bluuebunny/crossref_metadata_2025_split huggingface dataset:
Automatic, global registration in laparoscopic liver surgery
Authors: Koo Bongjin , Robu Maria R. , Allam Moustafa , Pfeiffer Micha , Thompson Stephen , Gurusamy Kurinchi , Davidson Brian , Speidel Stefanie , Hawkes David , Stoyanov Danail , Clarkson Matthew J. 
Published: October 2021

Abstract
Purpose
The initial registration of a 3D pre-operative CT model to a 2D laparoscopic video image in augmented reality systems for liver surgery needs to be fast, intuitive to perform and with minimal interruptions to the surgical intervention. Several recent methods have focussed on using easily recognisable landmarks across modalities. However, these methods still need manual annotation or manual alignment. We propose a novel, fully automatic pipeline for 3D–2D global registration in laparoscopic liver interventions.

Methods
Firstly, we train a fully convolutional network for the semantic detection of liver contours in laparoscopic images. Secondly, we propose a novel contour-based global registration algorithm to estimate the camera pose without any manual input during surgery. The contours used are the anterior ridge and the silhouette of the liver.

Results
We show excellent generalisation of the semantic contour detection on test data from 8 clinical cases. In quantitative experiments, the proposed contour-based registration can successfully estimate a global alignment with as little as 30% of the liver surface, a visibility ratio which is characteristic of laparoscopic interventions. Moreover, the proposed pipeline showed very promising results in clinical data from 5 laparoscopic interventions.

Conclusions
Our proposed automatic global registration could make augmented reality systems more intuitive and usable for surgeons and easier to translate to operating rooms. Yet, as the liver is deformed significantly during surgery, it will be very beneficial to incorporate deformation into our method for more accurate registration.
Self-Consistent Cathode–Plasma Coupling and Role of the Fluid Flow Approach in Torch Modeling
Authors: Baeva Margarita , Zhu Tao , Kewitz Thorben , Testrich Holger , Foest Rüdiger 
Published: October 2021

AbstractA two-dimensional and stationary magnetohydrodynamic model of a plasma spray torch operated with argon is developed to predict the plasma properties in a steady operating mode. The model couples a submodel of a refractory cathode and its non-equilibrium boundary layer to a submodel of the plasma in local thermodynamic equilibrium in a self-consistent manner. The Navier–Stokes equations for a laminar and compressible flow are solved in terms of low and high Mach number numerical approaches. The results show that the Mach number can reach values close to one. Simulations are performed for electric currents of 600 A and 800 A, and gas flow rates of 40, 60, and 80 NLPM. The plasma parameters obtained by the two approaches differ, and the differences become more pronounced for higher currents and gas flow rates. The arc voltage, the electric power, and the thermal efficiency from both the low and high Mach number models of the plasma agree well with experimental findings for a current of 600 A and a flow rate of 40 NLPM. For higher currents and gas flow rates, the results of the low and high Mach number models gradually differ and underline the greater appropriateness of the high Mach number model.
X-ray Computed Tomography Studies on Porosity Distribution in Vacuum Induction Cast Al-7Si Alloys
Authors: Mathew James , Williams Mark A. , Srirangam Prakash 
Published: October 2021

AbstractPorosity in aluminum alloys is a great concern to the casting and automotive industry. In this publication, porosity formation in air-melted and vacuum induction melted (VIM) aluminum alloys was studied and compared to understand its effect on microstructure and mechanical properties of Al-7Si alloys. Al-7Si alloys were cast at 700°C and 900°C in a muffle furnace and VIM furnace. Microstructural results show that the alloys cast in muffle furnace refined the eutectic silicon compared with the cast samples prepared in VIM furnace. X-ray computed tomography (XCT) was used for three-dimensional (3D) visualization and quantification of porosity in these alloys. The volume fraction of pores was observed to be higher in alloy air-melted at 900°C compared with 700°C. XCT results from VIM alloy samples showed no significant porosity when cast at either 700°C or 900°C. The morphology of large pores in alloys air-melted at 700°C represents the formation of shrinkage porosity due to the incomplete flow of molten metal during solidification. Tensile test results show that the elongation property of VIM alloy was increased by more than 20% compared with air-melted alloy. The tensile strength and elongation were observed to be higher for alloy samples cast at 700°C compared with 900°C for both air-melted and VIM alloys. The findings from microstructure, XCT, and tensile tests show that vacuum induction melting improves the mechanical properties of the alloy compared with air-melted alloy.
ASCO 2021—an update on metastastic colorectal cancer
Authors: Weiss Lukas 
Published: October 2021

