bluuebunny/crossref_metadata_2025_split huggingface dataset:
Systematic review of classification systems for locally recurrent rectal cancer
Authors: Rokan Z , Simillis C , Kontovounisios C , Moran B J , Tekkis P , Brown G 
Published: February 2021

Abstract

Background
Classification of pelvic local recurrence (LR) after surgery for primary rectal cancer is not currently standardized and optimal imaging is required to categorize anatomical site and plan treatment in patients with LR. The aim of this review was to evaluate the systems used to classify locally recurrent rectal cancer (LRRC) and the relevant published outcomes.

Methods
A systematic review of the literature prior to April 2020 was performed through electronic searches of the Science Citation Index Expanded, EMBASE, MEDLINE and CENTRAL databases. The primary outcome was to review the classifications currently in use; the secondary outcome was the extraction of relevant information provided by these classification systems including prognosis, anatomy and prediction of R0 after surgery.

Results
A total of 21 out of 58 eligible studies, classifying LR in 2086 patients, were reviewed. Studies used at least one of the following eight classification systems proposed by institutions or institutional groups (Mayo Clinic, Memorial Sloan-Kettering – original and modified, Royal Marsden and Leeds) or authors (Yamada, Hruby and Kusters). Negative survival outcomes were associated with increased pelvic fixity, associated symptoms of LR, lateral compared with central LR and involvement of three or more pelvic compartments. A total of seven studies used MRI with specifically defined anatomical compartments to classify LR.

Conclusion
This review highlights the various imaging systems in use to classify LRRC and some of the prognostic indicators for survival and oncological clearance based on these systems. Implementation of an agreed classification system to document pelvic LR consistently should provide more detailed information on anatomical site of recurrence, burden of disease and standards for comparative outcome assessment.
Development of Individual Variability in Brain Functional Connectivity and Capability across the Adult Lifespan
Authors: Ma Liying , Tian Lixia , Hu Tianyu , Jiang Tianzi , Zuo Nianming 
Published: February 2021

Abstract
Individual variability exists in both brain function and behavioral performance. However, changes in individual variability in brain functional connectivity and capability across adult development and aging have not yet been clearly examined. Based on resting-state functional magnetic resonance imaging data from a large cohort of participants (543 adults, aged 18–88 years), brain functional connectivity was analyzed to characterize the spatial distribution and differences in individual variability across the adult lifespan. Results showed high individual variability in the association cortex over the adult lifespan, whereas individual variability in the primary cortex was comparably lower in the initial stage but increased with age. Individual variability was also negatively correlated with the strength/number of short-, medium-, and long-range functional connections in the brain, with long-range connections playing a more critical role in increasing global individual variability in the aging brain. More importantly, in regard to specific brain regions, individual variability in the motor cortex was significantly correlated with differences in motor capability. Overall, we identified specific patterns of individual variability in brain functional structure during the adult lifespan and demonstrated that functional variability in the brain can reflect behavioral performance. These findings advance our understanding of the underlying principles of the aging brain across the adult lifespan and suggest how to characterize degenerating behavioral capability using imaging biomarkers.
Effect of polymer type on the colonization of plastic pellets by marine bacteria
Authors: Hansen Josefine , Melchiorsen Jette , Ciacotich Nicole , Gram Lone , Sonnenschein Eva C 
Published: February 2021

