Miracle-dz/UniFAR-FTUs huggingface dataset:
Health management information system (HMIS) data verification: A case study in four districts in Rwanda

Introduction Reliable Health Management and Information System (HMIS) data can be used with minimal cost to identify areas for improvement and to measure impact of healthcare delivery. However, variable HMIS data quality in low- and middle-income countries limits its value in monitoring, evaluation and research. We aimed to review the quality of Rwandan HMIS data for maternal and newborn health (MNH) based on consistency of HMIS reports with facility source documents. Methods We conducted a cross-sectional study in 76 health facilities (HFs) in four Rwandan districts. For 14 MNH data elements, we compared HMIS data to facility register data recounted by study staff for a three-month period in 2017. A HF was excluded from a specific comparison if the service was not offered, source documents were unavailable or at least one HMIS report was missing for the study period. World Health Organization guidelines on HMIS data verification were used: a verification factor (VF) was defined as the ratio of register over HMIS data. A VF<0.90 or VF>1.10 indicated over- and under-reporting in HMIS, respectively. Results High proportions of HFs achieved acceptable VFs for data on the number of deliveries (98.7%;75/76), antenatal care (ANC1) new registrants (95.7%;66/69), live births (94.7%;72/76), and newborns who received first postnatal care within 24 hours (81.5%;53/65). This was slightly lower for the number of women who received iron/folic acid (78.3%;47/60) and tested for syphilis in ANC1 (67.6%;45/68) and was the lowest for the number of women with ANC1 standard visit (25.0%;17/68) and fourth standard visit (ANC4) (17.4%;12/69). The majority of HFs over-reported on ANC4 (76.8%;53/69) and ANC1 (64.7%;44/68) standard visits. Conclusion There was variable HMIS data quality by data element, with some indicators with high quality and also consistency in reporting trends across districts. Over-reporting was observed for ANC-related data requiring more complex calculations, i.e., knowledge of gestational age, scheduling to determine ANC standard visits, as well as quality indicators in ANC. Ongoing data quality assessments and training to address gaps could help improve HMIS data quality.
Nitrogen rates descendant from slow release fertilizers in maize top-dressing fertilization

Maize (Zea mays L.) is a very important cultivation for Brazilian agriculture and throughout the years it has been enlarged in the country. It is cultivated in two seasons, the summer plantation and the wintermaize which happens after the soy harvesting. Brazil is one of the biggest maize producers and in order to increase this production it is necessary to use certain practices such as nitrogen manuring, which can be realized with low release fertilizer, namely Sulfammo®. This work was realized in the vegetation house located in the State University of Maringá – Umuarama Campus, through which the objective was to evaluate the maize plants’ development with different doses of the product. The treatment obtained the following amounts: 0, 50, 100, 150 and 200 mg dm 3. The statistical variability includes the plant’s high, the culm’s diameter, the chlorophyll content, the plant’s color and the dry matter. It was observed that the increasing doses of nitrogen did not influence the maize plants.
Streptococcus iniae Associated with Mortality of Tilapia nilotica × T. aurea Hybrids

Abstract The cause of an ongoing mortality of hybrid tilapias Tilapia nilotica × T. aurea in a Texas fish farm was a biotype of Streptococcus iniae. Identification was based upon classical biochemical and physiological analysis as well as ribosomal RNA gene sequencing. The causative agent, a β-hemolytic Streptococcus species, grew better at 37°C than at 10, 25, or 40°C, and its growth was inhibited at pH 9.6, in 6.5% NaCl, and in 40% bile. The bacterium was resistant to ampicillin and furazolidone but was susceptible to several antibiotics including tetracycline, oxytetracycline, and sulfadimethoxine-ormetoprim (5:1). This is the first record of this bacterial species affecting fish in the USA. External signs of disease in tilapia were loss of orientation, exophthalmia, corneal opacity, and petechia around the mouth, anus, and proximal margins of the pectoral fins. Internally, fluid accumulation in the peritoneal cavity and enlargement of the liver, spleen, and kidney were observed.
Measuring connectivity of invasive stoat populations to inform conservation management

