bluuebunny/crossref_metadata_2025_split huggingface dataset:
Efficiency of standardized ileal digestible lysine utilization for whole body protein deposition in pregnant gilts and sows during early-, mid-, and late-gestation
Authors: Ramirez-Camba Christian D , Dunn James L , Htoo John K , González-Vega Jolie C , Touchette Kevin , Samuel Ryan S , Levesque Crystal L 
Published: October 2020

Abstract
The efficiency of SID Lys utilization (kSID Lys) in gilts and sows during early (days 48 to 52), mid (days 75 to 79), and late gestation (days 103 to 107) was investigated using 88 pregnant females (PIC 1050; 27 gilts, 27 parity 1 sows, 34 parity 2+ sows; 192.96 ± 22.84 kg at days 42 ±1 of gestation) and whole body nitrogen (N) retention balance studies. Females were assigned to 1 of 4 SID Lys levels ranging from 40% to 70% of the daily SID Lys requirements above maintenance for a parity 1 sow according to the NRC (2012) gestating sow model in each gestation period. Experimental diets were isocaloric (3,335 kcal ME/kg) and isoproteic (11.75 % CP) and dietary indispensable AA were set to meet or exceed 100% of AA:Lys ratios. The slope of the linear response to graded SID Lys intake was defined as kSID Lys. With the aim of increasing the accuracy of kSID Lys estimates, gilt data from the current study was combined with gilt data from a previous study conducted at the same facility using 4 SID Lys levels ranging from 60% to 90% of the daily SID Lys requirements above maintenance for gilts according to the NRC (2012) gestating sow model. Whole body Lys retention of the combined gilt data set was assessed with different broken-line and nonlinear models. The kSID Lys was 0.65, 0.38, and 0.52 for early-, mid-, and late-gestation, respectively, in gilts. A linear response to graded SID Lys intake was found in late gestation only in parity 1 and 2+ sows; kSID Lys was determined as 0.44 and 0.52 in late gestation for parity 1 and parity 2+ sows, respectively. There were no differences in kSID Lys in late gestation between parities. For the combined gilt data, the model of best performance (reduced error and greater goodness of fit) was the Hoerl model. Maximum kSID Lys (i.e., g SID Lys retention/g SID Lys intake) in gilts was 0.67, 0.54, and 0.53 in early, mid, and late gestation predicted at 7.2, 9.1, and 13.5 g of SID Lys intake/d, respectively, based on the Hoerl model. Maximum SID Lys retention in gilts was similarly predicted at 8.5, 10.5, and 20.9 g of SID Lys intake per day in early, mid, and late gestation and resultant kSID Lys of 0.61, 0.51, and 0.44, respectively. The findings of this study demonstrate that kSID Lys varies by stage of gestation and SID Lys intake level and that, at least in gilts, a dynamic kSID adjusted for daily intake more adequately reflects biological response and hence allows more precise feeding of pregnant females.
Consumption of the Sugar Substitute Stevia Leads to Cross-Reactivity of CEDIA® Buprenorphine II Immunoassay
Authors: Plattner Sabine , Pavlic Marion , Pitterl Florian , Schubert Birthe 
Published: October 2020

Abstract
Buprenorphine is a semisynthetic opioid that is often used in opiate maintenance therapy. For this purpose, regular toxicological analyses of urine samples are mandatory. For fast analytical results, analyses are commonly performed by immunoassay, for example, Thermo Scientific™ CEDIA® Buprenorphine or Buprenorphine II assay. One drawback of immunoassay-based methods is the possible cross-reaction with other substances. Several drugs have already been checked for cross-reactivity to CEDIA® Buprenorphine II immunoassay. In contrast, cross-reactivities have not been checked for any food additives. In the present study, a cross-reaction of CEDIA® Buprenorphine II assay to steviol glucuronide was investigated. Steviol glucuronide is a phase II metabolite of the sugar substitute stevia. For our study, 32 urine samples of patients in rehabilitation centers were collected. These samples were tested positive with the CEDIA® Buprenorphine II immunoassay. These findings were suspicious, because it was highly unlikely that the patients in those institutions had access to buprenorphine. The absence or presence of buprenorphine in urine samples was evaluated by a validated gas chromatography–mass spectrometry method. In order to determine the concentration of steviol glucuronide in urine samples, a liquid chromatography–tandem mass spectrometry method has been developed and fully validated according to the respective guidelines of the German Society of Toxicological and Forensic Chemistry. The cross-reactivity of steviol glucuronide in the CEDIA® Buprenorphine II immunoassay was observed at concentrations above 15,000 µg/L. These findings demonstrate that food additives should also be considered as compounds that may reduce the selectivity of immunoassays and emphasize the importance of confirming implausible results by selective analytical methods.
Racial and Ethnic Differences in Multigene Hereditary Cancer Panel Test Results for Women With Breast Cancer
Authors: Yadav Siddhartha , LaDuca Holly , Polley Eric C , Hu Chunling , Niguidula Nancy , Shimelis Hermela , Lilyquist Jenna , Na Jie , Lee Kun Y , Gutierrez Stephanie , Yussuf Amal , Hart Steven N , Davis Brigette Tippin , Chao Elizabeth C , Pesaran Tina , Goldgar David E , Dolinsky Jill S , Couch Fergus J 
Published: October 2020

