 2019 (COVID-19) rapidly transformed into a global pandemic, for which a demand for developing antivirals capable of targeting the SARS-CoV-2 RNA genome and blocking the activity of its genes has emerged. In this work, we presented a database of SARS-CoV-2 targets for small interference RNA (siRNA) based approaches, aiming to speed the design process by providing a broad set of possible targets and siRNA sequences. The siRNAs sequences are characterized and evaluated by more than 170 features, including thermodynamic information, base context, target genes and alignment information of sequences against the human genome, and diverse SARS-CoV-2 strains, to assess possible bindings to off-target sequences. This dataset is available as a set of four tables, available in a spreadsheet and CSV (Comma-Separated Values) formats, each one corresponding to sequences of 18, 19, 20, and 21 nucleotides length, aiming to meet the diversity of technology and expertise among laboratories around the world. A metadata table (Supplementary Table S1), which describes each feature, is also provided in the aforementioned formats. We hope that this database helps to speed up the development of new target antivirals for SARS-CoV-2, contributing to a possible strategy for a faster and effective response to the COVID-19 pandemic.
An analysis of self-ignition of mine waste dumps in terms of environmental protection in industrial areas in Poland
Authors: Smoliński Adam , Dombek Václav , Pertile Eva , Drobek Leszek , Gogola Krzysztof , Żechowska Sylwia W. , Magdziarczyk Małgorzata 
Published: April 2021

AbstractThe aim of the paper was to work out a new comprehensive methodology to monitor thermal activity at mine waste dumps. The methodology was tested through monitoring thermal phenomena occurring in the areas of extractive waste dumping facilities located in the Upper Silesian Coal Basin, Poland. Within the framework of the study, a comparative analysis of three waste dumps was performed; the first two of them, which were not previously reclaimed, are in part thermally active, whereas the third one comprises one section which was partially reclaimed and another section which is still being operated. The research objective was to observe the changes of atmospheric emissions of Polycyclic Aromatic Hydrocarbons (PAHs) from the three selected facilities within the period of 21 months of constant monitoring. The novelty of the methodology of thermal activity monitoring at burning mine waste dumps consisted in the application advanced chemometrics methods. The collected data were analyzed by means of the Hierarchical Clustering Analysis supplemented with a color map of the experimental results. Based on the newly developed methodology, it was determined that thermal processes occur in all of the three analyzed sites. The non-reclaimed waste dumps characterize of intense thermal phenomena covering the majority of the studied area. It was also observed that the most intensive thermal activity occurs in the central sections of the dumps with temperature values reaching the level of 600 °C accompanied by high emissions of PAHs. In addition, the research results demonstrate that despite the reclamation processes, there are certain areas which still remain thermally active in one of the studied extractive waste dumps. This manifested itself by high measured concentrations of all the analyzed PAHs and locally increased surface temperatures which, however, did not exceed 200 °C; the majority of the areas of the reclaimed waste dump characterized of temperatures in the range of 20–30 °C.
Regulatory T cells induce polarization of pro-repair macrophages by secreting sFGL2 into the endometriotic milieu
Authors: Hou Xin-Xin , Wang Xiao-Qiu , Zhou Wen-Jie , Li Da-Jin 
Published: April 2021

AbstractAn increased number of highly active regulatory T cells (Tregs) and macrophages has been found in peritoneal fluid from women with endometriosis. Here, we show that the level of Tregs-derived soluble fibrinogen-like protein 2 (sFGL2) increases in the peritoneal fluid of women with endometriosis. Higher expression of FGL2 and its receptor CD32B is observed in eutopic endometrium and ectopic tissues. The production of sFGL2 in Tregs may be enhanced by several cytokines. sFGL2 selectively induces pro-repair macrophage polarization mainly through the activation of the SHP2-ERK1/2-STAT3 signaling pathway, and the suppression of the NF-κB signaling pathway. Furthermore, sFGL2 induces a much higher level of metallothionein (MT) expression that in turn facilitates pro-repair macrophages polarization. sFGL2-induced pro-repair macrophages promote Th2 and Tregs differentiation, creating a positive feedback loop. These findings suggest that sFGL2 secreted by Tregs skews macrophages toward a pro-repair phenotype via SHP2-ERK1/2-STAT3 signaling pathway, which is involved in the progression of endometriosis.
Intrinsic hydroquinone-functionalized aggregation-induced emission core shows redox and pH sensitivity
Authors: Wang Mengshi , Wang Yuanheng , Hu Renjian , Yuan Jinying , Tian Mei , Zhang Xiaoyong , Shuai Zhigang , Wei Yen 
Published: April 2021

AbstractAggregation-induced emission (AIE) fluorophores exhibit strong fluorescence in an aggregated state but emit no or weak fluorescence in dilute solutions. This emerging class of AIE optical materials comprise a variety of functionalities. Here an AIE luminescence core, 1-hydroquinol-1,2,2-triphenylethene (HQTPE), has been designed and synthesized. This AIE core is simple but is fundamentally important to chemistry because of its intrinsic redox and pH activities. The incorporation of hydroquinone (HQ) moiety into a common AIE core tetraphenylethene (TPE) yields HQTPE with unique fluorescent properties like nonlinear self-quenching over most other AIE-active fluorophores (AIEgens) so far reported. There are differences of photochemical properties between HQTPE, 1-benzoquinol-1,2,2-triphenylethene (QTPE, the oxidized counterpart) and its anions. Interestingly, as the solution concentration is increased, AIEgen HQTPE shows stronger fluorescence but QTPE exhibits rapid quenching of fluorescence in a nonlinear fashion, which are in agreement with theoretical studies. The fluorescence of HQTPE is also highly dependent on the pH value of media. We have further explored HQTPE as an ultrasensitive redox probe and efficient deoxidizer, which could lead to potential applications in health care, food security, environmental monitoring, optic and electronic devices.