Abstract Context. Effective design of conservation management programs for long-term population control requires an accurate definition of the spatial extent of populations, along with a proper understanding of the ways that landscape patchiness influences demography and dispersal within these populations. Aims. In the present study, genetic techniques are used to describe the population genetic structure and connectivity of invasive stoats (Mustela erminea) across the Auckland region, New Zealand, so as to assist planning for mainland stoat control, and define potential future eradication units. Methods. A sample of stoats from across the region (n = 120), was genotyped at 17 microsatellite loci, and a combination of clustering, genetic population assignment and various migration estimation methods were applied to these data. Key results. Moderate population structure was observed (F ST = 0.03–0.21), with five geographic populations defined by genetic clustering. Almost all individuals were correctly assigned to the location of origin, and recent migration rates among forest patches were found to be low. Conclusions. It is possible to define the origin of stoats at this regional scale using genetic measures. From this, we show that the stoat incursion on Rangitoto Island that occurred post-eradication in 2010 probably came from East Auckland (P < 0.0001), whereas the 2014 stoat incursion on Motutapu Island probably originated from a population linked to the Waitakeres. Also, the Waiheke Island stoat population has minimal connection to all other populations and it is therefore a potential eradication unit. Implications. The low migration rates among forest patches indicated that if thorough control is imposed on a discrete forest patch, reinvasion from other forest patches will be relatively low. Importantly, for stoat control in the region, the isolation of the Waiheke Island stoat population means that eradication here is likely to be feasible with low reinvasion pressure.
GWAS-Based Discoveries in IgA Nephropathy, Membranous Nephropathy, and Steroid Sensitive Nephrotic Syndrome.

Over the past decade, genome-wide association studies (GWAS) have emerged as a powerful tool to understand the genetic basis of complex traits in humans. The GWAS approach has been successfully applied to primary glomerular disorders, providing numerous novel insights into the genetic architecture of IgA nephropathy, membranous nephropathy, and steroid-sensitive nephrotic syndrome. IgA nephropathy appears to have a highly complex polygenic architecture, with nearly 20 genome-wide significant loci of small to moderate effects discovered to date. In contrast, the genetic susceptibility to membranous nephropathy and steroid-sensitive nephrotic syndrome appears to be driven by a small number of large-effect loci. The MHC locus on chromosome 6p21 is strongly associated with genetic susceptibility to all major types of immune-mediated glomerulopathies. However, a distinct set of classical HLA alleles is associated with each individual disease type, pinpointing to specific immune mechanisms underlying each of these conditions. Additional insights from the discovery of non-HLA risk loci reinforced the role of innate and adaptive immunity in the pathogenesis of these disorders, and highlighted important susceptibility overlaps between glomerular and other autoimmune and inflammatory conditions. Despite these initial successes, much larger GWAS and sequencing studies are still needed for each individual glomerular disease type. Increased power will be critical to comprehensively test for genetic effects across the full spectrum of allelic frequencies, to detect gene-gene and gene-environment interactions, and to potentially improve the performance of polygenic risk predictors. Moreover, the existing studies are limited mostly to Europeans and East Asians, stressing the urgency to expand genetic discovery efforts to more diverse populations worldwide.
Gastrointestinal and hepatic abnormalities in patients with confirmed COVID‐19: A systematic review and meta‐analysis

