bluuebunny/crossref_metadata_2025_split huggingface dataset:
1357 THE ‘CONSULTATION COMMUNICATION’ PROFORMA: ENHANCING EFFECTIVE COMMUNICATION BETWEEN OUTPATIENTS AND INTERMEDIATE CARE
Authors: Mahmood K , Hussain A , Packer S , Edwards S , Gupta A 
Published: January 2023

Abstract

Introduction
The Norman Power Centre (NPC) is a 32 bedded Intermediate Care Unit, run by an acute hospital trust in Birmingham, UK, for patients who require ongoing 24-hour care, rehabilitation or further assessment, but do not need to be in an acute hospital setting. These frail patients attend numerous outpatient hospital appointments, but rarely do staff receive communication back from these outpatient reviews. This can lead to delays in implementing specialist management plans, with potential for adverse outcomes for patients and increased staff workload in seeking out the required information. A ‘Consultation Communication’ proforma was designed, to be filled in at the appointment and brought back to NPC with the patient.

Method
Patients and escorts took proformas to outpatient appointments between March and June 2022. The information on the forms was then analysed to assess completeness and usefulness.

Results
Appointments were in surgical and medical specialities, as well as imaging in three hospitals within one trust. Proformas were taken to 19/20 appointments. 100% of these were at least partially completed, with only two forms being largely incomplete. 17/19 provided information about the assessment carried out. 12/19 included recommendations relevant to admission at NPC. 13/19 had information on medication changes. 14/19 stated whether follow up was required. Eight out of nine required follow-ups had specific details included. 13/19 had the professional’s details, 11 with contact numbers. Of those without details, two were imaging appointments where contact details were not relevant.

Conclusions
This easy to implement, simple intervention, with an excellent engagement rate from both NPC and outpatient appointment staff, has led to improved continuity of care for patients. The proforma has scope to be improved based on staff feedback, and its use could be expanded across other off-site facilities such as community hospitals or care homes.
1193 CWTCH IN THE COMMUNITY - IMPROVING EDUCATION TO REDUCE ADVERSE OUTCOMES FOR PATIENTS WHO FALL IN NURSING HOMES (NH)
Authors: Burgess A J , Clee D , Davies E A , Burberry D J , Keen L 
Published: January 2023

Abstract

Introduction
Falls have significant morbidity and mortality in Nursing Home (NH) residents. By improving education to NH staff we aim to reduce 999 calls and associated adverse outcomes. NH residents are more likely to fall than people living in the community and are more at risk of further falls as interventions and risk factor modification is more difficult.

Methods
Phase 1 - Ambulance calls, where a vehicle attended the scene, between 01/01/2020-28/02/2022 from NH in Swansea Bay University Health Board (SBUHB) concerning Falls/?Falls (Haemorrhage/lacerations, Unconscious/fainting, traumatic injuries, sick person, convulsions/fitting) were analysed and survey was sent out to all NH.
Phase 2 - Education was provided about CWTCH (hug in Welsh) and staff were surveyed post intervention. Can you move them, Will it harm them? - new neck/back pain, anticoagulation, Treat them – analgesia, wound-care, Cup of Tea – can eat and drink, Help – when contact 999.

Results
Phase 1 - Between 01/01/2020-28/02/2022, of 4907 calls, 866 were falls (17.65%) and 1032 ?Falls (21.07%), 60.49% conveyed to hospital. 47% of NH do not have falls guidelines and 100% patients are Nil by Mouth and 88.24% are not moved. Emergency services were contacted 88.24%. Phase 2 - Education was delivered to all NH in Swansea (122 staff). Feedback showed 100% feel more confident in giving food and drink, moving patients, with 90.98% less likely to contact 999 and 75.40% not having previous training with 96.72 % more confident in giving analgesia.

Conclusions
Falls remain a significant burden and a rapid service would improve care with conveyance reduction to 53.1% post education (60.55% pre-education). Future directions include offering this education to NH in Neath/Port Talbot. From March 2022, we offer same-day assessment for NH residents (and others) from primary care and ambulances and are developing a PRN analgesia pathway e.g. PENTHROX.
A unified mediation analysis framework for integrative cancer proteogenomics with clinical outcomes
Authors: Huang Licai , Long James P , Irajizad Ehsan , Doecke James D , Do Kim-Anh , Ha Min Jin 
Published: January 2023

Abstract

Motivation
Multilevel molecular profiling of tumors and the integrative analysis with clinical outcomes have enabled a deeper characterization of cancer treatment. Mediation analysis has emerged as a promising statistical tool to identify and quantify the intermediate mechanisms by which a gene affects an outcome. However, existing methods lack a unified approach to handle various types of outcome variables, making them unsuitable for high-throughput molecular profiling data with highly interconnected variables.