SummaryThe 2021 ASCO Annual Meeting provided updates on novel therapies in rare subgroups of metastatic colorectal cancer, such as immunotherapy in microsatellite instable colorectal cancer and antibody–drug conjugate therapy in HER2-positive disease. Furthermore, the concept of anti-EGFR rechallenge therapy has received additional momentum with data from the CHRONOS trial in regard to treating patients in later lines as well as how to integrate analysis of circulating tumor DNA in clinical decision-making.
spaceNtime: an R package for estimating abundance of unmarked animals using camera-trap photographs
Authors: Moeller Anna K. , Lukacs Paul M. 
Published: October 2021

AbstractThe space to event (STE), time to event (TTE), and instantaneous sampling (IS) methods were developed to estimate abundance of unmarked animals from camera trap images (Moeller et al. in Ecosphere 9(8):e02331, 2018). The space and time to event models use camera data in a different way than other abundance estimation methods do. Instead of using counts of animals over independent events, STE uses a measure of sampled space before the first detection of the target species, and TTE uses the time until the first detection. We introduce , a free and open-source R package designed to assist in the implementation of the STE and TTE models, along with the IS estimator. This package takes the user through the steps of transforming data, defining sampling effort, selecting sampling occasions, building encounter histories, and estimating abundance from camera data using these three methods. The package is designed for users with a baseline level of knowledge of R and statistics, without requiring expertise in either.
Latent factor analysis and measurement on sustainable urban livability in Siliguri Municipal Corporation, West Bengal through EFA and CFA model
Authors: Adhikari Amit Kumar , Roy Tamal Basu 
Published: October 2021

AbstractUnited Nations’ Sustainable Development Goal targets to make cities and human settlements inclusive, safe, resilient, and sustainable; as it is predicting 95% urban expansion in the next decades. Consequently, urban livability can serve as a useful conceptual and analytical framework to improve the quality of urban life by facilitating the evaluation of the person–environment relationship and leading the improvement without deteriorating the environmental conditions. This present paper aims to identify the dimensions and indicators of subjective and objective livability for Siliguri Municipal Corporation (SMC). The residents’ perception has been carried out using stratified random sampling technique. Samples have been collected from the residents from each core, semi-periphery and peripheral areas of SMC. Mainly, adaptation of Exploratory Factor Analysis (EFA) and Confirmatory Factor Analysis (CFA) model involves four livability dimensions; under which the overall model explains 65% of the total variance indicating with the high reliability (α > 0.7) and the Goodness-of-fit index (GFI) about 0.90. The result indicates that, ‘Accessibility Factor’ bears the highest impact (24.91%) among the four latent variables and ‘Socio-Economic’ factor has the lower impact (8.39%) upon the urban livability.
RUSSIA'S 2020 CONSTITUTIONAL AMENDMENTS: A COMPARATIVE ANALYSIS
Authors: PARTLETT William 
Published: October 2021

AbstractThis article will place the 2020 amendments to the Russian Constitution in comparative perspective. Although these amendments were officially justified as strengthening the Russian state in order to tackle emerging new problems, they constitutionalise already-existing legislative trends from the last twenty years. They therefore do little to overcome existing problems of Russian state building. What was the reform process about then? It was intended to project the image of reform by involving the people in a staged process of constitutional change while further entrenching the power of the current political elite. The constitutional reforms therefore demonstrate the symbolic role that constitutional law can play in seeking to ensure the survival of mature or later-stage forms of authoritarian populism. This kind of ‘theatrical constitution-making’ is a broader reminder of how the expressive aspects of constitutional change can be (ab)used by established authoritarian regimes.
Retrieving PmP Travel Times From a Persistent Localized Microseismic Source
Authors: Xie Jinyun , Luo Yinhe , Yang Yingjie 
Published: October 2021

