bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analysis of Hydrogeology and Rainwater Prevention Systems at Sepo Village in Central Halmahera Regency, North Maluku
Authors: Lukman Nurany , Karim Razak 
Published: July 2020

Abstract
Mining water is one of the main problems that has a great importance on mine productivity. In mining implementation, it is necessary to study the Mining Water (Hydrogeology) system to support a good mine design. The Mining Water drainage system is a method for making work sites in the mining area always dry. Prior to mining, hydrogeological analysis and rainwater management methods are carried out. Calculation of rainfall intensity using Gumbel Probability estimation and water capture area analysis obtained CA-1 Q = 915, 35, m3 / day CA-2 Q = 1149, CA-3 Q = 141116, 01CA-4 Q = 1407.89, the form of rainwater trapping channels in the form of trapezium and pump requirements in each catchment area of 1 (one) pump each.
Magnetic Properties of Fe3O4@Graphene: Preparation from Natural Material
Authors: Munasir  , Kusumawati R.P. , Kusumawati D.H. 
Published: July 2020

Abstract
This work presents a study of structure and the magnetic behavior of Fe3O4 nanoparticles produced in the extraction process and Magnetic Nanoparticle of Fe3O4 coated by graphene oxide (GO) from natural materials of coconut shells (graphite). Preparation of the core-shell composite Fe3O4@Graphene was carried out with ex-situ process. Superparamagnetic analysis of Fe3O4, and Fe3O4@Graphene using VSM (vibrating sample magnetometer), structure analysis using HRPD, TEM and adsorption of dyes solution in the drink water. Obtained results, along with the thickening of the skin (Graphene that encloses the core particles (Fe3O4), the saturation of the magnetization (Ms) decreases. And the amount of GO composition affects the coating decorated (shell); Fe3O4/Graphene absorptivity increases when walls are thinner.
Plankton diversity in intertidal zone kondang merak beach district of malang, east java
Authors: Purnomo Tarzan 
Published: July 2020

Abstract
Kondang Merak beach is one of the beaches on the southern coast of Malang district, East Java, which is used as a fishing area and marine tourism destination. Beachs in the south of the Java island has a profile is relatively steep, the substrate of coral, and wavy large, it is the influence on water quality and diversity plankton. This study aims to identification of plankton diversity and abundance in the intertidal zone of Kondang Merak beach. Sample taken using transect method at 8 stations. Each station consists of 3 substations namely the upper intertidal zone, the middle intertidal zone, and the lower intertidal zone. Samples were taken at three times different, ie morning, noon, and night, using net plankton no.25. Plankton diversity was analyzed based on Shanon-Wiener diversity index calculations and relative abundance Odum. The results of the study showed that in the intertidal zone of Kondang Merak beach, found out of 43 types of plankton were consist 29 species phytoplankton and 14 species zooplankton. Index diversity of plankton 2.59 included moderate category. The most abundant is Diatome, relative abundance 19.81%, followed Oscilatoria and Closteriopsis longisima 8.47% and 17.57%. The quality of waters still suitable for sustaining life plankton temperature 26.2-29.45°C, brightness infinitely, Total Suspended Solids 0.321-0.488 g, pH 7.8-8.0, salinity 35°/∞, DO 4.08-6.10 ppm, BOD 0.622-0.994 ppm, and CO2 20.29-39.45 ppm.
Amplification of Salt-Sensitive Hypertension and Kidney Damage by Immune Mechanisms
Authors: Mattson David L , Dasinger John Henry , Abais-Battad Justine M 
Published: July 2020

AbstractHumans with salt-sensitive (SS) hypertension demonstrate increased morbidity, increased mortality, and renal end-organ damage when compared with normotensive subjects or those with salt-resistant hypertension. Increasing evidence indicates that immune mechanisms play an important role in the full development of SS hypertension and associated renal damage. Recent experimental advances and studies in animal models have permitted a greater understanding of the mechanisms of activation and action of immunity in this disease process. Evidence favors a role of both innate and adaptive immune mechanisms that are triggered by initial, immune-independent alterations in blood pressure, sympathetic activity, or tissue damage. Activation of immunity, which can be enhanced by a high-salt intake or by alterations in other components of the diet, leads to the release of cytokines, free radicals, or other factors that amplify renal damage and hypertension and mediate malignant disease.
Investigation of the role of infusate properties related to midline catheter failure in an ovine model
Authors: Ryder Marcia , Gunther Robert A , Nishikawa Reid A , Stranz Marc , Meyer Britt M , Spangler Taylor A , Parker Albert E , Sylvia Charles 
Published: July 2020