Results
We develop a general mediation analysis framework for proteogenomic data that include multiple exposures, multivariate mediators on various scales of effects as appropriate for continuous, binary and survival outcomes. Our estimation method avoids imposing constraints on model parameters such as the rare disease assumption, while accommodating multiple exposures and high-dimensional mediators. We compare our approach to other methods in extensive simulation studies at a range of sample sizes, disease prevalence and number of false mediators. Using kidney renal clear cell carcinoma proteogenomic data, we identify genes that are mediated by proteins and the underlying mechanisms on various survival outcomes that capture short- and long-term disease-specific clinical characteristics.

Availability and implementation
Software is made available in an R package (https://github.com/longjp/mediateR).

Supplementary information
Supplementary data are available at Bioinformatics online.
Preoperative visualization of congenital lung abnormalities: hybridizing artificial intelligence and virtual reality
Authors: Bakhuis Wouter , Kersten Casper M , Sadeghi Amir H , Mank Quinten J , Wijnen René M H , Ciet Pierluigi , Bogers Ad J J C , Schnater J Marco , Mahtab Edris A F 
Published: January 2023

Abstract

OBJECTIVES
When surgical resection is indicated for a congenital lung abnormality (CLA), lobectomy is often preferred over segmentectomy, mostly because the latter is associated with more residual disease. Presumably, this occurs in children because sublobar surgery often does not adhere to anatomical borders (wedge resection instead of segmentectomy), thus increasing the risk of residual disease. This study investigated the feasibility of identifying eligible cases for anatomical segmentectomy by combining virtual reality (VR) and artificial intelligence (AI).

METHODS
Semi-automated segmentation of bronchovascular structures and lesions were visualized with VR and AI technology. Two specialists independently evaluated via a questionnaire the informative value of regular computed tomography versus three-dimensional (3D) VR images.

RESULTS
Five asymptomatic, non-operated cases were selected. Bronchovascular segmentation, volume calculation and image visualization in the VR environment were successful in all cases. Based on the computed tomography images, assignment of the CLA lesion to specific lung segments matched between the consulted specialists in only 1 out of the cases. Based on the three 3D VR images, however, the localization matched in 3 of the 5 cases. If the patients would have been operated, adding the 3D VR tool to the preoperative workup would have resulted in changing the surgical strategy (i.e. lobectomy versus segmentectomy) in 4 cases.

CONCLUSIONS
This study demonstrated the technical feasibility of a hybridized AI–VR visualization of segment-level lung anatomy in patients with CLA. Further exploration of the value of 3D VR in identifying eligible cases for anatomical segmentectomy is therefore warranted.
Le Tapis magique immobile: détail colonial et ambiguïté narrative dans le roman-fleuve de l’entre-deux-guerres
Authors: Panaïté Oana , Achille Étienne 
Published: January 2023

Abstract

This article engages with the narrative, rhetorical, and ideological manifestations of the colonial illusion in French interwar serialized novels (
romans-fleuves
) while focusing on Jules Romains’s
Les Hommes de bonne volonté
(initially published in twenty-seven instalments or
livres
between 1932 and 1946). In discussing key narrative scenes and strategies of characterization as they relate to notions of empire, exoticism, colonial spaces and destinies, as well as critiques of colonialism, it contends that this overlooked corpus of French literature, which also includes authors such as Roger Martin du Gard and Romain Rolland, deserves closer scrutiny for both aesthetic and ideological reasons, and it invites reflection on the implicit criteria that exclude such work from the usual corpus of literary representations of colonialism. The study of these texts reveals both changes and continuities between the interwar period and late twentieth- and early twenty-first-century modes of literary representation of key social and cultural issues, such as the universalist vocation of France, the (post-)colonial elsewhere, and the debate over national identity.
Ethnicity and Parkinson’s Disease: Motor and Nonmotor Features and Disease Progression in Latino Patients Living in Rural California
Authors: Duarte Folle Aline , Flores Marie E S , Kusters Cynthia , Paul Kimberly C , Del Rosario Irish , Zhang Keren , Ruiz Cristina , Castro Emily , Bronstein Jeff , Ritz Beate , Keener Adrienne M 
Published: January 2023

Abstract

Background
Parkinson’s disease (PD) is the second most common neurodegenerative disorder among older adults worldwide. Currently, studies of PD progression rely primarily on White non-Latino (WNL) patients. Here, we compare clinical profiles and PD progression in Latino and WNL patients enrolled in a community-based study in rural Central California.

