bluuebunny/crossref_metadata_2025_split huggingface dataset:
Membrane computing with water
Authors: Hinze Thomas , Happe Hendrik , Henderson Alec , Nicolescu Radu 
Published: May 2020

AbstractWe introduce water tank systems as a new class of membrane systems inspired by a decentrally controlled circulation of water or other liquids throughout cells called tanks and capillaries called pipes. To our best knowledge, this is the first proposal addressing the behavioural principle of floating and stored water for modelling of information processing in terms of membrane computing. The volume of water within a tank stands for a non-negative rational value when acting in an analogue computation or it can be interpreted in a binary manner by distinction of “(nearly) full” or “(nearly) empty”. Water tanks might be interconnected by pipes for directed transport of water. Each pipe can be equipped with valves which in turn either fully open or fully close the hosting pipe according to permanent measurements whether the filling level in a dedicated water tank exceeds a certain threshold or not. We demonstrate dedicated water tank systems together with simulation case studies: a ring oscillator for generation of clock signals and for iteratively making available amounts of water in a cyclic scheme, analogue arithmetics by implementation of addition, non-negative subtraction, division, and multiplication complemented by systems in binary mode for implementation of selected logic gates.
Quality and use of habitat patches by wild boar (Sus scrofa) along an urban gradient
Authors: Sütő D. , Heltai M. , Katona K. 
Published: May 2020

AbstractExpansion and urbanization process of wild boar (Sus scrofa) populations lead to serious human–wildlife conflicts in many cities, e.g. in Budapest, Hungary. In this study we evaluated the penetration potential of the species into the inner urban areas by identifying the occurrence of wild boar and the quality of the habitat patches for them along an urban gradient from the periphery towards the centre. Wild boar rooting intensity, shrub cover and the availability of woody species giving favourable food to wild boar were measured in four different habitat patches. The availability of hiding shrub patches was much higher in the outer areas than in the inner ones. Similarly, the proportion of shrub and tree species providing favourable food for wild boar decreased towards the centre. Accordingly, we found rooting only in two areas nearer to the city boundary. Based on our results at the peripheral areas permanent presence of wild boar in near-natural habitats should be expected, but not in the inner green zones. We recommend to monitor the urban wild boar presence and evaluate the quality of urban green patches to mitigate problems related to the wild boars.
Endovascular mechanical thrombectomy versus thrombolysis in patients	with iliofemoral deep vein thrombosis – a systematic review and	meta-analysis
Authors: Lichtenberg Michael K. W. , Stahlhoff Stefan , Młyńczak Katarzyna , Golicki Dominik , Gagne Paul , Razavi Mahmood K. , de Graaf Rick , Kolluri Raghu , Kolasa Katarzyna 
Published: May 2020

Summary: Background: This study sought to compare effectiveness and safety of percutaneous mechanical thrombectomy (PMT) and thrombolysis alone (THR) in patients with acute or subacute iliofemoral deep vein thrombosis (IfDVT). Patients and methods: Observational and randomized trials, published between January 2001 to February 2019 were identified by searching MEDLINE. Studies on deep venous thrombosis (DVT) treated with either THR or PMT adjunctive to conventional anticoagulation and compressive intervention were included. Meta-analysis of proportions was conducted to assess effectiveness outcomes of successful lysis and primary patency, post-thrombotic syndrome (PTS), valvular reflux, recurrent DVT, as well as safety outcomes of major bleeding, hematuria, and pulmonary embolism. Results: Of 77 identified records, 17 studies including 1417 patients were eligible. Pooled proportion of successful lysis was similar between groups (THR: 95 % [I2 = 68.4 %], PMT 96 %, [I2 = 0 %]; Qbet [Cochran’s Q between groups] 0.3, p = 0.61). However, pooled proportion of 6-month primary patency was lower after THR than after PMT (68 % [I2 = 15.6 %] versus 94 %; Qbet 26.4, p < 0.001). Considerable heterogeneity within groups did not allow for between-group comparison of PTS and recurrent DVT. Major bleeding was more frequent after THR than after PMT (6.0 % [I2 = 0 %] versus 1.0 % [I2 = 0 %]; Qbet 12.3, p < 0.001). Incidence of hematuria was lower after THR as compared to PMT (2 % [I2 = 56 %] versus 91.3 % [I2 = 91.7 %]; Qbet 714, p < 0.001). Incidences of valvular reflux and pulmonary embolism were similar across groups (THR: 61 % versus PMT: 53 %; Qbet 0.7, p = 0.39 and THR: 2 % versus PMT: 1 %; Qbet 1.1, p = 0.30, respectively). Conclusions: In patients with iliofemoral DVT, percutaneous mechanical thrombectomy was associated with a higher cumulative 6-month primary patency and a lower incidence of major bleeding compared to thrombolysis alone. Risk of hemolysis from mechanical thrombectomy needs further consideration.
A Multi‐Array Back‐Projection Approach for Tsunami Warning
Authors: Xie Y. , Meng L. 
Published: May 2020