AbstractTo evaluate the racial and ethnic differences in prevalence of germline pathogenic variants (PVs) and the effect of race and ethnicity on breast cancer (BC) risk among carriers, results of multigene testing of 77 900 women with BC (non-Hispanic White [NHW] = 57 003; Ashkenazi-Jewish = 4798; Black = 6722; Hispanic = 5194; and Asian = 4183) were analyzed, and the frequency of PVs in each gene were compared between BC patients (cases) and race- and ethnicity-matched gnomAD reference controls. Compared with NHWs, BRCA1 PVs were enriched in Ashkenazi-Jews and Hispanics, whereas CHEK2 PVs were statistically significantly lower in Blacks, Hispanics, and Asians (all 2-sided P &lt; .05). In case-control studies, BARD1 PVs were associated with high risks (odds ratio &gt; 4.00) of BC in Blacks, Hispanics, and Asians; ATM PVs were associated with increased risk of BC among all races and ethnicities except Asians, whereas CHEK2 and BRIP1 PVs were associated with increased risk of BC among NHWs and Hispanics only. These findings suggest a need for personalized management of BC risk in PV carriers based on race and ethnicity.
Risk of Transmissibility From Neurodegenerative Disease-Associated Proteins: Experimental Knowns and Unknowns
Authors: Asher David M , Belay Ermias , Bigio Eileen , Brandner Sebastian , Brubaker Scott A , Caughey Byron , Clark Brychan , Damon Inger , Diamond Marc , Freund Michelle , Hyman Bradley T , Jucker Mathias , Keene C Dirk , Lieberman Andrew P , Mackiewicz Miroslaw , Montine Thomas J , Morgello Susan , Phelps Creighton , Safar Jiri , Schneider Julie A , Schonberger Lawrence B , Sigurdson Christina , Silverberg Nina , Trojanowski John Q , Frosch Matthew P 
Published: October 2020

Abstract
Recent studies in animal models demonstrate that certain misfolded proteins associated with neurodegenerative diseases can support templated misfolding of cognate native proteins, to propagate across neural systems, and to therefore have some of the properties of classical prion diseases like Creutzfeldt-Jakob disease. The National Institute of Aging convened a meeting to discuss the implications of these observations for research priorities. A summary of the discussion is presented here, with a focus on limitations of current knowledge, highlighting areas that appear to require further investigation in order to guide scientific practice while minimizing potential exposure or risk in the laboratory setting. The committee concluded that, based on all currently available data, although neurodegenerative disease-associated aggregates of several different non-prion proteins can be propagated from humans to experimental animals, there is currently insufficient evidence to suggest more than a negligible risk, if any, of a direct infectious etiology for the human neurodegenerative disorders defined in part by these proteins. Given the importance of this question, the potential for noninvasive human transmission of proteopathic disorders is deserving of further investigation.
Epidemiology and Mortality of Early-Onset Neonatal Sepsis in Suriname: A 2-Year Surveillance Study
Authors: Achten Niek B , Juliana Amadu E , Lissone Neirude P , Sinnige Jan C , Holband Natanael , Zonneveld Rens , Plötz Frans B 
Published: October 2020

Abstract
We conducted a nationwide surveillance study to produce reliable national estimates on incidence, etiology, and mortality of early-onset neonatal sepsis (EONS) in Suriname. The estimated national population incidence rate of EONS was 1.37 (95% CI: 0.90–1.99) per 1000 live births and in-hospital mortality was 25.9%.
The serious complications of frontal sinusitis, a case series and literature review
Authors: Al Yaeesh Ibrahim , AlOmairin Ahmed , Al Shakhs Abdullah , Almomen Ali , Almomen Zahra , AlBahr Abdulelah , AlNaim Abdulrahman , Al Abdulgader Abdulrahman , Alawadh Abdullah 
Published: October 2020

