bluuebunny/crossref_metadata_2025_split huggingface dataset:
Estimating tree age of rubber stands using spaceborne L-band synthetic aperture radar
Authors: Trisasongko B H , Panuju D R , Iman L O S 
Published: January 2020

Abstract
Earth-observing data have been employed for plantation’s detection and monitoring within the context of land cover planning. Rising utilization has recently been observed for detailed tree assessment on very specific commodities such as oil palm. In this article, evaluation of spaceborne Synthetic Aperture Radar (SAR) is presented, taking the outstanding benefit of high resolution fully polarimetric data recently available worldwide. Primary goal of the research was to evaluate SAR imagery for the detection of stand age of rubber plantation. We found that coupling fully polarimetric data and Random Forests (RF) as the classifier could yield more than 80% accuracy. This indicates that Earth-observing data serve as potential backbone for mapping and investigating plantations in remote locations.
Distribution and population density of the alang-alang gall midge, Orseolia javanica kieffer & van leeuwen-reijnvaan (Diptera: Cecidomyiidae)
Authors: Hidayat P , Aviansyah I , Gumilang B L 
Published: January 2020

Abstract
Weeds is one of the remaining problems in the estate crops. Among the top ten noxious weeds is the cogongrass or alang-alang (Imperata cylindrica). The weed is easily dispersed, 60% of its biomass is under the ground and it is difficult to be controlled. Gall forming insect on alang-alang, Orseolia javanica (Diptera: Cecidomyiidae), is thought to have a potential as biocontrol agent. Gall midge-invested alang-alang will grow abnormal indicated by purplish colour, formed of tube-like leaves, and tapped on the end of the rod. A research was conducted to study the cogongrass gall midge distribution in West Java, Central Java, and Yogyakarta provinces as well as its population dynamic in Cianjur district. The distribution of cogongrass gall midge was found in the area with the altitudes of 331-1250 m above sea level. The highest population of the gall midge in Cianjur was 31 galls per m2. There is a positive correlation between population dynamic of the gall midge in Cianjur and the rainfall intensity. The result of this study suggests that the gall formation density is relatively high despite high parasitization by hymenopteran was observed.
Policy governance of climate change to strengthen national resilience in Indonesia
Authors: Ariana Lutfah 
Published: January 2020

Abstract
Economic growth has led to tremendous environmental changes including resulted pollution, overexploitation of natural resources (biodiversity), converted land/sea (reclamation) and increasing carbon emissions. How developing countries have ability to manage climate change impacts as committed in international climate agreement such as the Intended Nationally Determined Contributions (INDCs), UNFCCC, COP 21 and so on, is important to be analyzed. As middle income countries, most developing countries (such as Indonesia) have already dealed with other various issues – political, economic, social, etc – in which most government put their priorities and allocate most of their resources to solve those challenges. It is critical to provide policy framework on adaptation and mitigation of climate change impact to strengthen national resilience. As conceptual paper this study aims to analyse the policy governance that integrate the perspective of social and economic issues to address the impacts of climate change on particular case. By exploring global issues of multi level perspectives, this paper provides several propositions for policy makers to strengthen the key strategic policy in national and local contexts of climate change challenges.
An inexpensive system for the deterministic transfer of 2D materials
Authors: Zhao Qinghua , Wang Tao , Ryu Yu Kyoung , Frisenda Riccardo , Castellanos-Gomez Andres 
Published: January 2020

Abstract
The development of systems for the deterministic transfer of two-dimensional (2D) materials have undoubtedly contributed to great advancements in 2D materials research. In fact, they have made it possible to fabricate van der Waals heterostructures and 2D materials-based devices with complex architectures. Nonetheless, as far as we know, the number of existing papers providing enough details to reproduce these systems by other research groups is very scarce in the literature. Moreover, these systems typically require the use of expensive optical and mechanical components hampering their applicability in research groups with a low budget. Here, we demonstrate how a deterministic placement system for 2D materials, set up with full capabilities, can be implemented for under 900 € -- which can be easily implemented in labs and educational labs with low budgets.
Offshoring Migration Control: Guatemalan Transmigrants and the Construction of Mexico as a Buffer Zone
Authors: Raquel Minian Ana 
Published: January 2020