Abstract
Plastic is omnipresent in the oceans and serves as a surface for biofilm-forming microorganisms. Plastic debris comprises different polymers, which may influence microbial colonization; here, we evaluated whether polymer type affects bacterial biofilm formation. Quantifying the biofilm on polyethylene (PE), polypropylene (PP) or polystyrene (PS) pellets by six marine bacterial strains (Vibrio,Pseudoalteromonas,Phaeobacter) demonstrated that each strain had a unique colonization behavior with either a preference for PS or PP over the other polymer types or no preference for a specific plastic type. PE, PP and PS pellets were exposed to natural seawater microbiota using free-living or total communities as inoculum. Microbial assembly as determined by 16S rRNA (V4) amplicon sequencing was affected by the composition of the initial inoculum and also by the plastic type. Known polymer and hydrocarbon degraders such as Paraglaciecola, Oleibacter and Hydrogenophaga were found in the plastic biofilms. Thus, on a community level, bacterial colonization on plastic is influenced by the microorganisms as well as the polymer type, and also individual strains can demonstrate polymer-specific colonization.
K+-specific importers Trk1 and Trk2 play different roles in Ca2+ homeostasis and signalling in Saccharomyces cerevisiae cells
Authors: Zimmermannova Olga , Felcmanova Kristina , Sacka Lenka , Colinet Anne-Sophie , Morsomme Pierre , Sychrova Hana 
Published: February 2021

ABSTRACT
The maintenance of K+ and Ca2+ homeostasis is crucial for many cellular functions. Potassium is accumulated in cells at high concentrations, while the cytosolic level of calcium, to ensure its signalling function, is kept at low levels and transiently increases in response to stresses. We examined Ca2+ homeostasis and Ca2+ signalling in Saccharomyces cerevisiae strains lacking plasma-membrane K+ influx (Trk1 and Trk2) or efflux (Tok1, Nha1 and Ena1-5) systems. The lack of K+ exporters slightly increased the cytosolic Ca2+, but did not alter the Ca2+ tolerance or Ca2+-stress response. In contrast, the K+-importers Trk1 and Trk2 play important and distinct roles in the maintenance of Ca2+ homeostasis. The presence of Trk1 was vital mainly for the growth of cells in the presence of high extracellular Ca2+, whilst the lack of Trk2 doubled steady-state intracellular Ca2+ levels. The absence of both K+ importers highly increased the Ca2+ response to osmotic or CaCl2 stresses and altered the balance between Ca2+ flux from external media and intracellular compartments. In addition, we found Trk2 to be important for the tolerance to high KCl and hygromycin B in cells growing on minimal media. All the data describe new interconnections between potassium and calcium homeostasis in S. cerevisiae.
Clade-specific chromosomal rearrangements and loss of subtelomeric adhesins in Candida auris
Authors: Muñoz José F , Welsh Rory M , Shea Terrance , Batra Dhwani , Gade Lalitha , Howard Dakota , Rowe Lori A , Meis Jacques F , Litvintseva Anastasia P , Cuomo Christina A 
Published: February 2021

Abstract
Candida auris is an emerging fungal pathogen of rising concern due to global spread, the ability to cause healthcare-associated outbreaks, and antifungal resistance. Genomic analyses revealed that early contemporaneously detected cases of C. auris were geographically stratified into four major clades. While Clades I, III, and IV are responsible for ongoing outbreaks of invasive and multidrug-resistant infections, Clade II, also termed the East Asian clade, consists primarily of cases of ear infection, is often susceptible to all antifungal drugs, and has not been associated with outbreaks. Here, we generate chromosome-level assemblies of twelve isolates representing the phylogenetic breadth of these four clades and the only isolate described to date from Clade V. This Clade V genome is highly syntenic with those of Clades I, III, and IV, although the sequence is highly divergent from the other clades. Clade II genomes appear highly rearranged, with translocations occurring near GC-poor regions, and large subtelomeric deletions in most chromosomes, resulting in a substantially different karyotype. Rearrangements and deletion lengths vary across Clade II isolates, including two from a single patient, supporting ongoing genome instability. Deleted subtelomeric regions are enriched in Hyr/Iff-like cell-surface proteins, novel candidate cell wall proteins, and an ALS-like adhesin. Cell wall proteins from these families and other drug-related genes show clade-specific signatures of selection in Clades I, III, and IV. Subtelomeric dynamics and the conservation of cell surface proteins in the clades responsible for global outbreaks causing invasive infections suggest an explanation for the different phenotypes observed between clades.
Social and Physical Context Moderates Older Adults’ Affective Responses to Sedentary Behavior: An Ecological Momentary Assessment Study
Authors: Hevel Derek J , Drollette Eric S , Dunton Genevieve F , Maher Jaclyn P 
Published: February 2021

Abstract

Objectives
Older adults engage in excessive sedentary behaviors which hold significant health implications. Examining affect responses during sedentary behavior is not well understood despite the wealth of evidence linking affect and motivation. Contextual influences (i.e., social and physical) likely influence affective responses during sedentary behavior and therefore warrant further investigation.

