bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Role of Noncoding RNAs in Gout
Authors: Li Xue , Pan Yunyan , Li Wei , Guan Peiwen , You Chongge 
Published: September 2020

Abstract
Over the past decade, noncoding ribonucleic acids (ncRNAs) have been shown to have crucial functional importance in health and disease. ncRNAs have been well studied and may be involved in the development of inflammatory arthritis, including gouty arthritis. Gout is also associated with metabolic pathway disorders, such as hyperuricemia, due to disturbed purine nucleotide metabolism or excretion of uric acid through the kidney. Moreover, their presence in the circulation has led to the idea that ncRNAs might serve as biomarkers for specific disease states to guide clinical decision-making. Therefore, we summarize the emerging evidence and review the current literature on the regulatory role of miRNAs and lncRNAs in gout pathophysiology. We further discuss the opportunities and challenges of ncRNAs as new blood-based biomarkers for future studies aimed at translation into clinical applications in the diagnosis and therapy of gout.
Benchmarking of long-read assemblers for prokaryote whole genome sequencing
Authors: Wick Ryan R. , Holt Kathryn E. 
Published: September 2020

Background: Data sets from long-read sequencing platforms (Oxford Nanopore Technologies and Pacific Biosciences) allow for most prokaryote genomes to be completely assembled – one contig per chromosome or plasmid. However, the high per-read error rate of long-read sequencing necessitates different approaches to assembly than those used for short-read sequencing. Multiple assembly tools (assemblers) exist, which use a variety of algorithms for long-read assembly. Methods: We used 500 simulated read sets and 120 real read sets to assess the performance of eight long-read assemblers (Canu, Flye, Miniasm/Minipolish, NECAT, NextDenovo/NextPolish, Raven, Redbean and Shasta) across a wide variety of genomes and read parameters. Assemblies were assessed on their structural accuracy/completeness, sequence identity, contig circularisation and computational resources used. Results: Canu v2.0 produced reliable assemblies and was good with plasmids, but it performed poorly with circularisation and had the longest runtimes of all assemblers tested. Flye v2.8 was also reliable and made the smallest sequence errors, though it used the most RAM. Miniasm/Minipolish v0.3/v0.1.3 was the most likely to produce clean contig circularisation. NECAT v20200119 was reliable and good at circularisation but tended to make larger sequence errors. NextDenovo/NextPolish v2.3.0/v1.2.4 was reliable with chromosome assembly but bad with plasmid assembly. Raven v1.1.10 was the most reliable for chromosome assembly, though it did not perform well on small plasmids and had circularisation issues. Redbean v2.5 and Shasta v0.5.1 were computationally efficient but more likely to produce incomplete assemblies. Conclusions: Of the assemblers tested, Flye, Miniasm/Minipolish and Raven performed best overall. However, no single tool performed well on all metrics, highlighting the need for continued development on long-read assembly algorithms.
Study Protocol: Prospective, observational, cohort study of COVID-19 in General Practice (North Dublin COVID-19 Cohort [‘ANTICIPATE’] Study)
Authors: Cullen Walter , Avramovic Gordana , Broughan John , Burke Mary-Carmel , Cotter Aoife , Crowley Des , Downey Joanne , Duggan Paul , Fawsitt Ronan , Guerandel Allys , Hennessy Eilis , Kelleher Cecily , Mills Gerald , McCombe Geoff , McHugh Tina , O’Connor Eileen , Perrotta Carla , Lambert John S. 
Published: September 2020