Abstract
During the late Cold War, the United States and Western European countries offshored migration control to less powerful nations by converting them into buffer zones. Buffer zones had long been used to provide nations with military protection; now they were imagined as protecting nations from migrants by obstructing their movement. This practice had human rights implications. Beginning in the 1970s, the idea flourished that the defense of individual human rights was a transnational mandate that extended beyond the protections granted by particular nation-states. Ironically, the transnational practice of extending migration controls beyond individual nation-states that developed in the 1980s opened the door to increased human rights violations. This essay explores these dynamics by focusing on how, during the 1980s, U.S. officials pressured Mexican authorities to enter into a Faustian bargain that limited Mexico’s sovereign right to determine its immigration practices. U.S. policymakers insisted that they would turn a blind eye to Mexican migration if Mexican officials suppressed Central American migration into and through Mexico. In turn, Mexico’s leaders instituted measures to stop Central Americans from reaching the United States. These measures did not curtail transmigration, but they did lead to widespread violence and human rights abuses.
Cohort Differences in the Associations of Selected Candidate Genes With Risk of All-Cause Mortality at Advanced Ages
Authors: Tan Qihua , Jacobsen Rune , Nygaard Marianne , Soerensen Mette , Mengel-From Jonas , Christiansen Lene , Christensen Kaare 
Published: January 2020

AbstractConsiderable efforts have been made to identify the genetic basis of human longevity, with only limited progress. One important drawback of current genetic studies is the limited knowledge of gene-environment interaction. Using 2 cohorts of long-lived individuals born in 1905 and 1915 in Denmark, we performed survival analysis to estimate risk of mortality for major candidate genes of aging and longevity and their cohort effects. Through statistical modeling that combines individual genetic and survival information with cohort-specific survival data, we estimated the relative risks of mortality from ages 95 to 103 years associated with genetic variants in apolipoprotein E (APOE), forkhead box class O3a, clusterin, and phosphatidylinositol binding clathrin assembly protein. Our analysis estimated a decreased risk of carrying the APOE$\varepsilon $4 allele (change in risk = –0.403, 95% confidence interval (CI): −0.831, 0.021; P = 0.040) in men of the later cohort, although the allele itself was harmful to survival across sexes (relative risk = 1.161, 95% CI: 1.027, 1.345; P = 0.026). We also estimated a cohort effect of increased risk for the minor allele of rs3851179 in phosphatidylinositol binding clathrin assembly protein with borderline significance (change in risk = 0.165, 95% CI: −0.010, 0.331; P = 0.052) in women. Our estimated significant cohort effect on APOE$\varepsilon $4 is indicative of the interplay between the gene and the changing environment that modulates survival at extreme ages.
Molecular control of masting: an introduction to an epigenetic summer memory
Authors: Samarth  , Kelly Dave , Turnbull Matthew H , Jameson Paula E 
Published: January 2020

AbstractBackgroundMast flowering (‘masting’) is characterized by mass synchronized flowering at irregular intervals in populations of perennial plants over a wide geographical area, resulting in irregular high seed production. While masting is a global phenomenon, it is particularly prevalent in the alpine flora of New Zealand. Increases in global temperature may alter the masting pattern, affecting wider communities with a potential impact on plant–pollinator interactions, seed set and food availability for seed-consuming species.ScopeThis review summarizes an ecological temperature model (ΔT) that is being used to predict the intensity of a masting season. We introduce current molecular studies on flowering and the concept of an ‘epigenetic summer memory’ as a driver of mast flowering. We propose a hypothetical model based on temperature-associated epigenetic modifications of the floral integrator genes FLOWERING LOCUS T, FLOWERING LOCUS C and SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1.ConclusionsGenome-wide transcriptomic and targeted gene expression analyses are needed to establish the developmental and physiological processes associated with masting. Such analyses may identify changes in gene expression that can be used to predict the intensity of a forthcoming masting season, as well as to determine the extent to which climate change will influence the mass synchronized flowering of masting species, with downstream impacts on their associated communities.
Associations Between Multiple Remote Mild TBIs and Objective Neuropsychological Functioning and Subjective Symptoms in Combat-Exposed Veterans
Authors: Merritt Victoria C , Jurick Sarah M , Crocker Laura D , Sullan Molly J , Sakamoto McKenna S , Davey Delaney K , Hoffman Samantha N , Keller Amber V , Jak Amy J 
Published: January 2020

