bluuebunny/crossref_metadata_2025_split huggingface dataset:
Assessment of antinuclear antibodies by indirect immunofluorescence assay: report from a survey by the American Association of Medical Laboratory Immunologists
Authors: Peterson Lisa K. , Tebo Anne E. , Wener Mark H. , Copple Susan S. , Fritzler Marvin J. 
Published: April 2020

Abstract

Background
The indirect immunofluorescence assay (IFA) using HEp-2 cell substrates is the preferred method by some for detecting antinuclear antibodies (ANA) as it demonstrates a number of characteristic staining patterns that reflect the cellular components bound as well as semi-quantitative results. Lack of harmonized nomenclature for HEp-2 IFA patterns, subjectivity in interpretation and variability in the number of patterns reported by different laboratories pose significant harmonization challenges. The main objectives of this study were to assess current practice in laboratory assessment of HEp-2 IFA, identify gaps and define strategies to improve reading, interpretation and reporting.

Methods
We developed and administered a 24-item survey based on four domains: educational and professional background of participants, current practice of HEp-2 IFA testing and training, gap assessment and the perceived value of International Consensus on Antinuclear Antibody Patterns (ICAP) and other factors in HEp-2 IFA assessment. The Association of Medical Laboratory Immunologists (AMLI) and American Society for Clinical Pathology administered the survey from April 1 to June 30, 2018, to members involved in ANA testing. This report summarizes the survey results and discussion from a dry workshop held during the 2019 AMLI annual meeting.

Results
One hundred and seventy-nine (n = 179) responses were obtained where a significant number were clinical laboratory scientists (46%), laboratory directors (24%), supervisors (13%) or others (17%). A majority of respondents agreed on the need to standardize nomenclature and reporting of HEp-2 IFA results. About 55% were aware of the ICAP initiative; however, among those aware, a significant majority thought its guidance on HEp-2 IFA nomenclature and reporting is of value to clinical laboratories. To improve ICAP awareness and further enhance HEp-2 IFA assessment, increased collaboration between ICAP and the clinical laboratory community was suggested with emphasis on education and availability of reference materials.

Conclusions
Based on these suggestions, future efforts to optimize HEp-2 IFA reading, interpretation and reporting would benefit from more hands-on training of laboratory personnel as well as continuous collaboration between professional organizations, in vitro diagnostic manufacturers and clinical laboratories.
Nonequilibrium Transport and Phase Transitions in Driven Diffusion of Interacting Particles
Authors: Lips Dominik , Ryabov Artem , Maass Philipp 
Published: April 2020

Abstract
Driven diffusive systems constitute paradigmatic models of nonequilibrium physics. Among them, a driven lattice gas known as the asymmetric simple exclusion process (ASEP) is the most prominent example for which many intriguing exact results have been obtained. After summarising key findings, including the mapping of the ASEP to quantum spin chains, we discuss the recently introduced Brownian ASEP (BASEP) as a related class of driven diffusive system with continuous space dynamics. In the BASEP, driven Brownian motion of hardcore-interacting particles through one-dimensional periodic potentials is considered. We study whether current–density relations of the BASEP can be considered as generic for arbitrary periodic potentials and whether repulsive particle interactions other than hardcore lead to similar results. Our findings suggest that shapes of current–density relations are generic for single-well periodic potentials and can always be attributed to the interplay of a barrier reduction, blocking, and exchange symmetry effect. This implies that in general up to five different phases of nonequilibrium steady states are possible for such potentials. The phases can occur in systems coupled to particle reservoirs, where the bulk density is the order parameter. For multiple-well periodic potentials, more complex current–density relations are possible, and more phases can appear. Taking a repulsive Yukawa potential as an example, we show that the effects of barrier reduction and blocking on the current are also present. The exchange symmetry effect requires hardcore interactions, and we demonstrate that it can still be identified when hardcore interactions are combined with weak Yukawa interactions. The robustness of the collective dynamics in the BASEP with respect to variations of model details can be a key feature for a successful observation of the predicted current–density relations in actual physical systems.
Una teoría para la educación transdisciplinaria (Basada en el Manifiesto de Basarab Nicolescu)
Authors: Chávez Cáceres María Luz 
Published: April 2020