Background: It is accepted that COVID-19 will have considerable long-term consequences, especially on people’s mental and physical health and wellbeing. Although the impacts on local communities have been immense, there remains little data on long term outcomes among patients with COVID-19 who were managed in general practice and primary care. This study seeks to address this knowledge gap by examining how the COVID-19 pandemic has impacted the medium and long-term health and wellbeing of patients attending general practice, especially their mental health and wellbeing. Methods: The study will be conducted at 12 general practices in the catchment area of the Mater Misericordiae University Hospital, i.e. the North Dublin area, an area which has experienced an especially high COVID-19 incidence. Practices will be recruited from the professional networks of the research team. A member of the general practice team will be asked to identify patients of the practice who attended the practice after 16/3/20 with a confirmed or presumptive diagnosis of COVID-19 infection. Potential participants will be provided with information on the study by the clinical team. Data will be collected on those patients who consent to participate by means of an interviewer-administered questionnaire and review of clinical records. Data will be collected on health (especially mental health) and wellbeing, quality of life, health behaviours, health service utilisation, and wider impacts of COVID-19 at recruitment and at two follow up time points (6, 12 months). Deliverables: The project involves collaboration with Ireland’s Health Service Executive, Ireland East Hospital Group, and the Mater Misericordiae University Hospital, Dublin. The study is funded by the Health Research Board. Findings will inform health policies that attenuate the adverse impacts of COVID-19 on population mental health and health generally.
Model of Future Software Engineers Teaching to Ensure Information Security of the Enterprise
Authors: Sizov A. 
Published: September 2020

The article presents the developed model of training future software engineers to ensure information security of the enterprise, as well as the results of the implementation of the developed model in the practice of higher education organizations operating in modern conditions. The model was developed on the basis of conclusions about the essence of readiness to provide information security of the enterprise as a pedagogical phenomenon, its structural, content and dynamic characteristics, as well as taking into account the empirical study of factors that determine the level of formation of graduates of the designated readiness. The author introduces the content of the model in detail, reveals its potential for improving the quality of higher education, and provides evidence of its effectiveness in the practice of modern universities.
Experimental testing of the developed model was carried out in Russian universities that implement bachelor's degree programs in the areas of training 02.03.01 (Mathematics and computer science), 09.03.01 (computer Science and engineering), 10.03.01 (Information security). For the pedagogical experiment, two groups were formed, consisting of students studying in different areas of training. The experimental group consisted of 68 students, the control group - 69. The pedagogical experiment lasted for the entire period of training – four years and consisted in the implementation of the presented model and its corresponding specially developed programs of academic disciplines, programs of educational and industrial practices, plans for non-academic activities of students. The results of a comparative analysis of indicators of the level of formation of students' control and experimental groups of professional competencies, identified by the author as the main result of professional training to ensure information security of the enterprise, serve as an indicator of the effectiveness of the proposed model.
Digital Humanities and Social Change: an Interview with Alex Gil
Authors: Gil Alex , Santos Brigida Marcela , Ribeiro Nunes Gabriela 
Published: September 2020

While it is not yet possible to gauge the long-term impacts of the shifts brought on by the experiences of 2020, it seems safe to assume this year will be remembered by the many critical events that precipitated change in the ways humans relate to each other and to our environment. The most far-reaching of those is, of course, the COVID-19 pandemic. However, the Black Lives Matter marches, popular demonstrations against totalitarian governments throughout the world, as well as deeply concerning tipping-points regarding climate change are all part of a collective conversation we feel the urge to engage with. Nearly six months into our own experience with the pandemic in Brazil, after the loss of more than one hundred thousand lives to COVID-19, we at Palimpsesto aim at publishing pieces that not only acknowledge the circumstances under which they were written, but that also engage and produce critical thinking about them. It was within this spirit, and not only considering this issue's theme – “Literature Teaching in Digital Contexts: Dialogues and Connections” – that we approached Dr. Alex Gil and asked him for an interview.Alex Gil is a well-known scholar in the field of Digital Humanities not only for his work as a Digital Scholarship Librarian at Columbia University Libraries or as a developer of ingenious projects, but also for the fact that he often directs his abilities to produce tools that help promote social change. Dr. Gil has developed and collaborated in several of such efforts, as we discuss throughout our interview. Bearing Witness, one of his most recent initiatives, has been jointly announced by him and Prof. Samuel Roberts (Columbia University) and appears as “an effort to document and interpret the events associated with the novel coronavirus epidemic in the United States as it pertains to racialized minorities”. We strongly recommend that you read more about the Mobilized Humanities interventions in the links available at the end of this piece.It has been truly delightful to discuss Alex Gil’s projects and to consider how each of us – as students, researchers, and teachers – can work in the humanities to acquire new skills to produce change. The discussion around the place of the university amid this crisis, as an institution, is also one that deeply interests us. Finally, Gil is a prominent Aimé Césaire scholar. Discussing the work produced by this writer and thinker – at a moment when Discourse on Colonialism has just been released in a new Brazilian edition – also seems to be a crucial exercise to try to make sense of our questions – in a local and in a global scale – with a critical eye. We are thankful to Dr. Alex Gil for taking the time to talk to us amid the 2020 chaos as well as for the thought-provoking insights he has brought to us, which we now proudly share with Palimpsesto's readers.
Custo-minimização de curativos para cateter venoso central: gaze estéril versus filme transparente
Authors: Caló Fernanda Oliveira , Peregrino Antônio Augusto de Freitas , Franco Andrezza Serpa , Rocha Ronilson Gonçalves , Camerini Flavia Giron , Marta Cristiano Bertolossi 
Published: September 2020

