bluuebunny/crossref_metadata_2025_split huggingface dataset:
Enhancing tools in lateral flow assay for improving detection limit and working range
Authors: Taranova N A , Zherdev A V , Dzantiev B B 
Published: May 2021

Abstract
This work is directed to the estimation of the analytical parameters for improved immunochromatographic tests. A combination of 2 approaches has been proposed to decrease the detection limit of troponin T, a biomarker of acute myocardial infarction. The first approach consists of replacing spherical gold nanoparticles, which are common markers in immunochromatography, with alternative markers, such as gold nanoflowers (AuNFs). The second approach consists of the formation of large aggregates in the analytical zone from AuNFs due to the biotin–streptavidininteraction. The improved tests demonstrated a 10-fold lowering of the detection limit (1.2 ng/ml instead of 11.1 ng/ml) and a 3-fold expanding of the working range of the determined concentrations.
Volumetric dynamometer units for laboratory and field testing of tillage equipment
Authors: Gnusov M A , Lysych M N , Yu Druchinin D 
Published: May 2021

Abstract
The search for energy efficient tillage technologies and the creation of more advanced machines while reducing the cost of the final product are one of the priority goals. One step in the development of tillage implements is to develop a theoretical basis. In this case, mathematical or simulation modeling is used, but part of the work carried out in the laboratory and in the field is an integral part of the research structure. Of great importance in testing forestry equipment are dynamometer methods, which consist in measuring the forces transmitted from the engine to the machine or acting on the working bodies and parts of the machines. This is especially true for forest implements that interact not only directly with soils, but also with roots, branches, stumps and other components of forest soils. The article is presented in the form of an analysis of the structures of dynamometric installations used to conduct research on tillage equipment. Also given are the designs of installations used for research of combined machines with active working bodies, such as a forest fire engine. Particular attention is paid to structures for volumetric dynamometry (2D and 3D).
Vibration Control for the Flexible Rotor with Piezoelectric Bearings Based on the Mixed Sensitivity Robust Controller
Authors: Zhang Shuyue , Wu Jihao , Jungblut Jens , Rinderknecht Stephan 
Published: May 2021

Abstract
Active control of flexible rotors is a challenging issue in modern industries. This paper focuses on the synthesis of a mixed sensitivity robust controller for a linear parameter-varying (LPV) system. The objective is to control rotor vibration, especially when the rotor is passing the first two bending critical speeds. In the formulation of the problem for the controller, weighting functions are proposed based on the relationship between the desired shape of the open-loop transfer function and sensitivity functions of the closed-loop system. Recent research has highlighted the efficiency of mixed sensitivity robust controllers in stabilizing a wide range of magnetic bearing systems. Here, the method is extended to control the vibration of a piezoelectric bearing system. The experimental rotor features two unbalance-exited resonances within its operating range. Experimental results demonstrate good performance of the vibration reduction and the effectiveness of the design method.
Differences in Perinatal Outcomes of Birthing People in Same-Sex and Different-Sex Marriages
Authors: Downing Jae , Everett Bethany , Snowden Jonathan M 
Published: May 2021

AbstractIt is unknown whether people in same-sex relationships who give birth have different perinatal outcomes than people in different-sex relationships, despite differences in risk factors such as use of assisted reproductive technologies, obesity, smoking, and poor mental health. Marriage equality has established birth certificates as a promising new source of population-based data on births to same-sex married parents. We used birth certificate data from Massachusetts for 201,873 singletons born to married parents from 2012 to 2016. We estimated the associations of several birth outcomes with having a birth parent in a same-sex marriage using propensity score–matched and –unmatched samples. We also tested whether these associations were modified by the use of assisted reproductive technologies. People in same-sex marriages who gave birth had perinatal outcomes related to decreased fetal growth and preterm birth that were similar to those of their peers in different-sex marriages. Use of assisted reproductive technology was associated with decreased fetal growth and increased risk of preterm birth for infants with different-sex parents but not for infants with same-sex parents. More research is needed across other states and to understand why use of assisted reproductive technology is not a risk factor for poor birth outcomes for those in same-sex marriages.
The Impact of Sex Chromosome Trisomies (XXX, XXY, XYY) on Early Social Cognition: Social Orienting, Joint Attention, and Theory of Mind
Authors: Bouw N , Swaab H , Tartaglia N , van Rijn S 
Published: May 2021