Se hace un análisis de la propuesta de Nicolescu para la elaboración de una teoría de la educación desde la perspectiva de la transdisciplinariedad. Se pone énfasis en varias categorías que complementan muy bien la propuesta, a saber: El pensamiento complejo, la metodología transdisciplinar. Luego se desarrolla la perspectiva transdisciplinaria en relación a la educación matizando lo teórico con la realidad educativa misma.
Salud mental y el rendimiento escolar en adolescentes que trabajan en los distritos de Yarinacocha y Callería – Ucayali, 2012
Authors: Sánchez Yarmas Elsa Maximina 
Published: April 2020

El objetivo de la investigación fue de analizar la relación entre la salud mental y el rendimiento escolar en adolescentes que trabajan en los distritos de Yarinacocha y Callería – Ucayali. El diseño aplicado fue descriptivo correlacional. Se trabajó con adolescentes de 13 a 18 años pertenecientes a varias instituciones educativas de los distritos mencionados. Empleando un criterio aleatorio simple se seleccionó 204 escolares de ambos sexos (129 hombres y 75 mujeres). La variable salud mental se evaluó a través del Cuestionario de Salud Mental de Perales y cols. (1993), y la variable rendimiento escolar fue el promedio general de las calificaciones obtenidas al finalizar el año lectivo 2012. Se encontró diferencias significativas (p<.05) entre la salud mental y rendimiento escolar en adolescentes de ambos sexos. Se concluyó que una baja salud mental en los adolescentes que estudian y trabajan de los distritos de Yarinacocha y Callería, se asocia a un menor rendimiento escolar.
Low-Salinity Water, CO2, Alkaline, and Surfactant EOR Methods Applied to Heavy Oil in Sandstone Cores
Authors: Al-Saedi Hasan N. , Flori Ralph E. , Al-Jaberi Soura K. , Al-Bazzaz Waleed 
Published: April 2020

SummaryGenerally, injecting carbon dioxide (CO2) into oil reservoirs is an effective enhanced oil recovery (EOR) technique that improves oil recovery, but injecting CO2 alone can be compromised by problems, such as early breakthrough, viscous fingering, and gravity override. The base CO2 injection method was improved by water-alternating-gas (WAG) injection with formation water (FW) and with low-salinity (LS) water (LSW), with LSW WAG achieving greater recovery than WAG with FW.This study investigates various combinations of standard waterflooding (with FW); flooding with nonmiscible gaseous CO2; WAG with CO2 and FW and/or LSW; foam flooding by adding a surfactant with CO2; adding an alkaline treatment step; and finally adding an LSW spacer between the alkaline step and the foam. These various EOR combinations were tested on Bartlesville sandstone cores (ϕ of approximately12%, K of approximately 20 md) saturated with a heavy oil diluted slightly with 10% heptane for workability. The ultimate outcome from this work is a “recipe” of EOR methods in combination that uses alkaline, LSW, surfactant, and CO2 steps to achieve recovery of more than 63% of the oil originally in place (OOIP) in coreflooding tests.Combining CO2 injection with surfactant [sodium dodecyl sulfonate (SDS)] to produce a foam resulted in better recovery than the WAG methods. Adding alkaline as a leading step appeared to precipitate the surfactant and lower recovery somewhat. Adding an LSW spacer between the alkaline treatment and the foam resulted in a dramatic increase in recovery. The various cases of alkaline + LSW spacer + surfactant + CO2 (each with various concentrations of alkaline and surfactant) achieved an average improvement of 7.71% of OOIP over the identical case(s) without the LSW spacer. The synergistic effect of the LSW spacer was remarkable.ERRATUM NOTICE:An erratum has been added to this paper detailing addition of an omitted reference.
Evolutionary significance of amino acid permease transporters in 17 plants from Chlorophyta to Angiospermae
Authors: Zhang Chao , Kong Nana , Cao Minxuan , Wang Dongdong , Chen Yue , Chen Qin 
Published: April 2020