Although not common, gastrointestinal and liver symptoms have reportedly been the initial presentation of coronavirus disease‐2019 (COVID‐19) in a large group of patients. Therefore, knowing the frequency and characteristics of these manifestations of COVID‐19 is important for both clinicians and health policy makers. A systematic review and meta‐analysis of the available data on the gastrointestinal and liver manifestations of patients with COVID‐19 was performed. PubMed and Scopus databases and Google Scholar search engine were searched for published and unpublished preprint articles up to 10 April 2020. Original studies providing information on clinical digestive symptoms or biomarkers of liver function in patients with polymerase chain reaction confirmed diagnosis of COVID‐19 were included. After quality appraisal, data were extracted. Prevalence data from individual studies were pooled using a random‐effects model. Overall, 67 studies were included in this systematic review and meta‐analysis, comprising a pooled population of 13 251 patients with confirmed COVID‐19. The most common gastrointestinal symptoms were anorexia (10.2%, 95% confidence interval [CI] = 6.2%‐16.4%), diarrhea (8.4%, 95% CI = 6.2%‐11.2%), and nausea (5.7%, 95% CI = 3.7%‐8.6%), respectively. Decreased albumin levels (39.8%, 95% CI = 15.3%‐70.8%), increased aspartate aminotransferase (22.8%, 95% CI = 18.1%‐28.4%), and alanine aminotransferase (20.6%, 95% CI = 16.7%‐25.1%) were common hepatic findings. After adjusting for preexisting gastrointestinal (5.9%) and liver diseases (4.2%), the most common gastrointestinal findings were diarrhea (8.7%, 95% CI = 5.4%‐13.9%), anorexia (8.0%, 95% CI = 3.0%‐19.8%), and nausea (5.1%, 95% CI = 2.2%‐14.3%). Gastrointestinal and liver manifestations are not rare in patients with COVID‐19, but their prevalence might be affected by preexisting diseases. Diarrhea and mild liver abnormalities seem to be relatively common in COVID‐19, regardless of comorbidities
Optimized Polyethylene Glycolylated Polymer–Lipid Hybrid Nanoparticles as a Potential Breast Cancer Treatment

Purpose: The aim of this work is to optimize a polyethylene glycolated (PEGylated) polymer–lipid hybrid nanoparticulate system for the delivery of anastrozole (ANS) to enhance its biopharmaceutical attributes and overall efficacy. Methods: ANS loaded PEGylated polymer–lipid hybrid nanoparticles (PLNPs) were prepared by a direct emulsification solvent evaporation method. The physical incorporation of PEG was optimized using variable ratios. The produced particles were evaluated to discern their particle size and shape, zeta-potential, entrapment efficiency, and physical stability. The drug-release profiles were studied, and the kinetic model was analyzed. The anticancer activity of the ANS PLNPs on estrogen-positive breast cancer cell lines was determined using flow cytometry. Results: The prepared ANS-PLNPs showed particle sizes in the range of 193.6 ± 2.9 to 218.2 ± 1.9 nm, with good particle size uniformity (i.e., poly-dispersity index of around 0.1). Furthermore, they exhibited relatively low zeta-potential values ranging from −0.50 ± 0.52 to 6.01 ± 4.74. The transmission electron microscopy images showed spherical shape of ANS-PLNPs and the compliance with the sizes were revealed by light scattering. The differential scanning calorimetry DSC patterns of the ANS PLNPs revealed a disappearance of the characteristic sharp melting peak of pure ANS, supporting the incorporation of the drug into the polymeric matrices of the nanoparticles. Flow cytometry showed the apoptosis of MCF-7 cell lines in the presence of ANS-PLNPs. Conclusion: PEGylated polymeric nanoparticles presented a stable encapsulated system with which to incorporate an anticancer drug (ANS) with a high percentage of entrapment efficiency (around 80%), good size uniformity, and induction of apoptosis in MCF-7 cells.
Correlation of fecal metabolomics and gut microbiota in mice with endometriosis

Endometriosis (EMS) is a chronic inflammatory disease with unclear pathogenesis. Three studies have uncovered the influence of gut microbiota on mice with EMS, but no study has investigated the characteristics of fecal metabolomics to determine some important clues on EMS. This research aims to uncover the interaction between fecal metabolomics and gut microbiota in EMS mice.
OCCURRENCE OF GENETICALLY MODIFIED MAIZE AND SOYBEAN IN ANIMAL FEEDINGSTUFFS