Method
Older adults (n = 103, Mage = 72, range: 60–98) participated in a 10-day study where they received 6 randomly timed, smartphone-based Ecological Momentary Assessment (EMA) prompts/day. Participants reported their affect, current behavior, and context at each EMA prompt. Participants also wore an activPAL accelerometer to measure their sedentary behavior duration. Separate multilevel models examined the extent to which the context influences affective responses during self-report sedentary (vs nonsedentary) behaviors.

Results
The social context moderated the association between sedentary behavior and negative affect. The physical context moderated the association between sedentary behavior and positive affect.

Discussion
Interventions should consider the context of behaviors when designing interventions to reduce sedentary behavior as some contextual factors may attenuate, while other contexts may exacerbate, associations between activity-related behaviors and indicators of well-being.
Evidence of increased occurrence of Atlantic bluefin tuna in territorial waters of the United Kingdom and Ireland
Authors: Horton Thomas W , Block Barbara A , Davies Rachel , Hawkes Lucy A , Jones Duncan , Jones Hannah , Leeves Keith , Maoiléidigh Niall Ó , Righton David , van der Kooij Jeroen , Wall Dave , Witt Matthew J 
Published: February 2021

Abstract
Atlantic bluefin tuna (ABT, Thunnus thynnus; Linneaus, 1758) is an ecologically important apex-predator with high commercial value. They were once common off the coast of the United Kingdom (UK), before disappearing in the 1960s. In regions lacking commercial fisheries for ABT, such as the UK and Ireland, spatial data can be scarce. In these cases, sightings and bycatch databases can offset information shortfalls. Here, we document the reappearance of ABT into territorial waters of the UK from 2014 onwards, and increased occurrence off Ireland. We analyse a novel, multi-source dataset comprising occurrence data (2008–2019; 989 sightings and 114 tonnes of bycatch) compiled from a range of sources (scientific surveys, ecotours and fisheries). We show an increasing trend in effort-corrected ABT occurrence in (i) the pelagic ecosystem survey in the western English Channel and Celtic Sea (PELTIC), (ii) an ecotour operator, and (iii) the Irish albacore fishery in on-shelf and off-shelf waters. Sightings of ABT by the PELTIC correlated with modelled abundance estimates of ABT and the Atlantic multidecadal oscillation. These data demonstrate that sightings of ABT have increased off the UK and Ireland since 2014, following the same increasing trend (2010 onwards) as the eastern ABT population.
Exploring the role of temperature in observed inter-population differences of Atlantic cod(Gadus morhua)growth with a 4-dimensional modelling approach
Authors: Sokolova Nadezhda , Butzin Martin , Dahlke Flemming , Werner Karl Michael , Balting Daniel , Lohmann Gerrit , Pörtner Hans-Otto 
Published: February 2021

AbstractAtlantic cod (Gadus morhua) is one of the most commercially important fish species in the North Atlantic. Environmental factors, such as water temperatures, influence growth of individuals over time, thus forming population-specific growth patterns across climatic regions. Here we develop an integrative approach to investigate the role of temperature in shaping geographic differences of cod growth in the Celtic Sea, North Sea, Iceland, and Barents Sea. We combine a physiology-based growth model and 50-years observational temperature data of 0.5 × 0.5° spatial resolution to simulate continuous growth of cod. The model generated weight-at-age data for the period 1959–2007 which we compared to observational data from fishery-independent scientific surveys. In the Celtic and the northern North Sea, simulated growth matches well observational data. We also show that relatively warm temperatures in the Celtic Sea facilitate maximum growth rates; future warming is likely to have a negative impact on growth of these cod stocks. Growth simulations in Icelandic waters and the Barents Sea are less consistent with local observational data. More complex growth patterns in these regions are probably shaped by ontogenetic shifts in temperature regimes, feeding conditions and physiological adaptations. These findings should stimulate further research on critical processes to be considered in population-specific projections of growth of cod and productivity.
ACE: the Advanced Cohort Engine for searching longitudinal patient records
Authors: Callahan Alison , Polony Vladimir , Posada José D , Banda Juan M , Gombar Saurabh , Shah Nigam H 
Published: February 2021

