bluuebunny/crossref_metadata_2025_split huggingface dataset:
Self-powered, flexible and room temperature operated solution processed hybrid metal halide p-type sensing element for efficient hydrogen detection
Authors: Gagaoudakis E , Panagiotopoulos A , Maksudov T , Moschogiannaki M , Katerinopoulou D , Kakavelakis G , Kiriakidis G , Binas V , Kymakis E , Petridis K 
Published: December 2019

Abstract
Hydrogen (H2) is a well-known reduction gas and for safety reasons is very important to be detected. The most common systems employed along its detection are metal oxide-based elements. However, the latter demand complex and expensive manufacturing techniques, while they also need high temperatures or UV light to operate effectively. In this work, we first report a solution processed hybrid mixed halide spin coated perovskite films (CH3NH3PbI3−x
Cl
x
) that have been successfully applied as portable, flexible, self-powered, fast and sensitive hydrogen sensing elements, operating at room temperature. The minimum concentrations of H2 gas that could be detected was down to 10 ppm. This work provides a new pathway on gases interaction with perovskite materials, poses new questions that must be addressed regarding the sensing mechanisms involved. The utilization of halide perovskite sensing elements demonstrates their potential beyond solar cell applications.
Operational stability of perovskite light emitting diodes
Authors: Dong Qi , Lei Lei , Mendes Juliana , So Franky 
Published: December 2019

Abstract
Organometal halide perovskite light emitting diodes (LEDs) have attracted a lot of attention in recent years, owing to the rapid progress in device efficiency. However, their short operational lifetime severely impedes the practical uses of these devices. The operating stability of perovskite LEDs are due to degradation due to ambient environment and degradation during operation. The former can be suppressed by encapsulation while the latter one is the intrinsic degradation due to the electrochemical stability of the perovskite materials. In addition, perovskites also suffer from ion migration which is a major degradation mechanism in perovskite LEDs. In this review, we specifically focus on the operational stability of perovskite LEDs. The review is divided into two parts: the first part contains a summary of various degradation mechanisms and some insight on the degradation behavior and the second part is the strategies how to improve the operational stability, especially the strategies to suppress ion migration. Based on the current advances in the literature, we finally present our perspectives to improve the device stability.
All optical fiber thermal vacuum gauge
Authors: Mironov Andrey E , Yu Nanjie , Park Sehyun , Tuggle Matthew , Gragg Jane , Kucera Courtney , Hawkins Thomas , Ballato John , Eden J Gary , Dragic Peter 
Published: December 2019

Abstract
A new concept of an all optical, dual-fiber-based Pirani thermal vacuum gauge is proposed and demonstrated. The configuration utilizes two fibers: one that produces heat, and one that responds to the resultant thermal exchange. The temperature of the latter fiber is a function of the heat transfer through the gas in which it resides. The active heat-generating fiber is a luminescence-quenched, heavily Yb3+-doped optical fiber that efficiently produces thermal energy when optically pumped. The temperature sensor is implemented with a conventional commercial fiber Bragg grating. Both fibers are inserted into a custom vacuum chamber whose internal pressure can be carefully controlled. Performance of the system is characterized with pressures ranging from 20 mTorr to Standard Pressure. The proposed system may also be used as a sensitive flow rate sensor.
Single-cell transcriptomics from human pancreatic islets: sample preparation matters
Authors: Bonnycastle Lori L , Gildea Derek E , Yan Tingfen , Narisu Narisu , Swift Amy J , Wolfsberg Tyra G , Erdos Michael R , Collins Francis S 
Published: December 2019