AbstractObjectiveAbout 1:650–1,000 children are born with an extra X or Y chromosome (XXX; XXY; XYY), which results in a sex chromosome trisomy (SCT). This study aims to cross-sectionally investigate the impact of SCT on early social cognitive skills. Basic orienting toward social cues, joint attention, and theory of mind (ToM) in young children with SCT were evaluated.MethodAbout 105 children with SCT (range: 1–7 years old) were included in this study, as well as 96 age-matched nonclinical controls. Eyetracking paradigms were used to investigate the eye gaze patterns indicative of joint attention skills and orienting to social interactions. The ToM abilities were measured using the subtest ToM of the Developmental NEuroPSYchological Assessment, second edition, neuropsychological test battery. Recruitment and assessment took place in the Netherlands and in the United States.ResultsEyetracking results revealed difficulties in children with SCT in social orienting. These difficulties were more pronounced in children aged 3 years and older, and in boys with 47,XYY. Difficulties in joint attention were found over all age groups and karyotypes. Children with SCT showed impairments in ToM (26.3% in the [well] below expected level), increasing with age. These impairments did not differ between karyotypes.ConclusionsAn impact of SCT on social cognitive abilities was found already at an early age, indicating the need for early monitoring and support of early social cognition. Future research should explore the longitudinal trajectories of social development in order to evaluate the predictive relationships between social cognition and outcome later in life in terms of social functioning and the risk for psychopathology.
The Future of Fat Grafting
Authors: Hanson Summer E 
Published: May 2021

Abstract
One of the earliest reported cases of autologous fat grafting (AFG) was by Neuber in 1893 and consisted of the transfer of small lobules of fat from the upper arm for cicatrical depression of the face. He advocated the use of smaller grafts, noting that pieces larger than the size of a bean would form cysts. In 1895, Czerny excised a lumbar lipoma and transplanted it to the chest for breast reconstruction. Since these early reports, the knowledge base around AFG has expanded exponentially, as illustrated by the other papers within this special topic. As we embark on the next phase of AFG in the clinical setting, there are several directions which are near-clinical translation. This paper discusses future directions in fat grafting that build on optimization of our current techniques as clinical indications expand, such as supplementing purified lipoaspirate and the associated regulatory burden, or deconstructing adipose tissue to selectively use adipose graft components for a variety of regenerative indications.
A meta-analysis of the group-size effect on vigilance in mammals
Authors: Beauchamp Guy , Li Zhongqiu , Yu Cong , Bednekoff Peter A , Blumstein Daniel T 
Published: May 2021

AbstractGroup-size effects, whereby antipredator vigilance decreases as group size increases, are widely reported in mammals and birds but a meta-analysis has only been conducted in birds. We systematically reviewed the literature on mammalian group-size effects, estimated the effect sizes in each study, and conducted a phylogenetic meta-analysis. We obtained 296 effect sizes from 97 species belonging to 10 Orders and 26 Families. Overall, effect sizes indicated a moderate negative effect of group size (r = −0.44), but 43% of the effect sizes were compatible with a null effect of group size. There was significant heterogeneity in effect sizes. Weaker effect sizes occurred when vigilance was measured as a frequency or a duration rather than as a percentage of time spent vigilant, when measured in closed habitats, during the reproductive season, and in mixed-sex groups or during times when juveniles were absent. We infer a “file drawer problem” because there were relatively few studies with smaller sample sizes reporting small group-size effects. The results confirm the importance of group size in explaining variation in mammalian vigilance but also suggest which a substantial amount of variation remains unexplained. We suggest that future studies should aim to study mammalian group-size effects by quantifying the percentage of time allocated to vigilance rather than lower-power methods such as frequency or duration of vigilance.
Autoencoder-based drug–target interaction prediction by preserving the consistency of chemical properties and functions of drugs
Authors: Sun Chang , Cao Yangkun , Wei Jin-Mao , Liu Jian 
Published: May 2021