AbstractRecent development of dense strong‐motion networks and seismic array processing enables rapid tsunami predictions based on the back‐projection (BP) approach. We develop a multi‐array local BP method (MLBP) using seismic networks with epicentral distance from 0.7° to 3.5°. The local BPs using individual arrays are first calculated and are then merged into a single image of the rupture process. This multi‐array approach circumvents the issue of artifact in single‐array BP caused by the overlapping of multiple phases and coda waves. Based on the local BP approach, tsunami predictions are available 7 min after the origin time. Case studies of the 2003 Mw 8.1 Tokachi‐oki and the 2011 Mw 9.0 Tohoku earthquakes show that their rupture zones are well resolved and are comparable with principal slip areas inferred from tsunami observations. The amplitude and arrival time errors of the predicted tsunami waves are within −1.59 to 3.74 m and −10.0 to 10.0 min, which are sufficiently small for warning purposes.
Effect of Water on Lattice Thermal Conductivity of Ringwoodite and Its Implications for the Thermal Evolution of Descending Slabs
Authors: Marzotto Enrico , Hsieh Wen‐Pin , Ishii Takayuki , Chao Keng‐Hsien , Golabek Gregor J. , Thielmann Marcel , Ohtani Eiji 
Published: May 2020

AbstractThe presence of water in minerals generally alters their physical properties. Ringwoodite is the most abundant phase in the lowermost mantle transition zone and can host up to 1.5–2 wt% water. We studied high‐pressure lattice thermal conductivity of dry and hydrous ringwoodite by combining diamond‐anvil cell experiments with ultrafast optics. The incorporation of 1.73 wt% water substantially reduces the ringwoodite thermal conductivity by more than 40% at mantle transition zone pressures. We further parameterized the ringwoodite thermal conductivity as a function of pressure and water content to explore the large‐scale consequences of a reduced thermal conductivity on a slab's thermal evolution. Using a simple 1‐D heat diffusion model, we showed that the presence of hydrous ringwoodite in the slab significantly delays decomposition of dense hydrous magnesium silicates, enabling them to reach the lower mantle. Our results impact the potential route and balance of water cycle in the lower mantle.
Weddell Sea Phytoplankton Blooms Modulated by Sea Ice Variability and Polynya Formation
Authors: von Berg Lauren , Prend Channing J. , Campbell Ethan C. , Mazloff Matthew R. , Talley Lynne D. , Gille Sarah T. 
Published: May 2020

AbstractSeasonal sea ice retreat is known to stimulate Southern Ocean phytoplankton blooms, but depth‐resolved observations of their evolution are scarce. Autonomous float measurements collected from 2015–2019 in the eastern Weddell Sea show that spring bloom initiation is closely linked to sea ice retreat timing. The appearance and persistence of a rare open‐ocean polynya over the Maud Rise seamount in 2017 led to an early bloom and high annual net community production. Widespread early ice retreat north of Maud Rise in 2017, however, had a similar effect, suggesting that the polynya most impacted the timing of bloom initiation. Still, higher productivity rates at Maud Rise relative to the surrounding region are observed in all years, likely supported by flow‐topography interactions. The longer growing season in 2017–2018 also allowed for separation of distinct spring and fall bloom signals, the latter of which was primarily subsurface and associated with mixed‐layer deepening.
Changes in the Arctic Ocean Carbon Cycle With Diminishing Ice Cover
Authors: DeGrandpre Michael , Evans Wiley , Timmermans Mary‐Louise , Krishfield Richard , Williams Bill , Steele Michael 
Published: May 2020