Abstract
Single-cell RNA sequencing (scRNA-seq) of human primary tissues is a rapidly emerging tool for investigating human health and disease at the molecular level. However, optimal processing of solid tissues presents a number of technical and logistical challenges, especially for tissues that are only available at autopsy, which includes pancreatic islets, a tissue that is highly relevant to diabetes. To assess the possible effects of different sample preparation protocols on fresh islet samples, we performed a detailed comparison of scRNA-seq data generated with islets isolated from a human donor but processed according to four treatment strategies, including fixation and cryopreservation. We found significant and reproducible differences in the proportion of cell types identified, and more minor effects on cell-specific patterns of gene expression. Fresh islets from a second donor confirmed gene expression signatures of alpha and beta subclusters. These findings may well apply to other tissues, emphasizing the need for careful consideration when choosing processing methods, comparing results between different studies, and/or interpreting data in the context of multiple cell types from preserved tissue.
Hemoglobin E, malaria and natural selection
Authors: Ha Jiwoo , Martinson Ryan , Iwamoto Sage K , Nishi Akihiro 
Published: December 2019

AbstractIt is known that there has been positive natural selection for hemoglobin S and C in humans despite negative health effects, due to its role in malaria resistance. However, it is not well understood, if there has been natural selection for hemoglobin E (HbE), which is a common variant in Southeast Asia. Therefore, we reviewed previous studies and discussed the potential role of natural selection in the prevalence of HbE. Our review shows that in vitro studies, evolutionary genetics studies and epidemiologic studies largely support an involvement of natural selection in the evolution of HbE and a protective role of HbE against malaria infection. However, the evidence is inconsistent, provided from different regions, and insufficient to perform an aggregated analysis such as a meta-analysis. In addition, few candidate gene, genome-wide association or epistasis studies, which have been made possible with the use of big data in the post-genomic era, have investigated HbE. The biological pathways linking HbE and malaria infection have not yet been fully elucidated. Therefore, further research is necessary before it can be concluded that there was positive natural selection for HbE due to protection against malaria.Lay summary: Our review shows that evidence largely supports an involvement of natural selection in the evolution of HbE and a protective role of HbE against malaria. However, the evidence is not consistent. Further research is necessary before it is concluded.
A Galaxy-based training resource for single-cell RNA-sequencing quality control and analyses
Authors: Etherington Graham J , Soranzo Nicola , Mohammed Suhaib , Haerty Wilfried , Davey Robert P , Palma Federica Di 
Published: December 2019

Abstract

Background
It is not a trivial step to move from single-cell RNA-sequencing (scRNA-seq) data production to data analysis. There is a lack of intuitive training materials and easy-to-use analysis tools, and researchers can find it difficult to master the basics of scRNA-seq quality control and the later analysis.

Results
We have developed a range of practical scripts, together with their corresponding Galaxy wrappers, that make scRNA-seq training and quality control accessible to researchers previously daunted by the prospect of scRNA-seq analysis. We implement a “visualize-filter-visualize” paradigm through simple command line tools that use the Loom format to exchange data between the tools. The point-and-click nature of Galaxy makes it easy to assess, visualize, and filter scRNA-seq data from short-read sequencing data.

Conclusion
We have developed a suite of scRNA-seq tools that can be used for both training and more in-depth analyses.
Simulation of site and topographic effects on ground motion in Los Alamos, NM mesas
Authors: Veeraraghavan Swetha , Coleman Justin L , Bielak Jacobo 
Published: December 2019