Abstract
Background: Nitrogen is an indispensable nutrient for plant growth. It is used and transported in the form of amino acids in living organisms. Transporting amino acids to various parts of plants requires relevant transport proteins, such as amino acid permeases (AAPs), which were our focus in this study.Results: We found that 5 AAP genes were present in Chlorophyte species and more AAP genes were predicted in Bryophyta and Lycophytes. Two main groups were defined and group I comprised 5 clades. Our phylogenetic analysis indicated that the origin of clades 2, 3, and 4 is Gymnospermae and that these clades are closely related. The members of clade 1 included Chlorophyta to Gymnospermae. Group II, as a new branch consisting of non-seed plants, is first proposed in our research. Our results also indicated that the AAP family was already present in Chlorophyta and then expanded accompanying the development of vasculature. Concurrently, the AAP family experienced multiple duplication events that promoted the generation of new functions and differentiation of sub-functions.Conclusions: Our findings suggest that the AAP gene originated in Chlorophyta, and some non-seed AAP genes clustered in one group. A second group, which contained plants of all evolutionary stages, indicated the evolution of AAPs. These new findings can be used to guide future research.
EphB4/ TNFR2/ERK/MAPK signaling pathway comprises a signaling axis to mediate the positive effect of TNF-α on osteogenic differentiation
Authors: Zhang Yu , Yang Chengzhe , Ge Shaohua , Wang Limei , Zhang Jin , Yang Pishan 
Published: April 2020

Abstract
Background: Low concentrations of tumor necrosis factor-alpha (TNF-α) and its receptor TNFR2 are both reported to promote osteogenic differentiation of osteoblast precursor cells. Moreover, low concentrations of TNF-α up-regulate the expression of EphB4. However, the molecular mechanisms underlying TNF-α-induced osteogenic differentiation and the roles of TNFR2 and EphB4 have not been fully elucidated.Results: The ALP activity, as well as the mRNA and protein levels of RUNX2, BSP, EphB4 and TNFR2, was significantly elevated in MC3T3-E1 murine osteoblast precursor cells when stimulated with 0.5 ng/ml TNF-α. After TNFR2 was inhibited by gene knockdown with lentivirus-mediated shRNA interference or by a neutralizing antibody against TNFR2, the pro-osteogenic effect of TNF-α was partly reversed, while the up-regulation of EphB4 by TNF-α remained unchanged. With EphB4 forward signaling suppressed by a potent inhibitor of EphB4 auto-phosphorylation, NVP-BHG712, TNF-α-enhanced expressions of TNFR2, BSP and Runx2 were significantly decreased. Further investigation into the signaling pathways revealed that TNF-α significantly increased levels of p-JNK, p-ERK and p-p38. However, only the p-ERK level was significantly inhibited in TNFR2-knockdown cells. In addition, the ERK pathway inhibitor, U0126 (10μM), significantly reversed the positive effect of TNF-α on the protein levels of RUNX2 and BSP. Conclusions: The EphB4, TNFR2 and ERK/MAPK signaling pathway comprises a signaling axis to mediate the positive effect of TNF-α on osteogenic differentiation.
The Role of Complement Immune Response on Artemisinin Combination Therapy in a Population from Malaria Endemic Region of Western Kenya
Authors: Wanjala Christine , Bergmann-Leitner Elke , Akala Hoseah M , Odhiambo Geoffrey , Ogutu Bernhards R , Andagalu Ben , Kamau Edwin , Ochiel Daniel 
Published: April 2020