Objetivo: comparar o custo entre coberturas com filme transparente versus gaze estéril e fita adesiva microporosa em curativos de acesso venoso central. Método: estudo estatístico, prospectivo, observacional, com abordagem quantitativa à luz da avaliação econômica de saúde. Foram avaliadas 109 coberturas com filme e 168 com gaze, durante 27 dias. Na análise utilizou-se o Software Tree Age para se calcular a probabilidade de cada decisão. Resultado: a média de uso das coberturas por dia foi de 2,22 inserções cobertas com filme e 3,43 com gaze. Houve necessidade de troca extra em 38 (23%) das coberturas com gaze e em 16 (15%) das coberturas com filme transparente. Observou-se custo final médio para gaze (R$389,44) 3,7 vezes maior que o filme transparente (R$104,95) durante o período estudado. Conclusão: cobertura com filme transparente tem menor custo quando comparado com cobertura com gaze estéril.
Urbanismo africano: 6000 anos construindo cidades (uma introdução ao tema)
Authors: Cunha Junior Henrique 
Published: September 2020

: O desenvolvimento do referencial conceitual da disciplina de “Urbanismo africano: 6000 anos construindo cidade” foi desenvolvido em pesquisas nos últimos 10 anos e a disciplina foi oferecida em alguns programas de pós-graduação nas áreas de ensino de Engenharia e Sociedade do NIDES-UFRJ e da arquitetura e urbanismo da UFBA. O artigo é sobre o desenvolvimento referencial conceitual do urbanismo com base na perspectiva da historia e cultura africana e do Pan-africanismo. Trata de uma abordagem considerada por nós original no campo do ensino de urbanismo, de caráter transdisciplinar, para as áreas de engenharia e sociedade, geografia urbana e arquitetura e urbanismo. O ensino da relação entre engenharia e sociedade é um campo relativamente novo abrange as relações sociais, compreendendo as relações etno-raciais, as culturas e as tecnologias. O urbanismo e a arquitetura são campos do conhecimento na interface sociedade e tecnologias construtivas, sendo que ao longo do século passado produziram uma visão eurocêntrica e um pensamento racista sobre o continente africano. A perspectiva do ensino do urbanismo com base na historia e cultura africana constitui uma inovação em ensino, faz parte do combate teórico-conceitual ao eurocentrismo. Neste artigo apresentamos o desenvolvimento das bases conceituais dessa disciplina.
Considerazioni sullo zoonimo ΚΑΣΤΩΡ nel Papiro di Artemidoro (V6 Gallazzi/Kramer/Settis)
Authors: Vespa Marco 
Published: September 2020

Abstract
The Artemidorus Papyrus has a legend on the verso (V6) that bears the usual word for ‘beaver’ in ancient Greek, i.e. κάστωρ. This does not correspond to the drawing of the animal, which looks more like a dog. Through an analysis of various zoological texts, this article solves the difficulty by considering the other zoonym of the beaver, which was κυνοπόταμος, i.e. the ‘river dog’.
Perpetuierte Maximallösung oder in dubio pro reo? Ein neuer Blick auf einen bekannten Berliner Papyrus und den dort genannten Maximus (P. 8334 r; ChLA X 417)
Authors: Haensch Rudolf 
Published: September 2020