AbstractOcean swells or storms can generate persistent localized microseismic sources in deep oceans, which emanate body wave energy traveling through the Earth’s interior, carrying abundant information about subsurface structures as earthquake waves do. However, body waves from localized microseismic sources have not been fully exploited to map the internal structures of the Earth. Here, we report that the travel times of body wave reflections from the Moho can be obtained from body waves generated by localized microseismic sources. We further demonstrate that body waves from these sources can be utilized to constrain the Moho morphology through synthetic experiments and comparisons with earthquake receiver function results. Our work suggests that localized microseismic sources can be exploited to map the internal structure of the Earth without relying on earthquake data.
Three‐Dimensional Global Hybrid Simulations of High Latitude Magnetopause Reconnection and Flux Ropes During the Northward IMF
Authors: Guo Jin , Lu San , Lu Quanming , Lin Yu , Wang Xueyi , Zhang Qinghe , Xing Zanyang , Huang Kai , Wang Rongsheng , Wang Shui 
Published: October 2021

AbstractWhen the interplanetary magnetic field (IMF) is northward, magnetic reconnection between the IMF and the geomagnetic field can occur at the high latitude magnetopause, which allows energy transfer from the solar wind into Earth's magnetosphere. In this letter, by using three‐dimensional global hybrid simulations, we find that during the northward IMF, high latitude magnetic reconnection both poleward and equatorward of the cusp can occur almost simultaneously. High latitude magnetopause flux ropes (HLMFRs) with four topologies of magnetic field lines can be formed by multiple X‐line reconnection. At the center of the HLMFRs, there is a decrease in the surrounding magnetic field magnitude (weak core field) and an increase in parallel temperature. When the IMF is purely northward, the HLMFRs are located at the noon‐midnight meridian plane. When the IMF has a positive component, the HLMFRs in the northern hemisphere shift duskward.
The Role of Along‐Fault Dilatancy in Fault Slip Behavior
Authors: Caniven Yannick , Morgan Julia K. , Blank David G. 
Published: October 2021

AbstractEarthquakes result from fast slip that occurs along a fault surface. Interestingly, numerous dense geodetic observations over the last two decades indicate that such dynamic slip may start by a gradual unlocking of the fault surface and related progressive slip acceleration. This first slow stage is of great interest, because it could define an early indicator of a devastating earthquake. However, not all slow slip turns into fast slip, and sometimes it may simply stop. In this study, we use a numerical model based on the discrete element method to simulate crustal strike‐slip faults of 50 km length that generate a wide variety of slip‐modes, from stable‐slip, to slow earthquakes, to fast earthquakes, all of which show similar characteristics to natural cases. The main goal of this work is to understand the conditions that allow slow events to turn into earthquakes, in contrast to those that cause slow earthquakes to stop. Our results suggest that fault surface geometry and related dilation/contraction patterns along strike play a key role. Slow earthquakes that initiate in large dilated regions bounded by neutral or low contracted domains, might turn into earthquakes. Slow events occurring in regions dominated by closely spaced, alternating, small magnitude dilational and contractional zones tend not to accelerate and may simply stop as isolated slow earthquakes.
Long-term cognitive outcomes in term newborns with watershed injury caused by neonatal encephalopathy
Authors: Lee Bo Lyun , Gano Dawn , Rogers Elizabeth E. , Xu Duan , Cox Stephany , James Barkovich A. , Li Yi , Ferriero Donna M. , Glass Hannah C. 
Published: October 2021

Abstract
Background
We previously reported that increasing severity of watershed (WS) injury in neonatal magnetic resonance imaging (MRI) is associated with worse language outcomes in early childhood. In the present study, we investigated the relationship between neonatal injury patterns and cognitive profile in adolescents with neonatal encephalopathy.

Methods
Term neonates with encephalopathy were prospectively enrolled and imaged using brain MRI from 1999 to 2008. Neonatal brain injury was scored according to the degree of injury in WS and basal ganglia/thalamus (BG/T) areas. The children underwent a neurocognitive assessment and follow-up brain MRI at the age of 10–16 years. The relationship between neonatal brain injury patterns and adolescent cognitive outcomes was assessed.

Results
In a cohort of 16 children, neonatal MRI showed WS injury in 7, BG/T injury in 2, and normal imaging in 7. Children with WS injury had lower estimated overall cognitive ability than those with normal imaging. Increasing WS injury score was associated with decreasing estimated overall cognitive ability, Perceptual Reasoning Index, and digit span score.

Conclusions
Children with the WS injury are at an increased risk of having problems in long-term intellectual ability. These cognitive outcomes may underlie early language difficulties seen in children with neonatal WS injury.