Abstract
BACKGROUND Naturally acquired immunity which is characterized by protection against overt clinical disease and high parasitemia is acquired with age and transmission intensity. The role of naturally acquired immunity on the efficacy of antimalarial drugs including artemisinin combination therapies (ACTs), the first-line treatments for uncomplicated Plasmodium falciparum has been demonstrated. This study investigated the role of naturally acquired immunity in the response to malaria ACT drug treatment in symptomatic patients living in a malaria high-transmission area of Western Kenya. METHODS This study used samples obtained from a therapeutic efficacy study conducted in western Kenya, an areas of high transmission which assessed ACTs. Sera samples from malaria immune (n = 105) and naïve participants (n = 6) were assessed for in vitro growth inhibitory activity against 3 D7 P. falciparum using a fluorescent-based Growth Inhibition Assay (GIA). Participants’ age and parasite clearance parameters were used in the analysis. RESULTS The key observations of the study are: (1) Sera with intact complement displayed higher GIA activity at lower serum dilutions; (2) there was significant relationship between GIA activity, parasite clearance rate, and slope half-life; (3) Age was a confounding factor when comparing the GIA activity with parasite clearance kinetics. CONCLUSION Taken together, this study demonstrates for the first time there is synergy of complement, pre-existing immunity, and drug treatment in younger patients with symptomatic malaria in a high-transmission area.
Gender differences in the relationship between dietary energy and macronutrients intake and body weight outcomes in Chinese adults
Authors: Author) Jian Zhao(Former Corresponding , Sun Jian , New Chang Su 
Published: April 2020

Abstract
Background To explore the the gender differences in the relationship between dietary energy and macronutrients intake and body weight outcomes in Chinese adults. Methods Data from the China Health and Nutrition Survey (CHNS, 2015) for10,898 participants aged 18-64 years. Three consecutive 24-h dietary recalls was used to assess the dietary intake. Quantile regression models for body mass index (BMI) and waist circumference (WC) were performed separately for each sex. Results Adult males showed greater absolute intakes of energy and macronutrients as compared to females as per the body weight outcomes. A 10% increase in BMI resulted in an additional intake of 0.002-0.004 kcal/d of dietary energy, 0.032-0.057 g/d of fats, 0.039-0.084 g/d of proteins, and 0.018-0.028 g/d of carbohydrates across all quantiles in males (p < 0.05). A 10% increase in WC resulted in an additional intake of 0.004-0.008 kcal/d of dietary energy, 0.051-0.052 g/d of carbohydrates across the entire quantile in males (p < 0.05), and an increased intake of 0.060-0.150 kcal/d of fat in females (p < 0.05). Conclusions Dietary Fat intake could be the risk factor of abdominal obesity in women. The importance of gender- specific evidence should be considered before promoting macronutrient allocation for the prevention and treatment of obesity.
Whole exome sequencing identified mutations causing hearing loss in five consanguineous Pakistan families
Authors: Zhou Yingjie , Tariq Muhammad , Author) Sijie He(Former Corresponding , Abdullah Uzma , Author) Jianguo Zhang(New Corresponding , Baig Shahid Mahmood 
Published: April 2020

Abstract
Background Hearing loss is the most common sensory defect that affects over 6% of the population worldwide. About 50%-60% of hearing loss patients are attributed to genetic causes. Currently more than 100 genes have been reported to cause non-syndromic hearing loss. It’s possible and efficient to screen all potential disease-causing genes for hereditary hearing loss by whole exome sequencing (WES). Methods We collected 5 consanguineous pedigrees with hearing loss from Pakistan and applied WES on selected patients for each pedigree, followed by bioinformatics analysis and Sanger validation to identify the causing genes for them. Results Variants in 7 genes were identified and validated in these pedigrees. We identified single candidate for 3 pedigrees, which were GIPC3 (c.937T>C), LOXHD1 (c.2935G>A) and TMPRSS3 (c.941T>C). And the remaining 2 pedigrees each contained two candidates, which were TECTA (c.4045G>A) and MYO15A (c.3310G>T and c.1705G>C) for one pedigree and DFNB59 (c.494G>A) and TRIOBP (c.1952C>T) for the other pedigree. The candidates were validated in all available samples by Sanger sequencing. Conclusion The candidate variants in hearing loss genes were validated to be co-segregated in the pedigrees, which may indicate the reasons for such patients. We also suggested that WES may be suitable strategy for hearing loss screening in clinical detection.
Assessing capacity of health facilities to provide routine maternal and newborn care in low-income settings: what proportions are ready to provide good-quality care, and what proportions of women receive it?
Authors: Tomlin Keith , Berhanu Della , Gautham Meenakshi , Umar Nasir , Schellenberg Joanna , Wickremasinghe Deepthi , Marchant Tanya 
Published: April 2020

