bluuebunny/crossref_metadata_2025_split huggingface dataset:
Pathogenic free-living amoebae from water sources in Cape Verde
Authors: Sousa-Ramos Djeniffer , Reyes-Batlle María , Bellini Natalia Karla , Rodríguez-Expósito Rubén L. , Martín-Real Christian , Piñero José E. , Lorenzo-Morales Jacob 
Published: June 2022

AbstractFree-living amoebae (FLA) are protozoa which have been reported in different countries worldwide from diverse sources (water, soil, dust, air), contributing to the environmental microbiological contamination. Most of the FLA species present a life cycle with two different phases: an active vegetative and physiologically form named trophozoite, and an extremely resistant phase called cyst. Acanthamoeba spp., Naegleria fowleri, Balamuthia mandrillaris, Sapinia pedata, Vahlkampfia spp., Paravahlkampfia spp. and Vermamoeba vermiformis have been reported not only as causal agents of several opportunistic diseases including fatal encephalitis or epithelial disorders, but also as capable to favour the intracellular survival of common pathogenic bacteria, which could avoid the typical water disinfection systems, non-effective against FLAs cysts. Even though Santiago Island possesses high levels of humidity compared to the rest of the archipelago of Cape Verde, the water resources are scarce. Therefore, it is important to carry out proper microbiological quality controls, which currently do not contemplate the FLA presence in most of the countries. In the present work, we have reported the presence of Acanthamoeba spp. (69.2%); Vannella spp. (15.4%); Vermamoeba vermiformis (7.7%) and the recently discovered Stenamoeba dejonckheerei (7.7%) in different water sources of Santiago Island.
MITNET: a novel dataset and a two-stage deep learning approach for mitosis recognition in whole slide images of breast cancer tissue
Authors: Çayır Sercan , Solmaz Gizem , Kusetogullari Huseyin , Tokat Fatma , Bozaba Engin , Karakaya Sencer , Iheme Leonardo Obinna , Tekin Eren , Yazıcı Çisem , Özsoy Gülşah , Ayaltı Samet , Kayhan Cavit Kerem , İnce Ümit , Uzel Burak , Kılıç Onur 
Published: June 2022

AbstractMitosis assessment of breast cancer has a strong prognostic importance and is visually evaluated by pathologists. The inter, and intra-observer variability of this assessment is high. In this paper, a two-stage deep learning approach, named MITNET, has been applied to automatically detect nucleus and classify mitoses in whole slide images (WSI) of breast cancer. Moreover, this paper introduces two new datasets. The first dataset is used to detect the nucleus in the WSIs, which contains 139,124 annotated nuclei in 1749 patches extracted from 115 WSIs of breast cancer tissue, and the second dataset consists of 4908 mitotic cells and 4908 non-mitotic cells image samples extracted from 214 WSIs which is used for mitosis classification. The created datasets are used to train the MITNET network, which consists of two deep learning architectures, called MITNET-det and MITNET-rec, respectively, to isolate nuclei cells and identify the mitoses in WSIs. In MITNET-det architecture, to extract features from nucleus images and fuse them, CSPDarknet and Path Aggregation Network (PANet) are used, respectively, and then, a detection strategy using You Look Only Once (scaled-YOLOv4) is employed to detect nucleus at three different scales. In the classification part, the detected isolated nucleus images are passed through proposed MITNET-rec deep learning architecture, to identify the mitosis in the WSIs. Various deep learning classifiers and the proposed classifier are trained with a publicly available mitosis datasets (MIDOG and ATYPIA) and then, validated over our created dataset. The results verify that deep learning-based classifiers trained on MIDOG and ATYPIA have difficulties to recognize mitosis on our dataset which shows that the created mitosis dataset has unique features and characteristics. Besides this, the proposed classifier outperforms the state-of-the-art classifiers significantly and achieves a $$68.7\%$$

68.7
%

F1-score and $$49.0\%$$

49.0
%

F1-score on the MIDOG and the created mitosis datasets, respectively. Moreover, the experimental results reveal that the overall proposed MITNET framework detects the nucleus in WSIs with high detection rates and recognizes the mitotic cells in WSI with high F1-score which leads to the improvement of the accuracy of pathologists’ decision.
Multivariate interrelatedness of geotechnical and petrophysical properties towards developing near-surface lithology clusters in a sedimentary terrain
Authors: Akinyemi Olukayode D. 
Published: June 2022