AbstractLess than three decades ago only a small fraction of the Arctic Ocean (AO) was ice free and then only for short periods. The ice cover kept sea surface pCO2 at levels lower relative to other ocean basins that have been exposed year round to ever increasing atmospheric levels. In this study, we evaluate sea surface pCO2 measurements collected over a 6‐year period along a fixed cruise track in the Canada Basin. The measurements show that mean pCO2 levels are significantly higher during low ice years. The pCO2 increase is likely driven by ocean surface heating and uptake of atmospheric CO2 with large interannual variability in the contributions of these processes. These findings suggest that increased ice‐free periods will further increase sea surface pCO2, reducing the Canada Basin's current role as a net sink of atmospheric CO2.
Decay of the Snow Cover Over Arctic Sea Ice From ICESat‐2 Acquisitions During Summer Melt in 2019
Authors: Kwok R. , Cunningham G. F. , Kacimi S. , Webster M. A. , Kurtz N. T. , Petty A. A. 
Published: May 2020

AbstractFrom the onset of melt in early June, corresponding declines in Ice, Cloud, and Land Elevation Satellite‐2 (ICESat‐2) freeboard and surface albedo can be seen over the entire Arctic sea ice cover. In the 2019 summer, area‐averaged freeboard decreased from 34 cm prior to melt to a minimum of 12 cm in August while the area‐averaged albedo decreased from ~0.7 to 0.38 for the same period. Calculations using ICESat‐2 freeboards and modeled ice thickness from Pan‐Arctic Ice Ocean Modeling and Assimilation System (PIOMAS) give area‐averaged snow depths ranging from 17 cm prior to melt to 3 cm in August over seasonal ice and from 34 to 4 cm over multiyear ice. Mean rates of snow ablation (including evaporation) in mid‐June were as high as 2 cm/day, comparable to field records from other years. Increases in freeboard after mid‐August in the high latitude (>80°N) multiyear ice cover, north of the Greenland coast, are likely due to earlier freeze‐up and snow accumulation in these regions with shorter melt seasons.
The role of sex in the innate and adaptive immune environment of metastatic colorectal cancer
Authors: Ray Anita L. , Nofchissey Robert A. , Khan Maaz A. , Reidy Megan A. , Lerner Megan R. , Wu Xiangyan , Guo Shaoxuan , Hill Spencer L. , Weygant Nathaniel , Adams Sarah F. , Castillo Eliseo F. , Berry William L. , Stout Michael B. , Morris Katherine T. 
Published: May 2020

Abstract
Background
Women with colorectal cancer (CRC) have a significant survival advantage over men. Sex influences on the tumour microenvironment (TME) are not well characterised, despite the importance of immune response in CRC. We hypothesised that sex-divergent immune responses could contribute to survival.

Methods
Using a murine model of metastatic CRC, we examined T cells, macrophages, and cytokines locally and systemically. TME and serum cytokines were measured by multiplex bead-based arrays, while FCA was used to identify cells and phenotypes. IHC provided spatial confirmation of T cell infiltration.

Results
Females had increased survival and T cell infiltration. CD8, CD4 and Th2 populations correlated with longer survival. Males had increased serum levels of chemokines and inflammation-associated cytokines. Within the TME, males had lower cytokine levels than females, and a shallower cytokine gradient to the periphery. Female tumours had elevated IL-10+ macrophages, which correlated with survival.

Conclusions
These data demonstrate survival-associated differences in the immune response of males and females to metastatic CRC. Females showed changes in cytokine production accompanied by increased immune cell populations, biased toward Th2-axis phenotypes. Key differences in the immune response to CRC correlated with survival in this model. These differences support a multi-faceted shift across the TME.
Activin-mediated alterations of the fibroblast transcriptome and matrisome control the biomechanical properties of skin wounds
Authors: Wietecha Mateusz S. , Pensalfini Marco , Cangkrama Michael , Müller Bettina , Jin Juyoung , Brinckmann Jürgen , Mazza Edoardo , Werner Sabine 
Published: May 2020