Abstract

Objective
To propose a paradigm for a scalable time-aware clinical data search, and to describe the design, implementation and use of a search engine realizing this paradigm.

Materials and Methods
The Advanced Cohort Engine (ACE) uses a temporal query language and in-memory datastore of patient objects to provide a fast, scalable, and expressive time-aware search. ACE accepts data in the Observational Medicine Outcomes Partnership Common Data Model, and is configurable to balance performance with compute cost. ACE’s temporal query language supports automatic query expansion using clinical knowledge graphs. The ACE API can be used with R, Python, Java, HTTP, and a Web UI.

Results
ACE offers an expressive query language for complex temporal search across many clinical data types with multiple output options. ACE enables electronic phenotyping and cohort-building with subsecond response times in searching the data of millions of patients for a variety of use cases.

Discussion
ACE enables fast, time-aware search using a patient object-centric datastore, thereby overcoming many technical and design shortcomings of relational algebra-based querying. Integrating electronic phenotype development with cohort-building enables a variety of high-value uses for a learning health system. Tradeoffs include the need to learn a new query language and the technical setup burden.

Conclusion
ACE is a tool that combines a unique query language for time-aware search of longitudinal patient records with a patient object datastore for rapid electronic phenotyping, cohort extraction, and exploratory data analyses.
Diagnostic Value of Neutrophil CD64 in Burn Patients With Infection in Chinese Population: A Systematic Review and Meta-analysis
Authors: Chen Zhao , Nurlan Turxun , Ning Fangyan , Zha Tianjian , Liu Xiaolong 
Published: February 2021

Abstract
Infection is one of the leading causes of death in burn patients. Many researchers regard neutrophil CD64 (nCD64) as a biomarker in the early diagnosis of burn patients with infection. Nevertheless, the conclusions are controversial. A comprehensive analysis of the diagnostic value of nCD64 for burn infection was performed in China using a meta-analysis method. Pubmed, Cochrane Library, Web of Science, Embase, China National Knowledge Infrastructure (CNKI), and China Wanfang databases were searched for studies on nCD64 as a diagnostic biomarker of burn patients with infection from the establishment of the databases to September 29, 2020. The data were analyzed by Stata 15.0 software. Six studies were identified. The results showed that the pooled sensitivity, specificity, positive likelihood ratio, negative likelihood ratio, and diagnostic odds ratio were 0.92 (95% confidence interval [CI]: 0.88~0.95), 0.82 (95% CI: 0.76~0.87), 5.10 (95% CI: 3.90~6.80), 0.10 (95% CI: 0.06~0.15), and 52 (95% CI: 29~94), respectively. The area under the curve was 0.94 (95% CI: 0.92~0.94). According to the analysis of the sepsis subgroup, it showed that nCD64 had good diagnostic value in the patients with burn sepsis in Chinese population. Neutrophil CD64 is highly efficient to diagnose burn infection in Chinese population. Therefore, nCD64 could be regarded as a valuable biomarker for the early diagnosis of burn infection in China, especially in patients with burn sepsis. Combined with other diagnostic indexes, nCD64 can be clinically used in the early diagnosis of burn infection to improve the sensitivity and specificity.
Governing secondary research use of health data and specimens: the inequitable distribution of regulatory burden between federally funded and industry research
Authors: Spector-Bagdady Kayte 
Published: February 2021