Impact

Adolescents with a history of neonatal encephalopathy and watershed pattern of injury on neonatal brain magnetic resonance imaging (MRI) had lower overall cognitive ability, perceptual reasoning skills, and auditory working memory than those with normal neonatal imaging.

Children with post-neonatal epilepsy and cerebral palsy had the worst cognitive outcomes.

Watershed pattern of injury confers high long-term differences in intellectual ability.
Comprehensive investigations revealed consistent pathophysiological alterations after vaccination with COVID-19 vaccines
Authors: Liu Jiping , Wang Junbang , Xu Jinfang , Xia Han , Wang Yue , Zhang Chunxue , Chen Wei , Zhang Huina , Liu Qi , Zhu Rong , Shi Yiqi , Shen Zihao , Xing Zhonggang , Gao Wenxia , Zhou Liqiang , Shao Jinliang , Shi Jiayu , Yang Xuejiao , Deng Yaxuan , Wu Li , Lin Quan , Zheng Changhong , Zhu Wenmin , Wang Congrong , Sun Yi E. , Liu Zhongmin 
Published: October 2021

AbstractLarge-scale COVID-19 vaccinations are currently underway in many countries in response to the COVID-19 pandemic. Here, we report, besides generation of neutralizing antibodies, consistent alterations in hemoglobin A1c, serum sodium and potassium levels, coagulation profiles, and renal functions in healthy volunteers after vaccination with an inactivated SARS-CoV-2 vaccine. Similar changes had also been reported in COVID-19 patients, suggesting that vaccination mimicked an infection. Single-cell mRNA sequencing (scRNA-seq) of peripheral blood mononuclear cells (PBMCs) before and 28 days after the first inoculation also revealed consistent alterations in gene expression of many different immune cell types. Reduction of CD8+ T cells and increase in classic monocyte contents were exemplary. Moreover, scRNA-seq revealed increased NF-κB signaling and reduced type I interferon responses, which were confirmed by biological assays and also had been reported to occur after SARS-CoV-2 infection with aggravating symptoms. Altogether, our study recommends additional caution when vaccinating people with pre-existing clinical conditions, including diabetes, electrolyte imbalances, renal dysfunction, and coagulation disorders.
Mesenchymal stem cell treatment improves outcome of COVID-19 patients via multiple immunomodulatory mechanisms
Authors: Zhu Rongjia , Yan Tingdong , Feng Yingmei , Liu Yan , Cao Hongcui , Peng Gongxin , Yang Yanlei , Xu Zhen , Liu Jingqi , Hou Wei , Wang Xiaoyue , Li Zhe , Deng Luchan , Wang Shihua , Li Jing , Han Qin , Li Hongling , Shan Guangliang , Cao Yinghao , An Xingyan , Yan Jianshe , Zhang Zhonghui , Li Huafei , Qu Xuebin , Zhu Jiaqi , Zhou Shumin , Wang Jiao , Zhang Fengchun , Gao Jinming , Jin Ronghua , Xu Dayong , Ma Yan-Qing , Huang Tao , Peng Shuang , Zheng Zhi , Stambler Ilia , Gilson Eric , Lim Lee Wei , Moskalev Alexey , Cano Antonio , Chakrabarti Sasanka , Ulfhake Brun , Su Huanxing , Xu Haoying , Xu Sihuan , Wei Feng , Brown-Borg Holly M. , Min Kyung-Jin , Ellison-Hughes Georgina , Caruso Calogero , Jin Kunlin , Zhao Robert Chunhua 
Published: October 2021