AbstractMatrix deposition is essential for wound repair, but when excessive, leads to hypertrophic scars and fibrosis. The factors that control matrix deposition in skin wounds have only partially been identified and the consequences of matrix alterations for the mechanical properties of wounds are largely unknown. Here, we report how a single diffusible factor, activin A, affects the healing process across scales. Bioinformatics analysis of wound fibroblast transcriptome data combined with biochemical and histopathological analyses of wounds and functional in vitro studies identify that activin promotes pro-fibrotic gene expression signatures and processes, including glycoprotein and proteoglycan biosynthesis, collagen deposition, and altered collagen cross-linking. As a consequence, activin strongly reduces the wound and scar deformability, as identified by a non-invasive in vivo method for biomechanical analysis. These results provide mechanistic insight into the roles of activin in wound repair and fibrosis and identify the functional consequences of alterations in the wound matrisome at the biomechanical level.
Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome
Authors: Pasolli Edoardo , De Filippis Francesca , Mauriello Italia E. , Cumbo Fabio , Walsh Aaron M. , Leech John , Cotter Paul D. , Segata Nicola , Ercolini Danilo 
Published: May 2020

AbstractLactic acid bacteria (LAB) are fundamental in the production of fermented foods and several strains are regarded as probiotics. Large quantities of live LAB are consumed within fermented foods, but it is not yet known to what extent the LAB we ingest become members of the gut microbiome. By analysis of 9445 metagenomes from human samples, we demonstrate that the prevalence and abundance of LAB species in stool samples is generally low and linked to age, lifestyle, and geography, with Streptococcus thermophilus and Lactococcus lactis being most prevalent. Moreover, we identify genome-based differences between food and gut microbes by considering 666 metagenome-assembled genomes (MAGs) newly reconstructed from fermented food microbiomes along with 154,723 human MAGs and 193,078 reference genomes. Our large-scale genome-wide analysis demonstrates that closely related LAB strains occur in both food and gut environments and provides unprecedented evidence that fermented foods can be indeed regarded as a possible source of LAB for the gut microbiome.
PTB-XL, a large publicly available electrocardiography dataset
Authors: Wagner Patrick , Strodthoff Nils , Bousseljot Ralf-Dieter , Kreiseler Dieter , Lunze Fatima I. , Samek Wojciech , Schaeffter Tobias 
Published: May 2020

AbstractElectrocardiography (ECG) is a key non-invasive diagnostic tool for cardiovascular diseases which is increasingly supported by algorithms based on machine learning. Major obstacles for the development of automatic ECG interpretation algorithms are both the lack of public datasets and well-defined benchmarking procedures to allow comparison s of different algorithms. To address these issues, we put forward PTB-XL, the to-date largest freely accessible clinical 12-lead ECG-waveform dataset comprising 21837 records from 18885 patients of 10 seconds length. The ECG-waveform data was annotated by up to two cardiologists as a multi-label dataset, where diagnostic labels were further aggregated into super and subclasses. The dataset covers a broad range of diagnostic classes including, in particular, a large fraction of healthy records. The combination with additional metadata on demographics, additional diagnostic statements, diagnosis likelihoods, manually annotated signal properties as well as suggested folds for splitting training and test sets turns the dataset into a rich resource for the development and the evaluation of automatic ECG interpretation algorithms.
Questionnaire data analysis using information geometry
Authors: Har-Shemesh Omri , Quax Rick , Lansing J. Stephen , Sloot Peter M. A. 
Published: May 2020

AbstractThe analysis of questionnaires often involves representing the high-dimensional responses in a low-dimensional space (e.g., PCA, MCA, or t-SNE). However questionnaire data often contains categorical variables and common statistical model assumptions rarely hold. Here we present a non-parametric approach based on Fisher Information which obtains a low-dimensional embedding of a statistical manifold (SM). The SM has deep connections with parametric statistical models and the theory of phase transitions in statistical physics. Firstly we simulate questionnaire responses based on a non-linear SM and validate our method compared to other methods. Secondly we apply our method to two empirical datasets containing largely categorical variables: an anthropological survey of rice farmers in Bali and a cohort study on health inequality in Amsterdam. Compare to previous analysis and known anthropological knowledge we conclude that our method best discriminates between different behaviours, paving the way to dimension reduction as effective as for continuous data.
Cognitive and neurophysiological assessment of patients with minimal hepatic encephalopathy in Brazil
Authors: Torres Daniel Simplicio , Abrantes Jefferson , Brandão-Mello Carlos Eduardo 
Published: May 2020