AbstractThe study reports the approach of interrelating geotechnical and petrophysical parameters to develop near-surface lithology clusters in a sedimentary terrain. Field-based and laboratory-based geophysical, geotechnical, and petrophysical measurements were carried out with a view to finding correlations among related parameters, grouping the parameters into depth clusters, and determining trend correlations between field-acquired and laboratory-obtained parameters. Four agglomerate hierarchical cluster signatures were identified at depth 0–30 cm, three at 30–60 cm, and five at 0–90 cm. Principal component 1 retained 74% of data variation and differentiated the petrophysical parameters according to Poisson’s ratio (v) and velocity ratio (Vp/Vs). Principal component 2 explained another 14% of variability in the original responses and separated parameters based on elastic modulus (E) and clay fraction (C). Degree of correlation of Vp/Vs with porosity (Φ), sand fraction (S), C, unconfined compressive strength (U), and California bearing ratio (R) followed order Φ > S > C, and U > R. Trend correlation of shear velocity at 1 m showed good agreement (R2 = 0.992) between field and laboratory data with an amplification factor of 4.13 separating the corresponding values. Lithology determined from soil analysis agreed with that inferred from measured electrical resistivity while geotechnical, petrophysical, and geophysical spatial analysis supported site lithology configuration patterns. Thus, multivariate association of geotechnical and petrophysical parameters exhibited potentials for rapid and exploratory near-surface lithology mapping even at a regional scale.
When terminology hinders research: the colloquialisms of transitions of control in automated driving
Authors: Maggi Davide , Romano Richard , Carsten Oliver , Winter Joost C. F. De 
Published: June 2022

AbstractDuring the last 20 years, technological advancement and economic interests have motivated research on automated driving and its impact on drivers’ behaviour, especially after transitions of control. Indeed, once the Automated Driving System (ADS) reaches its operational limits, it is forced to request human intervention. However, the fast accumulation and massive quantity of produced studies and the gaps left behind by standards have led to an imprecise and colloquial use of terms which, as technology and research interest evolve, creates confusion. The goal of this survey is to compare how different taxonomies describe transitions of control, address the current use of widely adopted terms in the field of transitions of control and explain how their use should be standardized to enhance future research. The first outcome of this analysis is a schematic representation of the correspondence among the elements of the reviewed taxonomies. Then, the definitions of “takeover” and “handover” are clarified as two parallel processes occurring in every transition of control. A second set of qualifiers, which are necessary to unequivocally define a transition of control and identify the agent requesting the transition and the agent receiving the request (ADS or the driver), is provided. The “initiator” is defined as the agent requesting the transition to take place, and the “receiver” is defined as the agent receiving that request.
Clipping versus coiling for treatment of middle cerebral artery aneurysms: a retrospective Italian multicenter experience
Authors: Sturiale Carmelo Lucio , Scerrati Alba , Ricciardi Luca , Rustemi Oriela , Auricchio Anna Maria , Norri Nicolò , Piazza Amedeo , Ranieri Fabio , Tomatis Alberto , Albanese Alessio , Di Egidio Vincenzo , Farneti Marco , Mangiola Annunziato , Marchese Enrico , Raco Antonino , Volpin Lorenzo , Trevisi Gianluca 
Published: June 2022