AbstractThe infusion of coronavirus disease 2019 (COVID-19) patients with mesenchymal stem cells (MSCs) potentially improves clinical symptoms, but the underlying mechanism remains unclear. We conducted a randomized, single-blind, placebo-controlled (29 patients/group) phase II clinical trial to validate previous findings and explore the potential mechanisms. Patients treated with umbilical cord-derived MSCs exhibited a shorter hospital stay (P = 0.0198) and less time required for symptoms remission (P = 0.0194) than those who received placebo. Based on chest images, both severe and critical patients treated with MSCs showed improvement by day 7 (P = 0.0099) and day 21 (P = 0.0084). MSC-treated patients had fewer adverse events. MSC infusion reduced the levels of C-reactive protein, proinflammatory cytokines, and neutrophil extracellular traps (NETs) and promoted the maintenance of SARS-CoV-2-specific antibodies. To explore how MSCs modulate the immune system, we employed single-cell RNA sequencing analysis on peripheral blood. Our analysis identified a novel subpopulation of VNN2+ hematopoietic stem/progenitor-like (HSPC-like) cells expressing CSF3R and PTPRE that were mobilized following MSC infusion. Genes encoding chemotaxis factors — CX3CR1 and L-selectin — were upregulated in various immune cells. MSC treatment also regulated B cell subsets and increased the expression of costimulatory CD28 in T cells in vivo and in vitro. In addition, an in vivo mouse study confirmed that MSCs suppressed NET release and reduced venous thrombosis by upregulating kindlin-3 signaling. Together, our results underscore the role of MSCs in improving COVID-19 patient outcomes via maintenance of immune homeostasis.
Topology-transformable block copolymers based on a rotaxane structure: change in bulk properties with same composition
Authors: Sato Hiroki , Aoki Daisuke , Marubayashi Hironori , Uchida Satoshi , Sogawa Hiromitsu , Nojima Shuichi , Liang Xiaobin , Nakajima Ken , Hayakawa Teruaki , Takata Toshikazu 
Published: October 2021

AbstractThe topology of polymers affects their characteristic features, i.e., their microscopic structure and macroscopic properties. However, the topology of a polymer is usually fixed during the construction of the polymer chain and cannot be transformed after its determination during the synthesis. In this study, topology-transformable block copolymers that are connected via rotaxane linkages are introduced. We will present systems in which the topology transformation of block copolymers changes their 1) microphase-separated structures and 2) macroscopic mechanical properties. The combination of a rotaxane structure at the junction point and block copolymers that spontaneously form microphase-separated structures in the bulk provides access to systems that cannot be attained using conventional covalent bonds.
Synchronization between peripheral circadian clock and feeding-fasting cycles in microfluidic device sustains oscillatory pattern of transcriptome
Authors: Gagliano Onelia , Luni Camilla , Li Yan , Angiolillo Silvia , Qin Wei , Panariello Francesco , Cacchiarelli Davide , Takahashi Joseph S. , Elvassore Nicola 
Published: October 2021

AbstractThe circadian system cyclically regulates many physiological and behavioral processes within the day. Desynchronization between physiological and behavioral rhythms increases the risk of developing some, including metabolic, disorders. Here we investigate how the oscillatory nature of metabolic signals, resembling feeding-fasting cycles, sustains the cell-autonomous clock in peripheral tissues. By controlling the timing, period and frequency of glucose and insulin signals via microfluidics, we find a strong effect on Per2::Luc fibroblasts entrainment. We show that the circadian Per2 expression is better sustained via a 24 h period and 12 h:12 h frequency-encoded metabolic stimulation applied for 3 daily cycles, aligned to the cell-autonomous clock, entraining the expression of hundreds of genes mostly belonging to circadian rhythms and cell cycle pathways. On the contrary misaligned feeding-fasting cycles synchronize and amplify the expression of extracellular matrix-associated genes, aligned during the light phase. This study underlines the role of the synchronicity between life-style-associated metabolic signals and peripheral clocks on the circadian entrainment.
The impact of physiological metabolite levels on serine uptake, synthesis and utilization in cancer cells
Authors: Hennequart Marc , Labuschagne Christiaan F. , Tajan Mylène , Pilley Steven E. , Cheung Eric C. , Legrave Nathalie M. , Driscoll Paul C. , Vousden Karen H. 
Published: October 2021

AbstractSerine is a non-essential amino acid that is critical for tumour proliferation and depletion of circulating serine results in reduced tumour growth and increased survival in various cancer models. While many cancer cells cultured in a standard tissue culture medium depend on exogenous serine for optimal growth, here we report that these cells are less sensitive to serine/glycine depletion in medium containing physiological levels of metabolites. The lower requirement for exogenous serine under these culture conditions reflects both increased de novo serine synthesis and the use of hypoxanthine (not present in the standard medium) to support purine synthesis. Limiting serine availability leads to increased uptake of extracellular hypoxanthine, sparing available serine for other pathways such as glutathione synthesis. Taken together these results improve our understanding of serine metabolism in physiologically relevant nutrient conditions and allow us to predict interventions that may enhance the therapeutic response to dietary serine/glycine limitation.