Method
PD patients within 5 years of diagnosis were identified from 3 counties between 2001 and 2015. During up to 3 visits, participants were examined by movement disorders specialists and interviewed. We analyzed cross-sectional differences in PD clinical features severity at each study visit and used linear mixed models and Cox proportional hazards models to compare motor, nonmotor, and disability progression longitudinally and to assess time to death in Latinos compared to WNL patients.

Results
Of 775 patients included, 138 (18%) self-identified as Latino and presented with earlier age at diagnosis (63.6 vs 68.9) and death (78.6 vs 81.5) than WNL. Motor (hazard ratio [HR] = 1.17 [0.71, 1.94]) and nonmotor symptoms did not progress faster in Latino versus WNL patients after accounting for differences in baseline symptom severity. However, Latino patients progressed to disability stages according to Hoehn and Yahr faster than WNL (HR = 1.81 [1.11, 2.96]). Motor and nonmotor symptoms in Latino patients were also medically managed less well than in WNL.

Conclusions
Our PD study with a large proportion of Latino enrollees and progression data reveals disparities in clinical features and progression by ethnicity that may reflect healthcare access and structural socioeconomic disadvantages in Latino patients with PD.
The Association Between Self-Reported Hearing Loss and Loss of Usual Source of Health Care Among Older Medicare Beneficiaries: Evidence From the National Health and Aging Trends Study
Authors: Garcia Morales Emmanuel , Assi Lama , Powell Danielle , Luu Kayti , Reed Nicholas 
Published: January 2023

AbstractBackground and ObjectivesThe purpose of the study is to investigate the association of hearing loss (HL) with maintaining a usual source of care (USOC).Research Design and MethodsIn this study we implemented a time-to-event analysis using data from the National Health and Aging Trends Study (NHATS), a nationally representative study of older Medicare beneficiaries in the United States. The study sample included 2 114 older adults, aged 65+ years, 58.9% female, 20.4% Black, who reported having a USOC during the baseline round of NHATS and who remained community-dwelling during the 2011–2018 study period. Based on self-report measures at baseline, individuals’ hearing status was classified into 3 categories: no HL, treated HL (hearing aids users), and untreated HL (nonhearing aid users who reported having hearing difficulties). Time-to-event was computed as the time elapsed between baseline and the study round in which the respondent first reported no longer having a USOC. Discrete-time proportional hazard models were estimated.ResultsIn fully adjusted models, untreated HL at baseline was associated with a hazard ratio (HR) for losing one’s USOC 1.60 (95% confidence interval: 1.01, 2.56) times higher than that of participants with no HL. We found no HR differences between the treated- and no-HL group.Discussion and ImplicationsUntreated HL at baseline was associated with a higher probability of losing one’s USOC over time. Noninvasive interventions such as hearing aids may be beneficial for maintaining a USOC.
xAtlas: scalable small variant calling across heterogeneous next-generation sequencing experiments
Authors: Farek Jesse , Hughes Daniel , Salerno William , Zhu Yiming , Pisupati Aishwarya , Mansfield Adam , Krasheninina Olga , English Adam C , Metcalf Ginger , Boerwinkle Eric , Muzny Donna M , Gibbs Richard , Khan Ziad , Sedlazeck Fritz J 
Published: January 2023

Abstract

Background
The growing volume and heterogeneity of next-generation sequencing (NGS) data complicate the further optimization of identifying DNA variation, especially considering that curated high-confidence variant call sets frequently used to validate these methods are generally developed from the analysis of comparatively small and homogeneous sample sets.

Findings
We have developed xAtlas, a single-sample variant caller for single-nucleotide variants (SNVs) and small insertions and deletions (indels) in NGS data. xAtlas features rapid runtimes, support for CRAM and gVCF file formats, and retraining capabilities. xAtlas reports SNVs with 99.11% recall and 98.43% precision across a reference HG002 sample at 60× whole-genome coverage in less than 2 CPU hours. Applying xAtlas to 3,202 samples at 30× whole-genome coverage from the 1000 Genomes Project achieves an average runtime of 1.7 hours per sample and a clear separation of the individual populations in principal component analysis across called SNVs.