Abstract
Endovascular treatment has emerged as the predominant approach in intracranial aneurysms. However, surgical clipping is still considered the best treatment for middle cerebral artery (MCA) aneurysms in referral centers. Here we compared short- and long-term clinical and neuroradiological outcomes in patients with MCA aneurysms undergoing clipping or coiling in 5 Italian referral centers for cerebrovascular surgery. We retrospectively reviewed 411 consecutive patients admitted between 2015 and 2019 for ruptured and unruptured MCA aneurysm. Univariate and multivariate analyses of the association between demographic, clinical, and radiological parameters and ruptured status, type of surgical treatment, and clinical outcome at discharge and follow-up were performed. Clipping was performed in 340 (83%) cases, coiling in 71 (17%). Clipping was preferred in unruptured aneurysms and in those showing collateral branches originating from neck/dome. Surgery achieved a higher rate of complete occlusion at discharge and follow-up. Clipping and coiling showed no difference in clinical outcome in both ruptured and unruptured cases. In ruptured aneurysms age, presenting clinical status, intracerebral hematoma at onset, and treatment-related complications were significantly associated with outcome at both short- and long-term follow-up. The presence of collaterals/perforators originating from dome/neck of the aneurysms also worsened the short-term clinical outcome. In unruptured cases, only treatment-related complications such as ischemia and hydrocephalus were associated with poor outcome. Clipping still seems superior to coiling in providing better short- and long-term occlusion rates in MCA aneurysms, and at the same time, it appears as safe as coiling in terms of clinical outcome.
Temporal Pitch Sensitivity in an Animal Model: Psychophysics and Scalp Recordings
Authors: Richardson Matthew L. , Guérit François , Gransier Robin , Wouters Jan , Carlyon Robert P. , Middlebrooks John C. 
Published: June 2022

AbstractCochlear implant (CI) users show limited sensitivity to the temporal pitch conveyed by electric stimulation, contributing to impaired perception of music and of speech in noise. Neurophysiological studies in cats suggest that this limitation is due, in part, to poor transmission of the temporal fine structure (TFS) by the brainstem pathways that are activated by electrical cochlear stimulation. It remains unknown, however, how that neural limit might influence perception in the same animal model. For that reason, we developed non-invasive psychophysical and electrophysiological measures of temporal (i.e., non-spectral) pitch processing in the cat. Normal-hearing (NH) cats were presented with acoustic pulse trains consisting of band-limited harmonic complexes that simulated CI stimulation of the basal cochlea while removing cochlear place-of-excitation cues. In the psychophysical procedure, trained cats detected changes from a base pulse rate to a higher pulse rate. In the scalp-recording procedure, the cortical-evoked acoustic change complex (ACC) and brainstem-generated frequency following response (FFR) were recorded simultaneously in sedated cats for pulse trains that alternated between the base and higher rates. The range of perceptual sensitivity to temporal pitch broadly resembled that of humans but was shifted to somewhat higher rates. The ACC largely paralleled these perceptual patterns, validating its use as an objective measure of temporal pitch sensitivity. The phase-locked FFR, in contrast, showed strong brainstem encoding for all tested pulse rates. These measures demonstrate the cat’s perceptual sensitivity to pitch in the absence of cochlear-place cues and may be valuable for evaluating neural mechanisms of temporal pitch perception in the feline animal model of stimulation by a CI or novel auditory prostheses.
Bushfires, COVID-19 and Young People’s Climate Action in Australia
Authors: Gunasiri Hasini , Wang Yifan , Capetola Teresa , Henderson-Wilson Claire , Patrick Rebecca 
Published: June 2022

AbstractAustralia’s summer bushfires of 2020–2021 were catastrophic, negatively impacting people, and the natural environment. This climate change-related event exacerbated the influence of the COVID-19 pandemic on public health. Young people are a priority population whose health and livelihoods are significantly impacted by these events. At the same time, young people are active agents for climate action. This exploratory mixed-method study draws on descriptive analyses of survey data (n = 46) and thematic analyses of interview data (n = 6) which demonstrated that some young people, whilst concerned about existential and real impacts of climate change, use contact with nature to cope and as motivation for taking climate actions.
Posttraumatic Growth and Posttraumatic Stress Symptoms in People with HIV
Authors: Chi Danni , de Terte Ian , Gardner Dianne 
Published: June 2022