Abstract

Motivation
Exploring the potential drug–target interactions (DTIs) is a key step in drug discovery and repurposing. In recent years, predicting the probable DTIs through computational methods has gradually become a research hot spot. However, most of the previous studies failed to judiciously take into account the consistency between the chemical properties of drug and its functions. The changes of these relationships may lead to a severely negative effect on the prediction of DTIs.

Results
We propose an autoencoder-based method, AEFS, under spatial consistency constraints to predict DTIs. A heterogeneous network is established to integrate the information of drugs, proteins and diseases. The original drug features are projected to an embedding (protein) space by a multi-layer encoder, and further projected into label (disease) space by a decoder. In this process, the clinical information of drugs is introduced to assist the DTI prediction. By maintaining the distribution of drug correlation in the original feature, embedding and label space, AEFS keeps the consistency between chemical properties and functions of drugs. Experimental comparisons indicate that AEFS is more robust for imbalanced data and of significantly superior performance in DTI prediction. Case studies further confirm its ability to mine the latent DTIs.

Availability and implementation
The code of AEFS is available at https://github.com/JackieSun818/AEFS.

Supplementary information
Supplementary data are available at Bioinformatics online.
Towards an automatic analysis of CHO-K1 suspension growth in microfluidic single-cell cultivation
Authors: Stallmann Dominik , Göpfert Jan P , Schmitz Julian , Grünberger Alexander , Hammer Barbara 
Published: May 2021

Abstract

Motivation
Innovative microfluidic systems carry the promise to greatly facilitate spatio-temporal analysis of single cells under well-defined environmental conditions, allowing novel insights into population heterogeneity and opening new opportunities for fundamental and applied biotechnology. Microfluidics experiments, however, are accompanied by vast amounts of data, such as time series of microscopic images, for which manual evaluation is infeasible due to the sheer number of samples. While classical image processing technologies do not lead to satisfactory results in this domain, modern deep-learning technologies, such as convolutional networks can be sufficiently versatile for diverse tasks, including automatic cell counting as well as the extraction of critical parameters, such as growth rate. However, for successful training, current supervised deep learning requires label information, such as the number or positions of cells for each image in a series; obtaining these annotations is very costly in this setting.

Results
We propose a novel machine-learning architecture together with a specialized training procedure, which allows us to infuse a deep neural network with human-powered abstraction on the level of data, leading to a high-performing regression model that requires only a very small amount of labeled data. Specifically, we train a generative model simultaneously on natural and synthetic data, so that it learns a shared representation, from which a target variable, such as the cell count, can be reliably estimated.

Availability and implementation
The project is cross-platform, open-source and free (MIT licensed) software. We make the source code available at https://github.com/dstallmann/cell_cultivation_analysis; the dataset is available at https://pub.uni-bielefeld.de/record/2945513.
RNAcmap: a fully automatic pipeline for predicting contact maps of RNAs by evolutionary coupling analysis
Authors: Zhang Tongchuan , Singh Jaswinder , Litfin Thomas , Zhan Jian , Paliwal Kuldip , Zhou Yaoqi 
Published: May 2021

Abstract

Motivation
The accuracy of RNA secondary and tertiary structure prediction can be significantly improved by using structural restraints derived from evolutionary coupling or direct coupling analysis. Currently, these coupling analyses relied on manually curated multiple sequence alignments collected in the Rfam database, which contains 3016 families. By comparison, millions of non-coding RNA sequences are known. Here, we established RNAcmap, a fully automatic pipeline that enables evolutionary coupling analysis for any RNA sequences. The homology search was based on the covariance model built by INFERNAL according to two secondary structure predictors: a folding-based algorithm RNAfold and the latest deep-learning method SPOT-RNA.