Abstract
The aim of this study is to illustrate the managements of different clinical and radiological presentations of serious complications of frontal sinusitis diagnosed and managed at the tertiary referral hospital. A case series study conducted at the tertiary referral in the period from 2012 to 2019. Four different cases of serious complications of frontal sinusitis namely orbital abscess, frontal meningitis, subdural empyema and frontal lobe abscess will be presented and discussed. Despite the generous use of antibiotics, the serious complications of frontal sinusitis still develop. The serious complications of frontal sinusitis ranges from orbital abscess to frank frontal lobe abscess. The management is a combination of systemic antibiotics and surgical drainage with excellent outcomes.
HumanMetagenomeDB: a public repository of curated and standardized metadata for human metagenomes
Authors: Kasmanas Jonas Coelho , Bartholomäus Alexander , Corrêa Felipe Borim , Tal Tamara , Jehmlich Nico , Herberth Gunda , von Bergen Martin , Stadler Peter F , Carvalho André Carlos Ponce de Leon Ferreira de , Nunes da Rocha Ulisses 
Published: October 2020

Abstract
Metagenomics became a standard strategy to comprehend the functional potential of microbial communities, including the human microbiome. Currently, the number of metagenomes in public repositories is increasing exponentially. The Sequence Read Archive (SRA) and the MG-RAST are the two main repositories for metagenomic data. These databases allow scientists to reanalyze samples and explore new hypotheses. However, mining samples from them can be a limiting factor, since the metadata available in these repositories is often misannotated, misleading, and decentralized, creating an overly complex environment for sample reanalysis. The main goal of the HumanMetagenomeDB is to simplify the identification and use of public human metagenomes of interest. HumanMetagenomeDB version 1.0 contains metadata of 69 822 metagenomes. We standardized 203 attributes, based on standardized ontologies, describing host characteristics (e.g. sex, age and body mass index), diagnosis information (e.g. cancer, Crohn's disease and Parkinson), location (e.g. country, longitude and latitude), sampling site (e.g. gut, lung and skin) and sequencing attributes (e.g. sequencing platform, average length and sequence quality). Further, HumanMetagenomeDB version 1.0 metagenomes encompass 58 countries, 9 main sample sites (i.e. body parts), 58 diagnoses and multiple ages, ranging from just born to 91 years old. The HumanMetagenomeDB is publicly available at https://webapp.ufz.de/hmgdb/.
RiboDiPA: a novel tool for differential pattern analysis in Ribo-seq data
Authors: Li Keren , Hope C Matthew , Wang Xiaozhong A , Wang Ji-Ping 
Published: October 2020

AbstractRibosome profiling, also known as Ribo-seq, has become a popular approach to investigate regulatory mechanisms of translation in a wide variety of biological contexts. Ribo-seq not only provides a measurement of translation efficiency based on the relative abundance of ribosomes bound to transcripts, but also has the capacity to reveal dynamic and local regulation at different stages of translation based on positional information of footprints across individual transcripts. While many computational tools exist for the analysis of Ribo-seq data, no method is currently available for rigorous testing of the pattern differences in ribosome footprints. In this work, we develop a novel approach together with an R package, RiboDiPA, for Differential Pattern Analysis of Ribo-seq data. RiboDiPA allows for quick identification of genes with statistically significant differences in ribosome occupancy patterns for model organisms ranging from yeast to mammals. We show that differential pattern analysis reveals information that is distinct and complimentary to existing methods that focus on translational efficiency analysis. Using both simulated Ribo-seq footprint data and three benchmark data sets, we illustrate that RiboDiPA can uncover meaningful pattern differences across multiple biological conditions on a global scale, and pinpoint characteristic ribosome occupancy patterns at single codon resolution.
CSEA-DB: an omnibus for human complex trait and cell type associations
Authors: Dai Yulin , Hu Ruifeng , Manuel Astrid Marilyn , Liu Andi , Jia Peilin , Zhao Zhongming 
Published: October 2020