AbstractReceiving a diagnosis of HIV can be challenging. People with HIV (PWH) can experience high levels of distress, as well as some positive psychological changes associated with post-traumatic growth. However, the mechanisms which underlying the association of a highly stressful event (i.e., being diagnosed with HIV) and posttraumatic growth (PTG) and posttraumatic stress symptoms (PTSS) are under-explored, and this is the focus of the study. Cross-sectional survey data were provided by 77 PWH living in New Zealand. An analysis examined the roles of deliberate rumination and coping strategies as serial mediators of the associations between event centrality and PTG and PTSSs. The relationships between event centrality and PTG and PTSSs were found to be sequentially mediated by deliberate rumination and avoidance coping, but not by deliberate rumination and active coping. Further analyses explored active coping and deliberate rumination as parallel mediators, with avoidance coping as a subsequent mediator, between event centrality and PTG and PTSSs. However, these analyses were not supported. The findings indicate that the more participants appraised the HIV diagnosis as central, the greater PTG they perceived; however, the more they deliberately ruminated on it, and the more avoidance coping they adopted, the less PTG and greater PTSSs they perceived. Future studies need to explore the relationships of event centrality and coping and their associations with PTG and PTSSs.
Fake & original: the case of Japanese food in Southeast Asian countries
Authors: Domon Koji , Melcarne Alessandro , Ramello Giovanni B. 
Published: June 2022

AbstractThis paper seeks to answer two main questions: whether restaurants using a national brand to capture customers in fact use original national ingredients for producing food and, in cases where original ingredients are not used, what is the economic rationale behind this choice? Specifically, the study focuses on Japanese restaurants in three Southeast Asian countries, using a theoretical model and an empirical investigation based on interviews and survey data collected through field research. Considering restaurants, their suppliers, and their customers, we show how a dual asymmetric-information problem exists, between suppliers and restaurants and between restaurants and their customers. The results indicate that a first reason for buying non-original ingredients—important especially for cheaper restaurants—is a desire to reduce costs. That said, the use of non-original ingredients occurs among all types of Japanese restaurants in the three studied countries. It does not depend on the presence of a Japanese chef or owner, nor on the share of Japanese customers. By contrast it does significantly depend on the reliability of the wholesale channel, and the resultant difficulties that restaurants encounter when buying original ingredients.
Juridical Empowerment
Authors: Mosayebi Reza 
Published: June 2022

AbstractThe idea of empowerment has gained a significant role in the discourse of poverty. I outline a restricted conception of empowerment inspired by Kant’s idea ofrightful honour. According to this conception, empowerment consists in enabling individuals to assert their own human rights (juridical empowerment). I apply this conception to impoverished persons and argue that it is crucial to their self-respect, their so-called ‘power-[from-]within,’ and their political agency, and has a teleological primacy regarding our efforts to reduce poverty. I also defend the idea that there is a moral right to this form of empowerment and a corresponding duty to empower the impoverished as rights-asserters. Juridical empowerment will be compatible with a pluralism of substantive accounts of the moral wrongs of poverty and with broader conceptions of empowerment.
Fitness effects of somatic mutations accumulating during vegetative growth
Authors: Cruzan Mitchell B. , Streisfeld Matthew A. , Schwoch Jaime A. 
Published: June 2022

AbstractThe unique life form of plants promotes the accumulation of somatic mutations that can be passed to offspring in the next generation, because the same meristem cells responsible for vegetative growth also generate gametes for sexual reproduction. However, little is known about the consequences of somatic mutation accumulation for offspring fitness. We evaluate the fitness effects of somatic mutations in Mimulus guttatus by comparing progeny from self-pollinations made within the same flower (autogamy) to progeny from self-pollinations made between stems on the same plant (geitonogamy). The effects of somatic mutations are evident from this comparison, as autogamy leads to homozygosity of a proportion of somatic mutations, but progeny from geitonogamy remain heterozygous for mutations unique to each stem. In two different experiments, we find consistent fitness effects of somatic mutations from individual stems. Surprisingly, several progeny groups from autogamous crosses displayed increases in fitness compared to progeny from geitonogamy crosses, likely indicating that beneficial somatic mutations occurred in some stems. These results support the hypothesis that somatic mutations accumulate during vegetative growth, but they are filtered by different forms of selection that occur throughout development, resulting in the culling of expressed deleterious mutations and the retention of beneficial mutations.
Assessments made easier: examining the use of a rating-based questionnaire to capture behavioral data in rehabilitant orangutans (Pongo pygmaeus morio)
Authors: Rocque Florence , Chotard Helene , Bard Kim , Micheletta Jerome , Tuuga Augustine , Alsisto Sylvia , Davila-Ross Marina 
Published: June 2022