Abstract
Background Good quality maternal and newborn care at primary health facilities is essential, but in settings with high maternal and newborn mortality the evidence for the protective effect of facility delivery is inconsistent. We surveyed samples of health facilities in three settings with high maternal mortality to assess their readiness to provide routine maternal and newborn care, and proportions of women using facilities that were ready to offer good quality care. Surveys were conducted in 2012 and 2015 to assess changes over time. Methods Surveys were conducted in Ethiopia, the Indian state of Uttar Pradesh and Gombe State in North-Eastern Nigeria. At each facility the staffing, infrastructure and commodities were quantified. These formed components of four “signal functions” that described aspects of routine maternal and newborn care. A facility was considered ready to perform a signal function if all the required components were present. Readiness to perform all four signal functions classed a facility as ready to provide good quality routine care. From facility registers we counted deliveries and calculated the proportions of women delivering in facilities ready to offer good quality routine care. Results In Ethiopia the proportion of deliveries in facilities classed as ready to offer good quality routine care rose from 40% (95% confidence interval (CI) 26-57) in 2012 to 43% (95% CI 31-56) in 2015. In Uttar Pradesh these estimates were 4% (95% CI 1-24) in 2012 and 39% (95% CI 25-55) in 2015, while in Nigeria they were 25% (95% CI 6-66) in 2012 and zero in 2015. Improved facility readiness in Ethiopia and Uttar Pradesh arose from increased supplies of commodities, while in Nigeria facility readiness fell due to depleted commodity supplies and fewer Skilled Birth Attendants. Conclusions This study quantified the readiness of health facilities to offer good quality routine maternal and newborn care, and may help explain inconsistent outcomes of facility care in some settings. Signal function methodology can provide a rapid and inexpensive measure of such facility readiness. Incorporating data on facility deliveries and repeating the analyses highlighted adjustments that could have greatest impact upon routine maternal and newborn care.
A comparison of the Indian Diet with the EAT-Lancet Reference Diet
Authors: Sharma Manika , Kishore Avinash , Roy Devesh , New Kuhu Joshi 
Published: April 2020

Abstract
Background The 2019 EAT-Lancet Commission report recommends healthy diets that can feed 10 billion people by 2050 from environmentally sustainable food systems. This study compares food consumption patterns in India, from different income groups and regions and sectors(rural/urban), with the EAT-Lancet reference diet and highlights the deviations. Methods The analysis was done using data from consumption expenditure survey of a nationally representative sample of 0.102 million households from 7469 villages and 5268 urban blocks of India by the National Sample Survey Organization (NSSO) in 2011-12. This is the most recent nationally representative data on household consumption in India. Calorie intake (kcal/capita/day) of food groups was calculated using quantity of consumption and nutritional values of food items from the NSSO report. Diet across rural and urban, poor and rich households across different regions were compared with EAT-Lancet reference diet. Results Average daily calorie consumption in India is below the recommended 2503 kcal/capita/day across all groups compared, except for the richest 5% of the population. Calorie share of whole grains is significantly higher than the EAT-Lancet recommendations while those of fruits, vegetables, legumes, and meat, fish & eggs are significantly lower. The share of calories from protein sources is only 6-8% in India compared to 29% in the reference diet. The imbalance is highest for the households in the lowest decile of consumption expenditure, but even the richest households in India do not consume adequate amounts of fruits, vegetables and non-cereal proteins in their diets. An average Indian household consumes more calories from processed foods than fruits. Conclusions Indian diets, across states and income groups, are unhealthy. Indians also consume excessive cereals and not enough proteins, fruits and vegetables. Importantly, unlike many countries, excess consumption of animal protein is not a problem in India. Indian policy-makers need to accelerate food system wide efforts to make healthier and sustainable diets more affordable, accessible and acceptable.