AbstractObjectiveThe purpose of this study was to evaluate relationships between multiple mild traumatic brain injuries (mTBIs) and objective and subjective clinical outcomes in a sample of combat-exposed Veterans, adjusting for psychiatric distress and combat exposure.MethodIn this cross-sectional study, 73 combat-exposed Iraq/Afghanistan Veterans were divided into three groups based on mTBI history: 0 mTBIs (n = 31), 1–2 mTBIs (n = 21), and 3+ mTBIs (n = 21). Veterans with mTBI were assessed, on average, 7.78 years following their most recent mTBI. Participants underwent neuropsychological testing and completed self-report measures assessing neurobehavioral, sleep, and pain symptoms.ResultsMANCOVAs adjusting for psychiatric distress and combat exposure showed no group differences on objective measures of attention/working memory, executive functioning, memory, and processing speed (all p’s &gt; .05; ηp2 = .00–.06). In contrast, there were significant group differences on neurobehavioral symptoms (p’s = &lt; .001–.036; ηp2 = .09–.43), sleep difficulties (p = .037; ηp2 = .09), and pain symptoms (p &lt; .001; ηp2 = .21). Pairwise comparisons generally showed that the 3+ mTBI group self-reported the most severe symptoms, followed by comparable symptom reporting between the 0 and 1–2 mTBI groups.ConclusionsHistory of multiple, remote mTBIs is associated with elevated subjective symptoms but not objective neuropsychological functioning in combat-exposed Veterans. These results advance understanding of the long-term consequences of repetitive mTBI in this population and suggest that Veterans with 3+ mTBIs may especially benefit from tailored treatments aimed at ameliorating specific neurobehavioral, sleep, and pain symptoms.
Is Volume Retention of the Breast Affected by Menstrual Cycle Phase at the Time of Autologous Fat Grafting?
Authors: Wang Keke , Mu Dali , Zhang Xiaoyu , Lin Yan 
Published: January 2020

Abstract

Background
Autologous fat grafts are commonly employed in plastic surgery, especially for aesthetic breast augmentation. However, it is difficult to predict the postoperative fat volume retention rate.

Objectives
The authors conducted a retrospective study comparing the fat volume retention rates of breast lipoaugmentation performed during different phases of the menstrual cycle.

Methods
The study included patients who underwent autologous fat grafting (AFG) breast augmentation from January 2012 to December 2018. Forty-eight individuals (94 breasts) were separated into 3 groups according to their menstrual stage: Group A: 10 patients (18 breasts); follicular group (end of menstruation to approximately 10 days); Group B: 15 patients (30 breasts); ovulatory group (11-17 days); Group C: 23 patients (46 breasts); luteal group (approximately 18 days to the next menstrual cramps).

Results
Mean age, menarche age, menstrual cycle, menstruation, and body mass index were comparable among the groups (P &gt; 0.05). Patients with a history of lactation were comparable among the groups (Group A, 50%; Group B, 53.33%; Group C, 43.48%, P &gt; 0.05). The overall volume retention rate of patients who underwent AFG during ovulation was significantly higher (Group A, 26.94%; Group B, 49.06%, Group C, 35.73%, P = 0.023), with no significant difference in volume retention rates between the follicular and luteal phases (P &gt; 0.05).

Conclusions
Fat volume retention rates were higher when AFG breast augmentation was performed during ovulation, providing a new direction to improve long-term retention rates of autologous fat grafts. However, due to the small sample size, incomplete medical records, and lack of test data, further research is needed.

Level of Evidence: 4
Visualization of circular RNAs and their internal splicing events from transcriptomic data
Authors: Zheng Yi , Zhao Fangqing 
Published: January 2020

Abstract

Summary
Circular RNAs (circRNAs) are proved to have unique compositions and splicing events distinct from canonical mRNAs. However, there is no visualization tool designed for the exploration of complex splicing patterns in circRNA transcriptomes. Here, we present CIRI-vis, a Java command-line tool for quantifying and visualizing circRNAs by integrating the alignments and junctions of circular transcripts. CIRI-vis can be applied to visualize the internal structure and isoform abundance of circRNAs and perform circRNA transcriptome comparison across multiple samples.

Availability and implementation
https://sourceforge.net/projects/ciri/files/CIRI-vis.