Abstract

Purpose
Infusate osmolarity, pH, and cytotoxicity were investigated as risk factors for midline catheter failure.

Methods
An experimental, randomized, controlled, blinded trial was conducted using an ovine model. Two 10-cm, 18-gauge single-lumen midline catheters were inserted into the cephalic veins of sheep. The animals were divided into 6 study arms and were administered solutions of vancomycin 4 mg/mL (a low-cytotoxicity infusate) or 10 mg/mL (a high-cytotoxicity infusate), doxycycline 1 mg/mL (an acidic infusate), or acyclovir 3.5 mg/mL (an alkaline infusate) and 0.9% sodium chloride injection; or 1 of 2 premixed Clinimix (amino acids in dextrose; Baxter International) products with respective osmolarities of 675 mOsm/L (a low-osmolarity infusate) and 930 mOsm/L (a mid-osmolarity infusate). Contralateral legs were infused with 0.9% sodium chloride injection for control purposes. Catheter failure was evaluated by assessment of adverse clinical symptoms (swelling, pain, leakage, and occlusion). A quantitative vessel injury score (VIS) was calculated by grading 4 histopathological features: inflammation, mural thrombus, necrosis, and perivascular reaction.

Results
Among 20 sheep included in the study, the overall catheter failure rate was 95% for test catheters (median time to failure, 7.5 days; range, 3–14 days), while 60% of the control catheters failed before or concurrently (median time to failure, 7 days; range, 4.5–14 days). Four of the 6 study arms (all but the Clinimix 675-mOsm/L and acyclovir 3.5-mg/mL arms) demonstrated an increase in mean VIS of ≥77% in test vs control legs (P ≤ 0.034). Both pain and swelling occurred at higher rates in test vs control legs: 65% vs 10% and 70% vs 50%, respectively. The mean difference in rates of occlusive pericatheter mural thrombus between the test and control arms was statistically significant for the vancomycin 10-mg/mL (P = 0.0476), Clinimix 930-mOsm/L (P = 0.0406), and doxycycline 1-mg/mL (P = 0.032) arms.

Conclusion
Administration of infusates of varied pH, osmolarity, and cytotoxicity via midline catheter resulted in severe vascular injury and premature catheter failure; therefore, the tested infusates should not be infused via midline catheters.
“Dear Anglo”: Scrambling the Signs of Anglo-Modernity from New York to Lagos
Authors: Bilbija Marina 
Published: July 2020

AbstractThis essay reveals the surprising ties within an African American print franchise: the Anglo-African Magazine, the Weekly Anglo-African, and their various iterations between 1859 and 1865 and a Lagos journal also titled The Anglo-African (1863–65). The link was Robert Campbell, the West Indian editor of the Lagos paper and former contributor to the New York ones. I show how Campbell not only borrowed his title from his African American colleagues but also adapted their editorial models for hailing abolitionist publics and constituting interpretative communities. As these Anglo-African journals proliferated from New York to Lagos, “Anglo-African” became a racialized title associated with a particular kind of journal, rather than just a racial term. A salient feature of an “Anglo-African” type of journal was its scrambling of its titular term and its prefix Anglo. Thus, in the US papers, Anglo became a shorthand for a black publication, while their Nigerian counterpart inserted the US and African-America into the “Anglo” world of the Lagos Anglo-African. By decoupling “Anglo” from whiteness in one context, and from Britishness in the other, these editors forged a black Atlantic counterculture that worked at what Paul Gilroy has called the “hidden internal fissures” of modernity.
Pro-inflammatory immune response is linked to wintering habitat in a migratory shorebird
Authors: Abad-Gómez José M , Villegas Auxiliadora , Gutiérrez Jorge S , Parejo Manuel , Navedo Juan G , Sánchez-Guzmán Juan M , Rocha Afonso , Masero José A 
Published: July 2020