To determine genetically modified organisms (GMO) in feed, qualitative and quantitative methods, based on PCR and Real Time PCR techniques, were used. As a GMO positive samples were described samples, in which reference gene, CaMV 35S or/and NOS, and any transgene were found. For positive samples quantitation of specific GMO was done. In 2005, 87 samples were examined, and in 53 (61%) of them GMO were found. Among them 50 (94%) samples were positive for Roundup Ready soya, and only 3 (6%) contained genetically modified (GM) maize at low levels, less than 0.9%. In 13 samples of maize checked for Bt10 variety, there were no positives samples. Major GM feed material used for animal feeding in Poland is soya Roundup Ready.
The Anchoring-and-Adjustment Heuristic

One way to make judgments under uncertainty is to anchor on information that comes to mind and adjust until a plausible estimate is reached. This anchoring-and-adjustment heuristic is assumed to underlie many intuitive judgments, and insufficient adjustment is commonly invoked to explain judgmental biases. However, despite extensive research on anchoring effects, evidence for adjustment-based anchoring biases has only recently been provided, and the causes of insufficient adjustment remain unclear. This research was designed to identify the origins of insufficient adjustment. The results of two sets of experiments indicate that adjustments from self-generated anchor values tend to be insufficient because they terminate once a plausible value is reached (Studies 1a and 1b) unless one is able and willing to search for a more accurate estimate (Studies 2a-2c).
Effects of temperature and food availability on growth rate during late larval stage of Japanese anchovy (Engraulis japonicus) in the Kuroshio–Oyashio transition region

During periods when the population size of Japanese anchovy Engraulis japonicus is large, the abundance of 1-yr olds has been considered to be dependent on the growth and survival processes in the late larval and early juvenile stages in the Kuroshio–Oyashio transition region off northern Japan. Recent growth rates for 10 days before capture of larval and early juvenile E. japonicus were estimated and examined in relation to the surface water temperature and the available copepod density in 1997, 1998 and 1999. Late larval and early juvenile E. japonicus were distributed in the waters with temperature from 15 to 19°C and available prey density from 10 to 1000 mg dry weight (DW) m−2 in the transition region. The late larval growth rates were found to be regulated more strongly by water temperature than by copepod density in the waters <16°C, and more strongly by copepod density than water temperature in the waters <100 mg DW m−2 in the Kuroshio–Oyashio transition region. The recent growth rates decreased from the western waters to the eastern waters in the survey area 140–170°E in 1998, correlating with decreases of food availability to 50–100 mg DW m−2. While in 1999, the recent growth rates were faster in the waters east of 150°E, resulting from eastward expansion of warm water ranges and high available prey density 100–400 mg DW m−2. The key environmental factors regulating late larval growth rate of E. japonicus in the transition region seem to be spatially different between years.
AMPK, Mitochondrial Function, and Cardiovascular Disease

Adenosine monophosphate-activated protein kinase (AMPK) is in charge of numerous catabolic and anabolic signaling pathways to sustain appropriate intracellular adenosine triphosphate levels in response to energetic and/or cellular stress. In addition to its conventional roles as an intracellular energy switch or fuel gauge, emerging research has shown that AMPK is also a redox sensor and modulator, playing pivotal roles in maintaining cardiovascular processes and inhibiting disease progression. Pharmacological reagents, including statins, metformin, berberine, polyphenol, and resveratrol, all of which are widely used therapeutics for cardiovascular disorders, appear to deliver their protective/therapeutic effects partially via AMPK signaling modulation. The functions of AMPK during health and disease are far from clear. Accumulating studies have demonstrated crosstalk between AMPK and mitochondria, such as AMPK regulation of mitochondrial homeostasis and mitochondrial dysfunction causing abnormal AMPK activity. In this review, we begin with the description of AMPK structure and regulation, and then focus on the recent advances toward understanding how mitochondrial dysfunction controls AMPK and how AMPK, as a central mediator of the cellular response to energetic stress, maintains mitochondrial homeostasis. Finally, we systemically review how dysfunctional AMPK contributes to the initiation and progression of cardiovascular diseases via the impact on mitochondrial function.
Protein-Protein interactions uncover candidate ‘core genes’ within omnigenic disease networks