Abstract
During the past decade, genome-wide association studies (GWAS) have identified many genetic variants with susceptibility to several thousands of complex diseases or traits. The genetic regulation of gene expression is highly tissue-specific and cell type-specific. Recently, single-cell technology has paved the way to dissect cellular heterogeneity in human tissues. Here, we present a reference database for GWAS trait-associated cell type-specificity, named Cell type-Specific Enrichment Analysis DataBase (CSEA-DB, available at https://bioinfo.uth.edu/CSEADB/). Specifically, we curated total of 5120 GWAS summary statistics data for a wide range of human traits and diseases followed by rigorous quality control. We further collected &gt;900 000 cells from the leading consortia such as Human Cell Landscape, Human Cell Atlas, and extensive literature mining, including 752 tissue cell types from 71 adult and fetal tissues across 11 human organ systems. The tissues and cell types were annotated with Uberon and Cell Ontology. By applying our deTS algorithm, we conducted 10 250 480 times of trait-cell type associations, reporting a total of 598 (11.68%) GWAS traits with at least one significantly associated cell type. In summary, CSEA-DB could serve as a repository of association map for human complex traits and their underlying cell types, manually curated GWAS, and single-cell transcriptome resources.
The receptor activator of nuclear factor κΒ ligand receptor leucine-rich repeat-containing G-protein-coupled receptor 4 contributes to parathyroid hormone-induced vascular calcification
Authors: Carrillo-López Natalia , Martínez-Arias Laura , Alonso-Montes Cristina , Martín-Carro Beatriz , Martín-Vírgala Julia , Ruiz-Ortega Marta , Fernández-Martín José Luis , Dusso Adriana S , Rodriguez-García Minerva , Naves-Díaz Manuel , Cannata-Andía Jorge B , Panizo Sara 
Published: October 2020

AbstractBackgroundIn chronic kidney disease, serum phosphorus (P) elevations stimulate parathyroid hormone (PTH) production, causing severe alterations in the bone–vasculature axis. PTH is the main regulator of the receptor activator of nuclear factor κB (RANK)/RANK ligand (RANKL)/osteoprotegerin (OPG) system, which is essential for bone maintenance and also plays an important role in vascular smooth muscle cell (VSMC) calcification. The discovery of a new RANKL receptor, leucine-rich repeat-containing G-protein-coupled receptor 4 (LGR4), which is important for osteoblast differentiation but with an unknown role in vascular calcification (VC), led us to examine the contribution of LGR4 in high P/high PTH–driven VC.MethodsIn vivo studies were conducted in subtotally nephrectomized rats fed a normal or high P diet, with and without parathyroidectomy (PTX). PTX rats were supplemented with PTH(1–34) to achieve physiological serum PTH levels. In vitro studies were performed in rat aortic VSMCs cultured in control medium, calcifying medium (CM) or CM plus 10−7 versus 10−9 M PTH.ResultsRats fed a high P diet had a significantly increased aortic calcium (Ca) content. Similarly, Ca deposition was higher in VSMCs exposed to CM. Both conditions were associated with increased RANKL and LGR4 and decreased OPG aorta expression and were exacerbated by high PTH. Silencing of LGR4 or parathyroid hormone receptor 1 (PTH1R) attenuated the high PTH–driven increases in Ca deposition. Furthermore, PTH1R silencing and pharmacological inhibition of protein kinase A (PKA), but not protein kinase C, prevented the increases in RANKL and LGR4 and decreased OPG. Treatment with PKA agonist corroborated that LGR4 regulation is a PTH/PKA-driven process.ConclusionsHigh PTH increases LGR4 and RANKL and decreases OPG expression in the aorta, thereby favouring VC. The hormone’s direct pro-calcifying actions involve PTH1R binding and PKA activation.
Prolonged and Late-Onset Symptoms of Coronavirus Disease 2019
Authors: Miyazato Yusuke , Morioka Shinichiro , Tsuzuki Shinya , Akashi Masako , Osanai Yasuyo , Tanaka Keiko , Terada Mari , Suzuki Michiyo , Kutsuna Satoshi , Saito Sho , Hayakawa Kayoko , Ohmagari Norio 
Published: October 2020

Abstract
Some patients who recover from coronavirus disease 2019 (COVID-19) have prolonged symptoms such as dyspnea, fatigue, cough, and dysosmia for longer than 120 days after symptom onset. In addition, some patients who recovered from COVID-19 reported hair loss a few months after the onset of the disease. Alopecia is a late-onset symptom of COVID-19. The cause of alopecia is unknown; however, androgenic alopecia and telogen effluvium are possible causes.
Validating Goal Attainment in Veterans Undergoing Decompressive Laminectomy: A Preliminary Study
Authors: Moehl Keelin , Newman Dave , Perera Subashan , Toto Pamela E , Weiner Debra K 
Published: October 2020

Abstract

Objective
Although decompressive laminectomy (DL) for lumbar spinal stenosis (LSS) is a common procedure among older adults, it is unclear whether surgical definitions of success translate into patient-defined success. Using goal attainment scaling (GAS) to compare goal achievement between individuals, we investigated the relationship between surgical-defined functional recovery and achievement of personalized goals in patients who underwent DL for LSS.