AbstractMigratory shorebirds (Charadrii) show a strong dichotomy in their breeding and wintering strategies: Arctic-breeding species typically spend the wintering season in marine habitats, while more southerly breeding species tend to do so in freshwater habitats where pathogens and parasites, particularly vector-borne blood parasites, are generally more abundant. Thus, it has been hypothesized that the former group may reduce their investment in immunity, but experimental data supporting this hypothesis are lacking. Moreover, whether this contrasting habitat selection can shape investments in immunocompetence among populations within a species is uncertain. We experimentally tested the hypothesis that there is a significant association between habitat occupancy and the strength of a pro-inflammatory immune response in the Dunlin (Calidris alpina), a widely distributed long-distance migratory shorebird that breeds in (sub-)arctic areas and winters mainly, but not exclusively, in coastal habitats. Overwintering Dunlins occupying inland freshwater and marine habitats at a similar latitude were captured and acclimated under identical conditions in outdoor aviaries. After an acclimation period, they were challenged with phytohemagglutinin to assess the pro-inflammatory immune response and its associated energetic costs, measured by basal metabolic rate (BMR) and body mass changes. We found that freshwater Dunlins exhibited a higher (63%) pro-inflammatory immune response than marine Dunlins. Although this difference did not involve significant BMR changes, the time course of body mass response differed between freshwater and marine individuals. Our findings point to the existence of different pro-inflammatory immune responses and body mass adjustments associated with the wintering habitat. These intraspecific differences are likely due to population adaptation rather than phenotypic plasticity, where not only disease risk but also physiological adaptations to different salinity levels could play an important role.
SCORE: Smart Consensus Of RNA Expression—a consensus tool for detecting differentially expressed genes in bacteria
Authors: Wolf Silver A , Epping Lennard , Andreotti Sandro , Reinert Knut , Semmler Torsten 
Published: July 2020

Abstract

Summary
RNA-sequencing (RNA-Seq) is the current method of choice for studying bacterial transcriptomes. To date, many computational pipelines have been developed to predict differentially expressed genes from RNA-Seq data, but no gold-standard has been widely accepted. We present the Snakemake-based tool Smart Consensus Of RNA Expression (SCORE) which uses a consensus approach founded on a selection of well-established tools for differential gene expression analysis. This allows SCORE to increase the overall prediction accuracy and to merge varying results into a single, human-readable output. SCORE performs all steps for the analysis of bacterial RNA-Seq data, from read preprocessing to the overrepresentation analysis of significantly associated ontologies. Development of consensus approaches like SCORE will help to streamline future RNA-Seq workflows and will fundamentally contribute to the creation of new gold-standards for the analysis of these types of data.

Availability and implementation
https://github.com/SiWolf/SCORE.

Supplementary information
Supplementary data are available at Bioinformatics online.
Distinct changes of in BTLA, ICOS, PD-1, and TIGIT expression on peripheral blood and decidual CD8+ T cells in women with unexplained recurrent spontaneous abortion†
Authors: Liang Qianqian , Tong Lingxia , Xiang Liping , Shen Sujuan , Pan Chenhuan , Liu Cuiping , Zhang Hong 
Published: July 2020