AbstractMinimal hepatic encephalopathy is a syndrome caused by cirrhosis, with a broad spectrum of clinical manifestations. Its diagnosis is based on abnormal results of cognitive and neurophysiological tests, but there are no universally available criteria, especially in Brazil, where local testing standards are required. The objective of the present study was to compare the performance of the mini-mental state examination (MMSE), Rey’s auditory-verbal learning test (RAVLT), psychometric score of hepatic encephalopathy (PHES), topographic mapping of brain electrical activity (TMBEA) and long-latency auditory evoked potential (P300) in the detection of minimal hepatic encephalopathy in Brazil. From 224 patients with cirrhosis included in the global sample, 82.5% were excluded due to secondary causes responsible for cognitive or neurophysiological dysfunction. The final sample consisted of 29 cirrhotics, with predominance of A5 Child-Pugh classification, and 29 controls paired in critical variables such as age, educational level, gender, professional category, scores suggestive of mild depression, association with compensated type 2 diabetes mellitus and sociodemographic characteristics. Overall, performance on cognitive tests and TMBEA did not show a statistically significant difference. There was a marked difference in P300 latency adjusted for age, with patients with cirrhosis showing a mean of 385 ± 78 ms (median of 366.6 ms) and healthy volunteers exhibiting a mean of 346.2 ± 42.8 ms (median of 348.2 ms) (p < 0.01). These findings suggest that, in the earliest stages of cirrhosis, age-adjusted P300 latency was superior to cognitive assessment and TMBEA for detection of minimal hepatic encephalopathy.
External Airborne-agent Exposure Increase Risk of Digestive Tract Cancer
Authors: Lee Wanhyung , Kim Jihyun , Lim Sung-Shil , Kim Yangwook , Ahn Yeon-Soon , Yoon Jin-Ha 
Published: May 2020

AbstractPrevious studies have suggested that in addition to respiratory system cancers, exposure to external airborne agents (EAAs) may also affect the risk of digestive tract cancer. However, previous epidemiological studies have been limited. To clarify this relationship, we conducted a Workers’ Korea National Health Insurance Service cohort study. The EAA exposure group comprised participants who had ever visited a hospital as an inpatient for ‘lung diseases due to external agents’. The reference population comprised men from the general working population. The EAA exposure group and reference group included a total of 98,666 and 79,959,286 person-years, respectively. Age-adjusted standardized incident rates (SIRs) with 95% confidence intervals (95%CI) were calculated for each 5-year age stratum. The SIR (95% CI) of EAA exposure was 1.30 (1.19–1.38) for all digestive tract cancers. The highest risk associated with EAA exposure was observed for oral cancer, followed by esophageal and stomach cancers [SIRs (95%CI): 3.96 (3.02–4.78), 3.47(2.60–4.25), and 1.34(1.17–1.47), respectively.] These statistically significant associations did not be attenuated in a subgroup analysis using logistic regression adjusted for age, smoking and alcohol consumption. Our findings suggest that EAA exposure should address risk reduction of both digestive tract and respiratory system cancers.
Optimizing hospital distribution across districts to reduce tuberculosis fatalities
Authors: Lee Mi Jin , Kim Kanghun , Son Junik , Lee Deok-Sun 
Published: May 2020

AbstractThe spatial distributions of diverse facilities are often understood in terms of the optimization of the commute distance or the economic profit. Incorporating more general objective functions into such optimization framework may be useful, helping the policy decisions to meet various social and economic demands. As an example, we consider how hospitals should be distributed to minimize the total fatalities of tuberculosis (TB). The empirical data of Korea shows that the fatality rate of TB in a district decreases with the areal density of hospitals, implying their correlation and the possibility of reducing the nationwide fatalities by adjusting the hospital distribution across districts. Approximating the fatality rate by the probability of a patient not to visit a hospital in her/his residential district for the duration period of TB and evaluating the latter probability in the random-walk framework, we obtain the fatality rate as an exponential function of the hospital density with a characteristic constant related to each district’s effective lattice constant estimable empirically. This leads us to the optimal hospital distribution which finds the hospital density in a district to be a logarithmic function of the rescaled patient density. The total fatalities is reduced by 13% with this optimum. The current hospital density deviates from the optimized one in different manners from district to district, which is analyzed in the proposed model framework. The assumptions and limitations of our study are also discussed.