Genome wide association studies (GWAS) of human diseases have generally identified many loci associated with risk with relatively small effect sizes. The omnigenic model attempts to explain this observation by suggesting that diseases can be thought of as networks, where genes with direct involvement in disease-relevant biological pathways are named ‘core genes’, while peripheral genes influence disease risk via their interactions or regulatory effects on core genes. Here, we demonstrate a method for identifying candidate core genes solely from genes in or near disease-associated SNPs (GWAS hits) in conjunction with protein-protein interaction network data. Applied to 1,381 GWAS studies from 5 ancestries, we identify a total of 1,865 candidate core genes in 343 GWAS studies. Our analysis identifies several well-known disease-related genes that are not identified by GWAS, including BRCA1 in Breast Cancer, Amyloid Precursor Protein (APP) in Alzheimer’s Disease, INS in A1C measurement and Type 2 Diabetes, and PCSK9 in LDL cholesterol, amongst others. Notably candidate core genes are preferentially enriched for disease relevance over GWAS hits and are enriched for both Clinvar pathogenic variants and known drug targets—consistent with the predictions of the omnigenic model. We subsequently use parent term annotations provided by the GWAS catalog, to merge related GWAS studies and identify candidate core genes in over-arching disease processes such as cancer–where we identify 109 candidate core genes.
Spatio-Temporal Dynamics of Tick-Borne Diseases in North-Central Wisconsin from 2000–2016

Lyme disease is a well-recognized public health problem in the USA, however, other tick-borne diseases also have major public health impacts. Yet, limited research has evaluated changes in the spatial and temporal patterns of non-Lyme tick-borne diseases within endemic regions. Using laboratory data from a large healthcare system in north-central Wisconsin from 2000–2016, we applied a Kulldorf’s scan statistic to analyze spatial, temporal and seasonal clusters of laboratory-positive cases of human granulocytic anaplasmosis (HGA), babesiosis, and ehrlichiosis at the county level. Older males were identified as the subpopulation at greatest risk for non-Lyme tick-borne diseases and we observed a statistically significant spatial and temporal clustering of cases (p < 0.05). HGA risk shifted from west to east over time (2000–2016) with a relative risk (RR) ranging from 3.30 to 11.85, whereas babesiosis risk shifted from south to north and west over time (2004–2016) with an RR ranging from 4.33 to 4.81. Our study highlights the occurrence of non-Lyme tick-borne diseases, and identifies at-risk subpopulations and shifting spatial and temporal heterogeneities in disease risk. Our findings can be used by healthcare providers and public health practitioners to increase public awareness and improve case detection.
Supplementation with vitamin D in the COVID-19 pandemic?

Abstract The coronavirus disease 2019 (COVID-19) pandemic was declared a public health emergency of international concern by the World Health Organization. COVID-19 has high transmissibility and could result in acute lung injury in a fraction of patients. By counterbalancing the activity of the renin-angiotensin system, angiotensin-converting enzyme 2, which is the fusion receptor of the virus, plays a protective role against the development of complications of this viral infection. Vitamin D can induce the expression of angiotensin-converting enzyme 2 and regulate the immune system through different mechanisms. Epidemiologic studies of the relationship between vitamin D and various respiratory infections were reviewed and, here, the postulated mechanisms and clinical data supporting the protective role of vitamin D against COVID-19–mediated complications are discussed.
Identification of novel Arabidopsis thaliana genes which are induced by high levels of boron

Boron (B) is an essential nutrient for plants but is toxic at high levels. We performed transcriptome analysis under conditions of both low and high B in Arabidopsis thaliana. There is a positive correlation between the levels of gene induction by low and high B, suggesting that common pathways operate during these responses. Induction by high B was also confirmed for nine genes in an independent experiment. Transcripts of At1g03770 (transcription factor) and At5g57340 were found to be elevated in roots, whereas At2g04040, At2g04050, At2g04070 (all encoding multidrug and toxic compound extrusion transporters), At1g32870 (transcription factor), At5g51440 (heat shock protein-like), At2g41730 and At2g21640 are induced in the shoots. The accumulation of both At2g04050 and At5g51440 transcripts was further found to be elevated by more than 100-fold after two days of high B treatment. Our findings thus represent the first identification of high B-induced genes.