SUMMARYMesas, which consist of an elevated area of land with a flat top and steep cliffs at the sides, are one of the common geological formations present in the Los Alamos region. Previous research has shown that geological formations such as sedimentary canyons can amplify soil response during earthquakes. There have also been parametric studies to understand the response of an idealized and isolated mountain/canyon under inclined plane waves. In this study, a 2-D linear anelastic soil domain, with topography modelled after the Los Alamos region with many mesas and canyons, is considered to understand site-specific topographic effects in the presence of non-isolated topographical features. Various earthquake sources configurations ranging from point sources to finite faults with varying rupture length, dip angles and spatial slip distributions are considered. To isolate the effect of topography, three other soil domains—a homogeneous half-space, homogeneous half-space with mesas and canyons, and a computational domain with just the soil properties from the Los Alamos region on a flat soil domain is also considered. 2-D site-response analyses of these soil domains under earthquake excitation show that the free-field response of the soil can be amplified or de-amplified depending on the topography of the region and the location of the station relative to the fault. These studies also show that even relatively small mesas with height less than 100 m can significantly amplify the response (by a factor of 2 or more), which differ from the much smaller amplification factors (≤1.2) specified by standard building codes such as Eurocode-8 (2000) for topographical features with a similar slope. De-amplifications are also fairly common, especially close to the canyons. The results from this study agree qualitatively with those from the ambient vibration study conducted by Stolte et al. on a mesa from the Los Alamos region. Thus, such site-specific studies provide important insights into the variability of the topographic amplification factors within a region of interest. Such knowledge is important in the design of safety-related critical infrastructure located within that region.
Combining fisheries surveys to inform marine species distribution modelling
Authors: Moriarty Meadhbh , Sethi Suresh A , Pedreschi Debbi , Smeltz T Scott , McGonigle Chris , Harris Bradley P , Wolf Nathan , Greenstreet Simon P R 
Published: December 2019

Abstract
Ecosystem-scale examination of fish communities typically involves creating spatio-temporally explicit relative abundance distribution maps using data from multiple fishery-independent surveys. However, sampling performance varies by vessel and sampling gear, which may influence estimated species distribution patterns. Using GAMMs, the effect of different gear–vessel combinations on relative abundance estimates at length was investigated using European fisheries-independent groundfish survey data. We constructed a modelling framework for evaluating relative efficiency of multiple gear–vessel combinations. 19 northeast Atlantic surveys for 254 species-length combinations were examined. Space-time variables explained most of the variation in catches for 181/254 species-length cases, indicating that for many species, models successfully characterized distribution patterns when combining data from disparate surveys. Variables controlling for gear efficiency explained substantial variation in catches for 127/254 species-length data sets. Models that fail to control for gear efficiencies across surveys can mask changes in the spatial distribution of species. Estimated relative differences in catch efficiencies grouped strongly by gear type, but did not exhibit a clear pattern across species’ functional forms, suggesting difficulty in predicting the potential impact of gear efficiency differences when combining survey data to assess species’ distributions and highlighting the importance of modelling approaches that can control for gear differences.
Operator System Structures and Extensions of Schur Multipliers
Authors: Lin Ying-Fen , Todorov Ivan G 
Published: December 2019

Abstract
For a given C*-algebra $\mathcal{A}$, we establish the existence of maximal and minimal operator $\mathcal{A}$-system structures on an AOU $\mathcal{A}$-space. In the case $\mathcal{A}$ is a W*-algebra, we provide an abstract characterisation of dual operator $\mathcal{A}$-systems and study the maximal and minimal dual operator $\mathcal{A}$-system structures on a dual AOU $\mathcal{A}$-space. We introduce operator-valued Schur multipliers and provide a Grothendieck-type characterisation. We study the positive extension problem for a partially defined operator-valued Schur multiplier $\varphi $ and, under some richness conditions, characterise its affirmative solution in terms of the equality between the canonical and the maximal dual operator $\mathcal{A}$-system structures on an operator system naturally associated with the domain of $\varphi $.
Analysis of Humoral Immune Responses in Chikungunya Virus (CHIKV)-Infected Patients and Individuals Vaccinated With a Candidate CHIKV Vaccine
Authors: Henss Lisa , Yue Constanze , Von Rhein Christine , Tschismarov Roland , Lewis-Ximenez Lia Laura , Dölle Albert , Baylis Sally A , Schnierle Barbara S 
Published: December 2019

Abstract

Background
Chikungunya virus (CHIKV) is a mosquito-transmitted alphavirus that causes severe flu-like symptoms. The acute symptoms disappear after 1 week, but chronic arthralgia can persist for years. In this study, humoral immune responses in CHIKV-infected patients and vaccinees were analyzed.

Methods
Alphavirus neutralization activity was analyzed with pseudotyped lentiviral vectors, and antibody epitope mapping was performed with a peptide array.