Supplementary information
Supplementary data are available at Bioinformatics online.
Disconnects between Communicated Impact and Ecological Impact of Biological Invasions
Authors: Mattingly Kali Z , Pelletier Tara A , Lanterman Jessie , Frevola Danielle , Stucke Benjamin , Kinney Kaitlin , Schwartz Ross , Spacht Drew , Dixon Graham , Hovick Stephen M 
Published: January 2020

AbstractAlthough scientists strive to accurately communicate their research, disconnects can arise between results and rhetoric. Some have regarded invasion scientists as particularly prone to using value-laden language incommensurate with the scientific facts or results. We addressed how authors used 10 near synonyms (words for which usage is similar but not completely overlapping) of the negative-value word invasive. We asked whether study findings (effect sizes) or other factors predicted language use. The use of negative-value words such as invasive was not associated with study findings but, instead, with contextual factors. For example, plant and invertebrate biologists used more negative language to describe nonnatives than did those studying vertebrates. The authors also tended to use more negative language in recently published papers than in older studies. Although many have called for impartial language when communicating research, some scientists use language imbued with value that may be inappropriate. Such use may affect how the public perceives scientific findings.
Clinical Impact of Metagenomic Next-Generation Sequencing of Plasma Cell-Free DNA for the Diagnosis of Infectious Diseases: A Multicenter Retrospective Cohort Study
Authors: Hogan Catherine A , Yang Shangxin , Garner Omai B , Green Daniel A , Gomez Carlos A , Dien Bard Jennifer , Pinsky Benjamin A , Banaei Niaz 
Published: January 2020

Abstract

Background
Metagenomic next-generation sequencing (mNGS) of plasma cell-free DNA has emerged as an attractive diagnostic modality allowing broad-range pathogen detection, noninvasive sampling, and earlier diagnosis. However, little is known about its real-world clinical impact as used in routine practice.

Methods
We performed a retrospective cohort study of all patients for whom plasma mNGS (Karius test) was performed for all indications at 5 United States institutions over 1.5 years. Comprehensive records review was performed, and standardized assessment of clinical impact of the mNGS based on the treating team’s interpretation of Karius results and patient management was established.

Results
A total of 82 Karius tests were evaluated from 39 (47.6%) adults and 43 (52.4%) children and a total of 53 (64.6%) immunocompromised patients. Karius positivity rate was 50 of 82 (61.0%), with 25 (50.0%) showing 2 or more organisms (range, 2–8). The Karius test results led to positive impact in 6 (7.3%), negative impact in 3 (3.7%), and no impact in 71 (86.6%), and was indeterminate in 2 (2.4%). Cases with positive Karius result and clinical impact involved bacteria and/or fungi but not DNA viruses or parasites. In 10 patients who underwent 16 additional repeated tests, only 1 was associated with clinical impact.

Conclusions
The real-world impact of the Karius test as currently used in routine clinical practice is limited. Further studies are needed to identify high-yield patient populations, define the complementary role of mNGS to conventional microbiological methods, and discern how best to integrate mNGS into current testing algorithms.
Immunoradiometric assay of myosin heavy chain fragments in plasma for investigation of myocardial infarction
Authors: Larue Catherine , Calzolari Charles , Léger Jocelyne , Léger Jean , Pau Bernard 
Published: January 2020

Abstract
Estimation of the extent and location of infarct is important for the prognosis and hence therapeutic strategy in patients with acute myocardial infarction (AMI). Because cardiac myosin is the major structural protein of the myocardium, and may thus reflect the extent of injured tissue, we established a new sensitive immunoradiometric assay, using a pair of monoclonal antibodies (Mabs) that specifically bind the myosin heavy chain fragments liberated from the myocyte into plasma after a heart attack. A first Mab is linked to a magnetic solid phase. A second Mab, radiolabeled with 125I, is used to detect myosin trapped on the solid phase by the first Mab during a 3-h incubation. This assay can detect 10 micro-units of myosin per liter and is highly reproducible.
Indocyanine green-sulfobromophthalein pharmacokinetics for diagnosing primary biliary cirrhosis and assessing histological severity
Authors: Vaubourdolle M , Gufflet V , Chazouillères O , Giboudeau J , Poupon R 
Published: January 2020

Abstract
Primary biliary cirrhosis (PBC) is a chronic cholestatic disease in which there is a crucial need for quantitative liver-function tests. We have developed a mixed sulfobromophthalein (BSP)-indocyanine green (ICG) test and have applied it to 15 healthy subjects and 50 patients with PBC to determine its relevance to the histological severity of the disease. The two dyes were administered intravenously and sequentially as boluses. Plasma concentrations were measured over 60 min. Pharmacokinetic analysis of the plasma elimination curve permitted the calculation of clearance, constants k1 and k2, and the retention percentage at 45 min. In PBC patients, ICG kinetics were within the normal range except for those with stage IV disease (cirrhosis). BSP clearance and the k2 constant were reduced in all the patients, whereas the k1 constant was reduced only in stage III and IV disease. The BSP retention percentage at 45 min was highly correlated with histological stage (r = 0.89, P less than 0.001). The BSP-ICG mixed test may thus prove useful in the diagnosis and follow-up of patients with PBC.
Radioimmunoassay of interleukin-6 in plasma
Authors: Teppo A M , Metsärinne K , Fyhrquist F 
Published: January 2020