Abstract
Some of the most promising recent advances in health research offer opportunities to improve diagnosis and therapy for millions of patients. They also require access to massive collections of health data and specimens. This need has generated an aggressive and lucrative push toward amassing troves of human data and biospecimens within academia and private industry. But the differences between the strict regulations that govern federally funded researchers in academic medical centers (AMCs) versus those that apply to the collection of health data and specimens by industry can entrench disparities. This article will discuss the value of secondary research with data and specimens and analyze why AMCs have been put at a disadvantage as compared to industry in amassing the large datasets that enable this work. It will explore the limitations of this current governance structure and propose that, moving forward, AMCs should set their own standards for commercialization of the data and specimens they generate in-house, the ability of their researchers to use industry data for their own work, and baseline informed consent standards for their own patients in order to ensure future data accessibility.
Experimental and theoretical investigations on sensing and dynamic characteristics of PVDF thin film
Authors: Lin Yu-Chih , Huang Yu-Hsi , Ma Chien-Ching , Chang Chun-Kai 
Published: February 2021

Abstract
This research investigates both the steady-state and transient dynamic characteristics of polyvinylidene fluoride (PVDF), which is one of the most commonly used piezoelectric polymers. In steady-state vibration, the visible resonant mode fringe patterns are obtained using the amplitude-fluctuation electronic speckle pattern interferometry experiment, and the point-wise displacement data are measured by laser Doppler vibrometer–dynamic signal analysis. Finite element analysis is also performed, and the numerical results are compared with the experimental ones for the steady-state vibration. In a transient dynamic experiment, the history of dynamic impact generated by a steel ball is measured by the PVDF, and the experimental results are compared with the theoretical results obtained by the Hertz contact law. The comprehensive information about steady-state and transient dynamic properties of PVDF membranes obtained in this study is expected to contribute to the further development of the PVDF piezoelectric element.
Regression rate response in spin-stabilized solid fuel ramjets
Authors: Tahsini Amir Mahdi 
Published: February 2021

ABSTRACT
The regression rate of the solid fuel in the spinning solid fuel ramjet is investigated here using numerical simulations. The finite volume solver of the reacting turbulent flow is developed to study the flow field in the back-step combustion chamber where the burning rate of the solid fuel is computed using the conjugate heat transfer. The dependence of the burning rate on the circumferential velocity of the ramjet is studied, and it is shown that the spin augments the burning rate due to the enhancement of the convective heat flux along the fuel grain. So, the spin can be used to improve the performance of the solid fuel ramjets. In addition, the effect of rapid change in spin velocity on the regression rate of the fuel is investigated, which shows the transient-burning behavior. The results show that although the spin may increase the burning rate by ∼10% in steady-state operation of the ramjet, the spin acceleration may cause the overshoot in burning rate with the peak value &gt;30% in the unsteady operation.
The influences of corrosion on the tightening and anti-loosening properties of a flank-locking precision locknut
Authors: Chang Huey-Ling , Chen Chih-Ming , Lee Chun-Ying 
Published: February 2021

ABSTRACT
Locknut is a critical component used in the precision machinery and its stable service performance over a long period of time in a variety of different environments presents a crucial challenge. In this study, a flank-locking precision locknut was pretreated in an immersion corrosion of 5 wt% NaCl solution to simulate the possible corrosion effects. The tightening and loosening of the locknut after 0-, 1-, 2- and 4-h corrosion treatments, respectively, was tested according to the ISO 2320 Standard. An in-house test setup with horizontal configuration was employed in measuring the torque–axial force characteristics under loading–unloading cycles. It was found that the corrosion of the locknut accelerated after 1-h immersion. The corroded specimens after 2- and 4-h treatment demonstrated more variance in measured tightening and loosening torques than their less corroded counterparts. However, after five loading–unloading cycles, the variance in measured torque decreased and the associated torque constants became more stable. Moreover, the torque constants were ∼10% higher for the 2- and 4-h corrosion-treated locknuts than their pristine counterpart. The surface morphology after corrosion and friction wear was closely related to the measured testing results.