Abstract
The study deals with ChLA X 417, a papyrus from the Berlin collection, which preserves one of the two known examples of codicilli imperatoris. These codicilli were of central importance in appointing a high Roman official, such as a governor. Contrary to previous interpretations, it is argued that the codicilli could concern not only Laberius Maximus and Domitian, but also Vibius Maximus and Trajan. Vibius Maximus was probably never punished by damnatio memoriae.
Cooperation of CUDA and Intel multi-core architecture in the independent component analysis algorithm for EEG data
Authors: Gajos-Balińska Anna , Wójcik Grzegorz M. , Stpiczyński Przemysław 
Published: September 2020

AbstractObjectivesThe electroencephalographic signal is largely exposed to external disturbances. Therefore, an important element of its processing is its thorough cleaning.MethodsOne of the common methods of signal improvement is the independent component analysis (ICA). However, it is a computationally expensive algorithm, hence methods are needed to decrease its execution time. One of the ICA algorithms (fastICA) and parallel computing on the CPU and GPU was used to reduce the algorithm execution time.ResultsThis paper presents the results of study on the implementation of fastICA, which uses some multi-core architecture and the GPU computation capabilities.ConclusionsThe use of such a hybrid approach shortens the execution time of the algorithm.
Domain gap in adapting self-supervised depth estimation methods for stereo-endoscopy
Authors: Sharan Lalith , Burger Lukas , Kostiuchik Georgii , Wolf Ivo , Karck Matthias , De Simone Raffaele , Engelhardt Sandy 
Published: September 2020

Abstract
In endoscopy, depth estimation is a task that potentially helps in quantifying visual information for better scene understanding. A plethora of depth estimation algorithms have been proposed in the computer vision community. The endoscopic domain however, differs from the typical depth estimation scenario due to differences in the setup and nature of the scene. Furthermore, it is unfeasible to obtain ground truth depth information owing to an unsuitable detection range of off-the-shelf depth sensors and difficulties in setting up a depth-sensor in a surgical environment. In this paper, an existing self-supervised approach, called Monodepth [1], from the field of autonomous driving is applied to a novel dataset of stereo-endoscopic images from reconstructive mitral valve surgery. While it is already known that endoscopic scenes are more challenging than outdoor driving scenes, the paper performs experiments to quantify the comparison, and describe the domain gap and challenges involved in the transfer of these methods.
Conceptual design of force reflection control for teleoperated bone surgery
Authors: Schleer Philipp , Körner Daniel , Vossel Manuel , Drobinsky Sergey , Radermacher Klaus 
Published: September 2020

Abstract
Bilateral control of teleoperated robots still poses a challenge, especially if environment properties vary over a large degree. Most currently available systems do not provide force feedback and consequently surgeons still have to estimate contact forces predominantly visually. During drilling or milling in bone surgery, visual estimation is virtually impossible due to hardly any deformations. However, the force progression contains important complimentary information for the surgeon. Therefore, a concept for a force-reflecting controller for drilling or milling during teleoperated bone surgery was developed and tested on a one degree of freedom (DOF) test setup. First, the desired behavior and control architectures were derived based on the context of bone surgery. The resulting controller combines three control architectures in a switching controller, depending on the tool actuation and environment properties. Experimental results with a 1-DOF test setup showed the desired control and switching behavior, while remaining stable. Therefore, the developed control concept seems promising for teleoperated bone surgery.
DL-based segmentation of endoscopic scenes for mitral valve repair
Authors: Ivantsits Matthias , Tautz Lennart , Sündermann Simon , Wamala Isaac , Kempfert Jörg , Kuehne Titus , Falk Volkmar , Hennemuth Anja 
Published: September 2020

Abstract
Minimally invasive surgery is increasingly utilized for mitral valve repair and replacement. The intervention is performed with an endoscopic field of view on the arrested heart. Extracting the necessary information from the live endoscopic video stream is challenging due to the moving camera position, the high variability of defects, and occlusion of structures by instruments. During such minimally invasive interventions there is no time to segment regions of interest manually. We propose a real-time-capable deep-learning-based approach to detect and segment the relevant anatomical structures and instruments. For the universal deployment of the proposed solution, we evaluate them on pixel accuracy as well as distance measurements of the detected contours. The U-Net, Google’s DeepLab v3, and the Obelisk-Net models are cross-validated, with DeepLab showing superior results in pixel accuracy and distance measurements.
Surgical audio information as base for haptic feedback in robotic-assisted procedures
Authors: Illanes Alfredo , Schaufler Anna , Sühn Thomas , Boese Axel , Croner Roland , Friebe Michael 
Published: September 2020