Abstract
We present a double-antibody radioimmunoassay for determining human interleukin-6 (IL-6) in biological fluids. The detection limit of the assay is 20 ng/L (B0 - 2 SD). Bound radioactivity in the range of 30% to 90% of the B0 counts corresponds to IL-6 concentrations of 100 to 14,000 ng/L. Analytical recovery of IL-6 added to EDTA-treated plasma averaged 25% more than that added to serum. The plasma concentration of IL-6 was therefore approximately 85 ng/L more than the concentration in simultaneously drawn serum. The mean serum concentration of IL-6 in 45 healthy subjects was 83 ng/L (range 20-290 ng/L), in 20 patients with multiple myeloma 303 ng/L, in 20 patients with rheumatoid arthritis 234 ng/L, and in 13 patients with systemic lupus erythematosus 183 ng/L. Markedly increased (greater than 3000 ng/L) concentrations of IL-6 were found in sera of patients with meningococcus meningitis and infectious peritonitis.
Immunoradiometric assay of pS2 protein in breast cancer cytosols
Authors: Goussard J , Lechevrel C , Roussel G , Cren H , Bera O , Sala M 
Published: January 2020

Abstract
We studied the ELSA-pS2 immunoradiometric kit (CIS Bio International) for pS2 protein assay in breast cancer cytosols according to classic validation methods. In addition, we studied correlations between pS2, steroid receptors, and cathepsin-D assays. Repeatability (CV = 1.5% to 4.8%) and reproducibility (CV = 1.6% to 4.9%) were good. The results were linearly related to pS2 concentrations between 205 and 2200 ng/L; the detection limit was 40 ng/L. The accuracy of the assay was measured by assessing recovery; analytical recoveries were near 100% throughout the standard curve. The use of different compounds for cytosol preparation (Tris 10 mmol/L or phosphate 25 mmol/L, KCl 0.4 mol/L, bovine serum albumin 1 g/L) had no effect on pS2 results. pS2 was assayed in breast tumor cytosols from 197 postmenopausal and 92 premenopausal patients. The mean value was 24 micrograms/g of protein; the median and 25th and 75th percentiles were 6, 1, and 23 micrograms/g protein, respectively. We observed a relation between concentrations of pS2 and those of estrogen and progesterone receptors, but there was no relationship between the concentrations of pS2 and cathepsin-D.
Comparison of thyroperoxidase and microsomal antibody assays in sera from patients with Graves disease
Authors: Massart C , Guilhem I , Gibassier J , Allannic H , Nicol M 
Published: January 2020

Abstract
Anti-microsomal (anti-Mic Ab) and anti-thyroperoxidase antibody activities (anti-TPO Ab) were compared by using commercially available radioassay kits. Sera were collected from 52 patients with Graves disease before and after administration of carbimazole (1-methyl-2-thio-3-carbethoxyimidazole). The two antibody concentrations were significantly correlated, both before treatment (r = 0.835, P less than 0.001, n = 52) and at the end of treatment (r = 0.584, P less than 0.001, n = 52). Twenty-nine (Group I) of the 52 patients were in remission for two years after drug withdrawal, whereas 23 (Group II) relapsed. Within each group, the anti-Mic and anti-TPO Ab concentrations were significantly correlated (Group I: r = 0.781, P less than 0.0001; Group II: r = 0.866, P less than 0.0001). Relapse vs nonrelapse was linked to the antibody positivities measured before treatment: 91% vs 65% (chi 2 = 4.75, P less than 0.02) for anti-Mic Ab and 87% vs 62% (chi 2 = 4.05, P less than 0.02) for anti-TPO Ab. We conclude that assays of anti-Mic and anti-TPO Ab are equally reliable analytically and equally informative clinically. Because of its rapid implementation, the anti-TPO assay may advantageously replace anti-Mic Ab assay, especially for forming a prognosis of Graves disease.