Results
We showed that the performance of RNAcmap is less dependent on the specific evolutionary coupling tool but is more dependent on the accuracy of secondary structure predictor with the best performance given by RNAcmap (SPOT-RNA). The performance of RNAcmap (SPOT-RNA) is comparable to that based on Rfam-supplied alignment and consistent for those sequences that are not in Rfam collections. Further improvement can be made with a simple meta predictor RNAcmap (SPOT-RNA/RNAfold) depending on which secondary structure predictor can find more homologous sequences. Reliable base-pairing information generated from RNAcmap, for RNAs with high effective homologous sequences, in particular, will be useful for aiding RNA structure prediction.

Availability and implementation
RNAcmap is available as a web server at https://sparks-lab.org/server/rnacmap/ and as a standalone application along with the datasets at https://github.com/sparks-lab-org/RNAcmap_standalone. A platform independent and fully configured docker image of RNAcmap is also provided at https://hub.docker.com/r/jaswindersingh2/rnacmap.

Supplementary information
Supplementary data are available at Bioinformatics online.
Building Immigrants’ Solidarity with Police: Procedural Justice, Identity and Immigrants’ Willingness to Cooperate with Police
Authors: Murphy Kristina , Bradford Ben , Sargeant Elise , Cherney Adrian 
Published: May 2021

Abstract
Some immigrants can be reluctant to cooperate with the police due to experiences of social exclusion and discrimination. Procedural justice scholars argue that people cooperate with police when they feel the police are just and fair because such treatment motivates identification with social categories that police represent. In this paper, we consider whether immigrants in Australia respond favourably to procedurally just treatment from police because it enhances their identification with both Australia and the police. Using survey data from 903 Vietnamese, Middle Eastern and British immigrants, we demonstrate an association between police procedural justice and both modes of identification. We also find that both identities mediate the relationship between procedural justice and cooperation. The implications of these findings are discussed.
Israeli Health Care Social Workers’ Personal and Professional Concerns during the COVID-19 Pandemic Crisis: The Work–Family Role Conflict
Authors: Schiff Miriam , Shinan-Altman Shiri , Rosenne Hadas 
Published: May 2021

Abstract
This exploratory study focuses on the personal and professional concerns of Israeli social workers in hospitals and community health settings during the coronavirus (COVID-19) pandemic. Other studies omitted health care social workers’ needs and concerns. Participants included 126 social workers (120 females, 5 males and 1 other gender identity) in hospitals and community health settings who completed an online survey during the height of the first wave of COVID-19 in Israel. Measures included questions on exposure to COVID-19, sense of safety at work, perceived support, and personal and professional concerns. Two open-ended questions about the social workers’ concerns and the perceived concerns of their patients were included. The results showed that 17 per cent reported one of their inter-disciplinary team testing positive for COVID-19. Only one-third of the social workers felt safe from COVID-19 infection in their workplace. Mothers of dependent children were more concerned about income loss and about balancing work and family requirements than mothers of older children. ‘Home–work conflict’ was also a main theme in the qualitative data. In conclusion, the work–home role conflict took an especially heavy toll during the COVID-19 pandemic on social workers who were mothers to dependent children.
Influenza Vaccine Effectiveness for Prevention of Severe Influenza-Associated Illness Among Adults in the United States, 2019–2020: A Test-Negative Study
Authors: Grijalva Carlos G , Feldstein Leora R , Talbot H Keipp , Aboodi Michael , Baughman Adrienne H , Brown Samuel M , Casey Jonathan D , Erickson Heidi L , Exline Matthew C , Files D Clark , Gibbs Kevin W , Ginde Adit A , Gong Michelle N , Halasa Natasha , Khan Akram , Lindsell Christopher J , Nwosu Samuel K , Peltan Ithan D , Prekker Matthew E , Rice Todd W , Shapiro Nathan I , Steingrub Jay S , Stubblefield William B , Tenforde Mark W , Patel Manish M , Self Wesley H ,   Influenza and Other Viruses in the Acutely Ill (IVY) Network
Published: May 2021

Abstract

Background
Influenza vaccine effectiveness (VE) against a spectrum of severe disease, including critical illness and death, remains poorly characterized.