Abstract
This work aims to demonstrate the feasibility that haptic information can be acquired from a da Vinci robotic tool using audio sensing according to sensor placement requirements in a real clinical scenario. For that, two potential audio sensor locations were studied using an experimental setup for performing, in a repeatable way, interactions of a da Vinci forceps with three different tissues. The obtained audio signals were assessed in terms of their resulting signal-to-noise-ratio (SNR) and their capability to distinguish between different tissues. A spectral energy distribution analysis using Discrete Wavelet Transformation was performed to extract signal signatures from the tested tissues. Results show that a high SNR was obtained in most of the audio recordings acquired from both studied positions. Additionally, evident spectral energy-related patterns could be extracted from the audio signals allowing us to distinguish between different palpated tissues.
Towards automated correction of brain shift using deep deformable magnetic resonance imaging-intraoperative ultrasound (MRI-iUS) registration
Authors: Zeineldin Ramy A. , Karar Mohamed E. , Coburger Jan , Wirtz Christian R. , Mathis-Ullrich Franziska , Burgert Oliver 
Published: September 2020

Abstract
Intraoperative brain deformation, so-called brain shift, affects the applicability of preoperative magnetic resonance imaging (MRI) data to assist the procedures of intraoperative ultrasound (iUS) guidance during neurosurgery. This paper proposes a deep learning-based approach for fast and accurate deformable registration of preoperative MRI to iUS images to correct brain shift. Based on the architecture of 3D convolutional neural networks, the proposed deep MRI-iUS registration method has been successfully tested and evaluated on the retrospective evaluation of cerebral tumors (RESECT) dataset. This study showed that our proposed method outperforms other registration methods in previous studies with an average mean squared error (MSE) of 85. Moreover, this method can register three 3D MRI-US pair in less than a second, improving the expected outcomes of brain surgery.
Changing Marriage Practices in Babylonia from the Late Assyrian to the Persian Period
Authors: Waerzeggers Caroline 
Published: September 2020

AbstractBased on an analysis of marriage contracts, this paper argues that at the time of the Persian conquest (539 BCE) Babylonians practiced two types of marriage depending on their social status. Non-elite families negotiated different terms of marriage than elite families, in three areas: bridal wealth, household creation, and regulations about adultery and divorce. However, these divergent marriage practices became less pronounced and eventually obsolete in the course of the Persian period. This article first presents the evidence for the two marriage types and then seeks to find an answer, albeit a partial one, to the question why these traditions changed from c. 490 BCE onwards.
Some non-commuting solutions of the Yang-Baxter-like matrix equation
Authors: Zhou Duan-Mei , Vu Hong-Quang 
Published: September 2020

Abstract
Let A be a square matrix satisfying

A

4

=
A

{A}^{4}=A

. We solve the Yang-Baxter-like matrix equation

A
X
A
=
X
A
X

AXA=XAX

to find some solutions, based on analysis of the characteristic polynomial of A and its eigenvalues. We divide the problem into small cases so that we can find the solution easily. Finally, in order to illustrate the results, two numerical examples are presented.
International students’ lived experiences in a predominantly White institution in Southwest Florida
Authors: Halpern Clarisse , Aydin Hasan 
Published: September 2020

Abstract
Yearly, thousands of international students seek the United States to further their education, bringing cultural and financial capital into the country. Though previous studies have examined international students’ experiences adapting to the receiving country, research is needed to investigate their lived experiences in a predominantly White institution (PWI). Thus, a narrative inquiry was applied to explore international students’ life stories at a PWI in Southwest Florida. Data collection comprised in-depth individual interviews with 12 participants that resulted in four themes: multiracial identities, otherness, self-representation in the dominant society, and perceptions of the dominant culture. The narratives revealed challenges related to isolation, segregation, and feelings of inferiority, contributing to understanding the value of diversity and global education in higher education. Recommendations are included to better serve international students in higher education institutions.