Results
The greatest CHIKV neutralization activity was observed 60–92 days after onset of symptoms. The amount of CHIKV-specific antibodies and their binding avidity and cross-reactivity with other alphaviruses increased over time. Chikungunya virus and o’nyong-nyong virus (ONNV) were both neutralized to a similar extent. Linear antibody binding epitopes were mainly found in E2 domain B and the acid-sensitive regions (ASRs). In addition, serum samples from healthy volunteers vaccinated with a measles-vectored chikungunya vaccine candidate, MV-CHIK, were analyzed. Neutralization activity in the samples from the vaccine cohort was 2- to 6-fold lower than in samples from CHIKV-infected patients. In contrast to infection, vaccination only induced cross-neutralization with ONNV, and the E2 ASR1 was the major antibody target.

Conclusions
These data could assist vaccine design and enable the identification of correlates of protection necessary for vaccine efficacy.
Hepatitis C Virus Incidence in a Cohort in Medication-Assisted Treatment for Opioid Use Disorder in New York City
Authors: Jordan Ashly E , Cleland Charles M , Wyka Katarzyna , Schackman Bruce R , Perlman David C , Nash Denis 
Published: December 2019

Abstract

Background
Hepatitis C virus (HCV) incidence has increased in the worsening opioid epidemic. We examined the HCV preventive efficacy of medication-assisted treatment (MAT), and geographic variation in HCV community viral load (CVL) and its association with HCV incidence.

Methods
HCV incidence was directly measured in an open cohort of patients in a MAT program in New York City between 1 January 2013 and 31 December 2016. Area-level HCV CVL was calculated. Associations of individual-level factors, and of HCV CVL, with HCV incidence were examined in separate analyses.

Results
Among 8352 patients, HCV prevalence was 48.7%. Among 2535 patients seronegative at first antibody test, HCV incidence was 2.25/100 person-years of observation (PYO). Incidence was 6.70/100 PYO among those reporting main drug use by injection. Female gender, drug injection, and lower MAT retention were significantly associated with higher incidence rate ratios. Female gender, drug injection, and methadone doses &lt;60 mg were independently associated with shorter time to HCV seroconversion. HCV CVLs varied significantly by geographic area.

Conclusions
HCV incidence was higher among those with lower MAT retention and was lower among those receiving higher methadone doses, suggesting the need to ensure high MAT retention, adequate doses, and increased HCV prevention and treatment engagement. HCV CVLs vary geographically and merit further study as predictors of HCV incidence.
Comparative Analysis of ELISA Immunoassay and LC-QTOF for Opiate Screening
Authors: Kennedy Dickson , Dani Mata 
Published: December 2019

Abstract
A comparative analysis of enzyme-linked immunosorbent assay (ELISA) and quadrupole time-of-flight mass spectrometry (LC-QTOF) for the detection of opioids in blood samples is presented. The Orange County Crime Lab (OCCL) was concerned that the opioid drug class was not accurately detected at low concentrations due to the use of LC-QTOF as a non-targeted screening method for multiple classes of drugs. In order to investigate this issue, 968 ante-mortem and postmortem blood samples were analyzed by ELISA for the presence of the following opioids: morphine, morphine-glucuronide, codeine, codeine-glucuronide, hydrocodone, hydromorphone, hydromorphone-glucuronide, oxycodone, oxymorphone and oxymorphone-glucuronide. All samples had been previously analyzed by LC-QTOF. Overall, 84 samples tested positive for opioids. Discrepant samples between ELISA and LC-QTOF were analyzed by a liquid chromatography tandem mass spectrometry confirmation method in order to determine the true composition of the sample. Upon review of the discrepant samples, no forensically relevant concentration of opioids was missed by LC-QTOF. Thus, the ability of the OCCL’s LC-QTOF screening method was verified to detect opioids at low concentrations.
Abduction and comparative weighing of explanatory hypotheses: an argumentative approach
Authors: Olmos Paula 
Published: December 2019