Participants
Twenty-eight community-dwelling veterans scheduled to undergo DL.

Methods
Participants were interviewed over the phone to set 1-year post-DL goals within 30 days before undergoing DL. Brigham Spinal Stenosis (BSS) score, comorbidities, cognitive function, and psychological factors also were assessed. GAS and BSS were repeated 1 year after DL. GAS scores were transformed into GAS-T scores (T-score transformation) to standardize achievement between patients and GAS-T change scores to compare study variables.

Results
Seventeen of 28 participants had successful DL outcomes by BSS standards, though none of the participants achieved all of their GAS goals, with follow-up GAS-T scores averaging 44.5 ± 16.8. All three BSS scales positively correlated with GAS-T change scores: severity change r = 0.52, P = 0.005; physical function change r = 0.51, P = 0.006; and satisfaction r = 0.70, P &lt; 0.001. Covariate analysis revealed a negative correlation between GAS-T change score and fear-avoidance beliefs: r = -0.41, P = -0.029.

Conclusion
There was congruent validity between GAS and the BSS in older veterans undergoing DL for LSS. Given the need for patient-centered care in older adults, future investigations exploring GAS in larger studies that target additional pain conditions and include participants with greater demographic diversity are warranted.
Regular police officer perspectives on the Special Constabulary: An exploratory study
Authors: Britton Iain , Callender Matthew , Cahalin Kathryn , Knight Laura 
Published: October 2020

Abstract
A substantial body of research engaging volunteer Special Constables has reflected the importance for them of relationships and integration with their Regular, paid police officer colleagues. This article looks at this professional relationship from the other side, drawing upon 1,382 responses to an online survey of Regular police officers undertaken across five police forces in England and Wales. Findings point to gaps in confidence in the adequacy of recruitment, training, and initial practice competency and scepticism on leadership and strategic direction. More positive findings reflect valuing the contribution and perceptions of positive relationships. This article identifies the need for police forces to engage and involve Regular officers more constructively with the Special Constabulary. The research has a broader relevance for cultural engagement and integration across the diversity of roles in the ‘police family’, both paid and volunteer.
Visceral adiposity in patients with psoriatic arthritis and psoriasis alone and its relationship with metabolic and cardiovascular risk
Authors: Toussirot Eric , Aubin François , Desmarets Maxime , Wendling Daniel , Augé Benoit  , Gillard Jérome , Messica Olivier , Guillot Xavier , Laheurte Caroline , Monnet Elisabeth  , Dumoulin Gilles 
Published: October 2020

Abstract

Background
Fat mass distribution, especially in the abdominal visceral region, has been rarely evaluated in patients with PsA or psoriasis (PsO).

Methods
Patients with PsA and patients with PsO alone were evaluated and compared with control subjects (1:1 ratio in each patient group) matched for age, sex and BMI category. Body composition and fat distribution (android and visceral fat) were evaluated by DXA. Anthropometric measurements, disease activity and the systematic coronary risk evaluation (SCORE) cardiovascular risk were assessed. Metabolic parameters (insulin, homeostasis model assessment for insulin resistance), serum adipokines [total and high-molecular-weight adiponectin, leptin, resistin and retinol-binding protein-4 (RBP4)] were measured.

Results
Data for 52 patients with PsA and 52 patients with PsO and their respective paired controls were analysed. Android fat and visceral fat were found to be significantly higher in patients with PsO compared with their controls, while these measurements did not differ between patients with PsA and their controls. By multivariate analysis, after adjusting for age, sex and BMI, visceral fat was higher in PsO patients compared with PsA patients (P = 0.0004) and the whole group of controls (P = 0.0013). Insulin levels and HOMA-IR were increased in both PsA and PsO groups. High-molecular-weight/total adiponectin ratio was decreased in patients with PsO. RBP4 was significantly higher in both PsA and PsO patients. In patients with PsO, visceral fat strongly correlated with SCORE (r = 0.61).

Conclusion
Visceral fat accumulates more in PsO alone than in PsA. Visceral adiposity may be a more pressing concern in PsO relative to PsA.

Trial registration
The ADIPSO study (Évaluation du tissu ADIpeux et des adipokines dans le PSOriasis et le rhumatisme psoriasique et analyse de ses relations avec le risque cardiovasculaire) is a case–control study conducted in Besançon, France, and is registered on ClinicalTrials.gov under the number NCT02849795.