Abstract
The two-way communication between the mother and the fetus is accomplished by immune cells. CD8+ T cells of normal pregnant (NP) women express progesterone receptor (PR). Binding of PR to progesterone (P) and the production of progesterone-induced blocking factor (PIBF) can aid immune escape, which is an important factor in the maternal immune response. We detected the proportion of CD8+ T cells and the expression of the surface costimulatory molecules BTLA, TIGIT, ICOS, and PD-1 in peripheral blood and decidual tissues of women with unexplained recurrent spontaneous abortion (URSA) and in NP women. All patients were at 8 -10 weeks of gestation. The results showed that there was no change in the proportions of CD8+ T cells in peripheral blood and decidual tissues of URSA patients compared to those of NP women. In peripheral blood, compared with the NP group, the URSA group showed decreased expression of BTLA + CD8+ T cells and the difference was statistically significant, but there was no difference between the groups in terms of TIGIT + CD8+, PD-1 + CD8+, and ICOS + CD8+ T cells. There was no change in the levels of TIGIT + CD8+, PD-1 + CD8+, ICOS + CD8+, and BTLA + CD8+ T cells in decidual tissue. These data confirm that the number of CD8+ T cells in peripheral blood and decidual tissue is not the main factor leading to the pathogenesis of URSA, and other immune cells may play an important role in URSA, but this hypothesis needs further exploration and research.
A general interactive framework for false discovery rate control under structural constraints
Authors: Lei Lihua , Ramdas Aaditya , Fithian William 
Published: July 2020

SummaryWe propose a general framework based on selectively traversed accumulation rules for interactive multiple testing with generic structural constraints on the rejection set. It combines accumulation tests from ordered multiple testing with data-carving ideas from post-selection inference, allowing highly flexible adaptation to generic structural information. Our procedure defines an interactive protocol for gradually pruning a candidate rejection set, beginning with the set of all hypotheses and shrinking the set with each step. By restricting the information at each step via a technique we call masking, our protocol enables interaction while controlling the false discovery rate in finite samples for any data-adaptive update rule that the analyst may choose. We suggest update rules for a variety of applications with complex structural constraints, demonstrate that selectively traversed accumulation rules perform well in problems ranging from convex region detection to false discovery rate control on directed acyclic graphs, and show how to extend the framework to regression problems where knockoff statistics are available in lieu of $p$-values.
Supporting Face-to-Face Birth Family Contact after Adoption from Care: Learning for Trauma-Sensitive Practice
Authors: MacDonald Mandi 
Published: July 2020

Abstract
There are recent calls to consider face-to-face birth family contact for more children adopted from care. Given that the threshold for this authoritative intervention is significant harm, post-adoption contact should be sensitive to the possible impact of early childhood trauma, and be adequately supported. This article draws on adopters’ reports of face-to-face contact with birth relatives, and their evaluation of social work support to suggest an approach to practice informed by principles of trauma-informed care. Twenty-six adoptive parents participated in focus groups, and seventy-three completed a web-based questionnaire, all from Northern Ireland where face-to-face post-adoption contact is expected. Findings are structured thematically around principles of trauma-informed care: trusting relationships; physical and emotional safety; choice and control; and narrative coherence. Most families had a social worker attending contact, and help with practical arrangements. Less common but important practices included: deliberate consideration of children’s perspectives; safeguarding their emotional well-being; and facilitating communication outside of visits. Findings suggest that visits are a context in which trauma-effects may surface, and social workers supporting contact should be sensitive to this possibility. This article suggests a systemic approach to helping all parties prepare for, manage and de-brief after contact, attending to both adult-to-adult and adult–child interactions.
A polycyclic aromatic hydrocarbon-enriched environmental chemical mixture enhances AhR, antiapoptotic signaling and a proliferative phenotype in breast cancer cells
Authors: Gearhart-Serna Larisa M , Davis John B , Jolly Mohit Kumar , Jayasundara Nishad , Sauer Scott J , Di Giulio Richard T , Devi Gayathri R 
Published: July 2020