Abstract
This paper makes use of the concepts and theoretical framework developed within the field of Argumentation Theory to account for the structure and characteristics of abduction and of the comparative processes of weighing explanatory hypothesis. It elaborates an analysis of abduction based on its consideration as a meta-explanatory argumentation scheme while elucidating its relations with abductive reasoning and inference. The conceptualization of comparative processes of weighing explanatory hypothesis as complex and varied argumentative structures is presented as an alternative to the idea of providing a formally rigid and supposedly universal account of ‘inference to the best explanation’.
Intratesticular Leiomyoma: A Case Report
Authors: Baker Benjamin H , Grossgold Erik T 
Published: December 2019

Abstract
The majority of intratesticular masses are malignant. Although uncommon, benign lesions can be found as an intratesticular mass. An extremely rare lesion in the testicle is a leiomyoma, which has only been reported a handful of times in the literature. We report here a case of intratesticular leiomyoma, the associated imaging, and pathologic findings.
The origin of slow Alfvénic solar wind at solar minimum
Authors: Stansby D , Matteini L , Horbury T S , Perrone D , D’Amicis R , Berčič L 
Published: December 2019

ABSTRACT
Although the origins of slow solar wind are unclear, there is increasing evidence that at least some of it is released in a steady state on overexpanded coronal hole magnetic field lines. This type of slow wind has similar properties to the fast solar wind, including strongly Alfvénic fluctuations. In this study, a combination of proton, alpha particle, and electron measurements are used to investigate the kinetic properties of a single interval of slow Alfvénic wind at 0.35 au. It is shown that this slow Alfvénic interval is characterized by high alpha particle abundances, pronounced alpha–proton differential streaming, strong proton beams, and large alpha-to-proton temperature ratios. These are all features observed consistently in the fast solar wind, adding evidence that at least some Alfvénic slow solar wind also originates in coronal holes. Observed differences between speed, mass flux, and electron temperature between slow Alfvénic and fast winds are explained by differing magnetic field geometry in the lower corona.
Radio and X-ray monitoring of the accreting millisecond X-ray pulsar IGR J17591−2342 in outburst
Authors: Gusinskaia N V , Russell T D , Hessels J W T , Bogdanov S , Degenaar N , Deller A T , van den Eijnden J , Jaodand A D , Miller-Jones J C A , Wijnands R 
Published: December 2019

ABSTRACT
IGR J17591−2342 is a new accreting millisecond X-ray pulsar that was recently discovered in outburst in 2018. Early observations revealed that the source’s radio emission is brighter than that of any other known neutron star low-mass X-ray binary (NS–LMXB) at comparable X-ray luminosity, and assuming its likely ≳6 kpc distance. It is comparably radio bright to black hole LMXBs at similar X-ray luminosities. In this work, we present the results of our extensive radio and X-ray monitoring campaign of the 2018 outburst of IGR J17591−2342. In total, we collected 10 quasi-simultaneous radio (VLA, ATCA) and X-ray (Swift–XRT) observations, which make IGR J17591−2342 one of the best-sampled NS–LMXBs. We use these to fit a power-law correlation index $\beta = 0.37^{+0.42}_{-0.40}$ between observed radio and X-ray luminosities (LR ∝ LXβ). However, our monitoring revealed a large scatter in IGR J17591−2342’s radio luminosity (at a similar X-ray luminosity, LX ∼1036 erg s−1, and spectral state), with LR ∼ 4 × 1029 erg s−1 during the first three reported observations, and up to a factor of 4 lower LR during later radio observations. None the less, the average radio luminosity of IGR J17591−2342 is still one of the highest among NS–LMXBs, and we discuss possible reasons for the wide range of radio luminosities observed in such systems during outburst. We found no evidence for radio pulsations from IGR J17591−2342 in our Green Bank Telescope observations performed shortly after the source returned to quiescence. None the less, we cannot rule out that IGR J17591−2342 becomes a radio millisecond pulsar during quiescence.