Methods
We conducted a test-negative study in an intensive care unit (ICU) network at 10 US hospitals to evaluate VE for preventing influenza-associated severe acute respiratory infection (SARI) during the 2019–2020 season, which was characterized by circulation of drifted A/H1N1 and B-lineage viruses. Cases were adults hospitalized in the ICU and a targeted number outside the ICU (to capture a spectrum of severity) with laboratory-confirmed, influenza-associated SARI. Test-negative controls were frequency-matched based on hospital, timing of admission, and care location (ICU vs non-ICU). Estimates were adjusted for age, comorbidities, and other confounders.

Results
Among 638 patients, the median (interquartile) age was 57 (44–68) years; 286 (44.8%) patients were treated in the ICU and 42 (6.6%) died during hospitalization. Forty-five percent of cases and 61% of controls were vaccinated, which resulted in an overall VE of 32% (95% CI: 2–53%), including 28% (−9% to 52%) against influenza A and 52% (13–74%) against influenza B. VE was higher in adults 18–49 years old (62%; 95% CI: 27–81%) than those aged 50–64 years (20%; −48% to 57%) and ≥65 years old (−3%; 95% CI: −97% to 46%) (P = .0789 for interaction). VE was significantly higher against influenza-associated death (80%; 95% CI: 4–96%) than nonfatal influenza illness.

Conclusions
During a season with drifted viruses, vaccination reduced severe influenza-associated illness among adults by 32%. VE was high among young adults.
Factors Associated With Readmission in the United States Following Hospitalization With Coronavirus Disease 2019
Authors: Verna Elizabeth C , Landis Charles , Brown Robert S , Mospan Andrea R , Crawford Julie M , Hildebrand Janet S , Morris Heather L , Munoz Breda , Fried Michael W , Reddy K Rajender 
Published: May 2021

Abstract

Background
Patients hospitalized for coronavirus disease 2019 (COVID-19) may experience complications following hospitalization and require readmission. In this analysis, we estimated the rate and risk factors associated with COVID-19–related readmission and inpatient mortality.

Methods
In this retrospective cohort study, we used deidentified chargemaster data from 297 hospitals across 40 US states on patients hospitalized with COVID-19 from 15 February 2020 through 9 June 2020. Demographics, comorbidities, acute conditions, and clinical characteristics of first hospitalization are summarized. Multivariable logistic regression was used to measure risk factor associations with 30-day readmission and in-hospital mortality.

Results
Among 29 659 patients, 1070 (3.6%) were readmitted. Readmitted patients were more likely to have diabetes, hypertension, cardiovascular disease (CVD), or chronic kidney disease (CKD) vs those not readmitted (P &lt; .0001) and to present on first admission with acute kidney injury (15.6% vs 9.2%), congestive heart failure (6.4% vs 2.4%), or cardiomyopathy (2.1% vs 0.8%) (P &lt; .0001). Higher odds of readmission were observed in patients aged &gt;60 vs 18–40 years (odds ratio [OR], 1.92; 95% confidence interval [CI], 1.48–2.50) and those admitted in the Northeast vs West (OR, 1.43; 95% CI, 1.14–1.79) or South (OR, 1.28; 95% CI, 1.11–1.49). Comorbidities including diabetes (OR, 1.34; 95% CI, 1.12–1.60), CVD (OR, 1.46; 95% CI, 1.23–1.72), CKD stage 1–5 (OR, 1.51; 95% CI, 1.25–1.81), and CKD stage 5 (OR, 2.27; 95% CI, 1.81–2.86) were associated with higher odds of readmission; 12.3% of readmitted patients died during second hospitalization.

Conclusions
Among this large US population of patients hospitalized with COVID-19, readmission was associated with certain comorbidities and acute conditions during first hospitalization. These findings may inform strategies to mitigate risks of readmission due to COVID-19 complications.