Abstract
Emerging evidence suggests the role of environmental chemicals, in particular endocrine-disrupting chemicals (EDCs), in progression of breast cancer and treatment resistance, which can impact survival outcomes. However, most research tends to focus on tumor etiology and the effect of single chemicals, offering little insight into the effects of realistic complex mixture exposures on tumor progression. Herein, we investigated the effect of a polycyclic aromatic hydrocarbon (PAH)-enriched EDC mixture in a panel of normal and breast cancer cells and in a tumor organoid model. Cells or organoids in culture were treated with EDC mixture at doses estimated from US adult intake of the top four PAH compounds within the mixture from the National Health and Nutrition Examination Survey database. We demonstrate that low-dose PAH mixture (6, 30 and 300 nM) increased aryl hydrocarbon receptor (AhR) expression and CYP activity in estrogen receptor (ER) positive but not normal mammary or ER-negative breast cancer cells, and that upregulated AhR signaling corresponded with increased cell proliferation and expression of antiapoptotic and antioxidant proteins XIAP and SOD1. We employed a mathematical model to validate PAH-mediated increases in AhR and XIAP expression in the MCF-7 ER-positive cell line. Furthermore, the PAH mixture caused significant growth increases in ER-negative breast cancer cell derived 3D tumor organoids, providing further evidence for the role of a natural-derived PAH mixture in enhancing a tumor proliferative phenotype. Together, our integrated cell signaling, computational and phenotype analysis reveals the underlying mechanisms of EDC mixtures in breast cancer progression and survival.
The Etiology of Pneumonia From Analysis of Lung Aspirate and Pleural Fluid Samples: Findings From the Pneumonia Etiology Research for Child Health (PERCH) Study
Authors: Ebruke Bernard E , Deloria Knoll Maria , Haddix Meredith , Zaman Syed M A , Prosperi Christine , Feikin Daniel R , Hammitt Laura L , Levine Orin S , O’Brien Katherine L , Murdoch David R , Brooks W Abdullah , Scott J Anthony G , Kotloff Karen L , Madhi Shabir A , Thea Donald M , Baillie Vicky L , Chisti Mohammod Jobayer , Dione Michel , Driscoll Amanda J , Fancourt Nicholas , Karron Ruth A , Le Tham T , Mohamed Shebe , Moore David P , Morpeth Susan C , Mwaba John , Mwansa James , Bin Shahid Abu Sadat Mohammad Sayeem , Sow Samba O , Tapia Milagritos D , Antonio Martin , Howie Stephen R C 
Published: July 2020

Abstract

Background
An improved understanding of childhood pneumonia etiology is required to inform prevention and treatment strategies. Lung aspiration is the gold standard specimen for pneumonia diagnostics. We report findings from analyses of lung and pleural aspirates collected in the Pneumonia Etiology Research for Child Health (PERCH) study.

Methods
The PERCH study enrolled children aged 1–59 months hospitalized with World Health Organization–defined severe or very severe pneumonia in 7 countries in Africa and Asia. Percutaneous transthoracic lung aspiration (LA) and pleural fluid (PF) aspiration was performed on a sample of pneumonia cases with radiological consolidation and/or PF in 4 countries. Venous blood and nasopharyngeal/oropharyngeal swabs were collected from all cases. Multiplex quantitative polymerase chain reaction (PCR) and routine microbiologic culture were applied to clinical specimens.

Results
Of 44 LAs performed within 3 days of admission on 622 eligible cases, 13 (30%) had a pathogen identified by either culture (5/44) or by PCR (11/29). A pathogen was identified in 12/14 (86%) PF specimens tested by either culture (9/14) or PCR (9/11). Bacterial pathogens were identified more frequently than viruses. All but 1 of the cases with a virus identified were coinfected with bacterial pathogens. Streptococcus pneumoniae (9/44 [20%]) and Staphylococcus aureus (7/14 [50%]) were the predominant pathogens identified in LA and PF, respectively.

Conclusions
Bacterial pathogens predominated in this selected subgroup of PERCH participants drawn from those with radiological consolidation or PF, with S. pneumoniae and S. aureus the leading pathogens identified.
First Case of Brucellosis Caused by an Amphibian-type Brucella
Authors: Rouzic Nicolas , Desmier Ludovic , Cariou Marie-Estelle , Gay Eugénie , Foster Jeffrey T , Williamson Charles H D , Schmitt François , Le Henaff Mikael , Le Coz Alain , Lorléac’h Aurélien , Lavigne Jean-Philippe , O’Callaghan David , Keriel Anne 
Published: July 2020

Abstract
We report the first case of brucellosis caused by an isolate whose genome is identical that of a frog isolate from Texas, demonstrating the zoonotic potential of amphibian-type Brucella. Importantly, with such atypical Brucella, correct diagnosis cannot be performed using routine serological tests or identification methods.