AbstractRehabilitation and release are commonly used for confiscated, surrendered, and rescued primates. To improve release efficacy it is important to generate accurate behavioral profiles of release candidates. Research on primates traditionally uses observer ratings to measure individual differences. This method is easily implemented, but its validity has been questioned. We evaluated whether observer ratings reflect behavioral data indicating forest adaptation in 18 free-ranging rehabilitant orangutans (Pongo pygmaeus morio). In 2017, we used a species-specific questionnaire to measure how often orangutans engaged in behaviors linked to living successfully in the wild (e.g., nest building) and the extent to which they express personality traits that may influence forest adaptation. We collected 11 months of observational data on 17 of the orangutans concurrently to validate the questionnaire items, and collected further questionnaire data for 16 of the individuals in 2019. We used regularized exploratory factor analysis (REFA) and parallel analysis to condense the ratings and determine that two factors could be reliably extracted. We conducted another REFA using the observational data, and calculated factor congruence coefficients following procrustean rotation. The first of the two factors represented forest skills and human aversion, and was congruent with observational data. The second factor reflected boldness, sociability, and exploration, and was not congruent with observational data. Ratings correlated significantly with observations for all five questionnaire items reflecting adaptation to forest life, and for three of seven items reflecting personality traits. We conclude that ratings can be a valid approach to obtain individual-based behavioral information reflecting forest adaptation in free-ranging rehabilitant orangutans, and may be particularly useful in summarizing behaviors relevant to forest adaptation that are otherwise challenging to gather in primates.
Applicability and limitations of high-throughput algal growth rate measurements using in vivo fluorescence in microtiter plates
Authors: Albrecht Martin , Khanipour Roshan Samira , Fuchs Laura , Karsten Ulf , Schumann Rhena 
Published: June 2022

AbstractMicro-algae play important roles in primary production, nutrient cycling, and applied biotechnology. Mico-algae are phylogenetically, morphologically and physiologically diverse and often easy to grow in cultures. Growth is the key parameter of viability and crucial for survival insitu and efficiency invitro. Therefore, growth is often used in eco-physiological experiments to describe the fundamental niche and optimum conditions. Invivo chlorophyll-a fluorescence (IVCF) is a well-established proxy for the growth of micro-algae and is based on constant cell properties during exponential growth. High-throughput IVCF measurements have been applied for about 20 years for few, mostly green algal strains. Here, we tested the IVCF using microtiter plates on strains of four different algal phyla (Chlorophyceae, Cyanobacteria, Bacillariophyceae, Rhodophyceae) and compared the data with cell counts and chlorophyll contents. The microtiter plate reader based IVCF (MPR-IVCF) approach worked best for the diatom Cylindrothecaclosterium and the cyanobacterium Synechococcuselongatus. Differences between IVCF and cell count-based growth rates were found for Chlorellavulgaris and Rhodella sp. The IVCF growth rates were lower than the growth rates based on cell counts in both cases, thus underestimating absolute growth rates. The MPR-IVCF method is robust in terms of light scattering and non-photosynthetic contamination but prone to changes in light regimes and also to aggregating algal cells. Thus, we recommend using the MPR-IVCF approach (1) for diatoms and cyanobacteria as an absolute growth rate measure, (2) for relative measures of growth rates, intra and interspecific during the same experiment, also for all algal phyla except Rhodophyta.
DECLAB: a software for liquid scintillation spectra deconvolution
Authors: Fons-Castells Jordi , Llopart-Babot Inés , Franco-Curtido Juan Antonio , Tent-Petrus Joana , Rigol Anna , Llaurado Montserrat 
Published: June 2022

AbstractThe deconvolution of liquid scintillation (LS) spectra is meaningful in several scenarios like supporting incomplete radiochemical separations, for screening purposes and determining different isotopes of the same element, which is explored in this paper for the case of 89Sr/90Sr. In this paper DECLAB, an online application for liquid scintillation spectra analysis is presented. The software considers the classical calibration modes like constant efficiency and quenching curve and furthermore, the deconvolution of multicomponent spectra by means of Partial Least Square Regression. DECLAB is designed to analyse Perkin Elmer Wallac Quantulus 1220 spectra. However, in further upgrades, the applicability of this tool will be extended to other LS spectrometers.