Conclusions
xAtlas is a fast, lightweight, and accurate SNV and small indel calling method. Source code for xAtlas is available under a BSD 3-clause license at https://github.com/jfarek/xatlas.
Grassmannians over Rings and Subpolygons
Authors: Cuntz Michael 
Published: January 2023

Abstract
We investigate special points on the Grassmannian, which correspond to friezes with coefficients in the case of rank two. Using representations of arithmetic matroids, we obtain a theorem on subpolygons of specializations of the coordinate ring. As a special case, we recover the characterization of subpolygons in classic frieze patterns. Moreover, we observe that specializing clusters of the coordinate ring of the Grassmannian to units yields representations that may be interpreted as arrangements of hyperplanes with notable properties. In particular, we get an interpretation of certain Weyl groups and groupoids as generalized frieze patterns.
Weather Shocks, Birth and Early Life Health: Evidence of Different Gender Impacts
Authors: Abiona Olukorede 
Published: January 2023

Abstract
This paper examines the impact of exposure to weather events during gestation on birth weight and anthropometric health of a cohort of children. We explore birth records for the cohort of children born between 2003 and 2013 in Sierra Leone using Demographic Health Surveys linked to temporal variation of rainfall and temperature patterns. We find that in utero droughts (or abnormally low precipitation levels) increase the prevalence of low birth weight with larger effects among boys. However, the effects of those same in utero shocks on the prevalence of stunting up to 59 months later are smaller for boys than for girls. The gender difference in estimated impacts from birth to anthropometric health is attributed to food consumption patterns that favour boys. Our results have policy implications for tracking health outcomes during early childhood using birth and anthropometric health, especially by gender.
Sahlqvist completeness theory for hybrid logic with downarrow binder
Authors: Zhao Zhiguang 
Published: January 2023

Abstract
In the present paper, we continue the research in Zhao (2021, Logic J. IGPL) to develop the Sahlqvist completeness theory for hybrid logic with satisfaction operators and downarrow binders $\mathcal {L}( @, {\downarrow })$. We define the class of restricted Sahlqvist formulas for $\mathcal {L}( @, {\downarrow })$ following the ideas in Conradie and Robinson (2017, J. Logic Comput., 27, 867–900), but we follow a different proof strategy which is purely proof-theoretic, namely showing that for every restricted Sahlqvist formula $\varphi $ and its hybrid pure correspondence $\pi $, $\textbf {K}_{\mathcal {H}( @, {\downarrow })}+\varphi $ proves $\pi $; therefore, $\textbf {K}_{\mathcal {H}( @, {\downarrow })}+\varphi $ is complete with respect to the class of frames defined by $\pi $, using a modified version $\textsf {ALBA}^{{\downarrow }}_{\textsf {Modified}}$ of the algorithm $\textsf {ALBA}^{{\downarrow }}$ defined in Zhao (2021, Logic J. IGPL).
Vertebral Osteomyelitis Caused by Mycobacterium arupense Mimicking Tuberculous Spondylitis: First Reported Case and Literature Review
Authors: Kasamatsu Ayu , Fukushima Kazuaki , Igarashi Yuriko , Mitarai Satoshi , Nagata Yuka , Horiuchi Masao , Sekiya Noritaka 
Published: January 2023

Abstract
Mycobacterium arupense is a slow-growing, nontuberculous mycobacterium widely found in the environment and is known to cause tenosynovitis and osteomyelitis, mainly in the hands and wrists. We present the first case of vertebral osteomyelitis caused by M arupense in a 78-year-old man with renal cell carcinoma. The patient had a history of tuberculous pleuritis in childhood. Although the nucleic acid amplification test of the vertebral tissue for Mycobacterium tuberculosis was negative, we initiated tuberculosis treatment based on the history and pathological findings of auramine-rhodamine-positive organisms and epithelioid cell granulomas. Subsequently, the isolated mycobacterium was identified as M arupense by genome sequencing. Accordingly, the treatment regimen was changed to a combination of clarithromycin, ethambutol, and rifabutin. Owing to a subsequent adverse event, rifabutin was switched to faropenem, and the patient was treated for a total of 1 year. In previous literature, we found 15 reported cases of bone and soft tissue infections caused by M arupense, but none of them had vertebral lesions. Physicians should be aware that M arupense can cause vertebral osteomyelitis mimicking tuberculous spondylitis. In addition, molecular testing of isolated mycobacteria is essential for diagnosis, even if tuberculous spondylitis is suspected.
Cerebral cortical thickness and cognitive decline in Parkinson’s disease
Authors: Pletcher Colleen , Dabbs Kevin , Barzgari Amy , Pozorski Vincent , Haebig Maureen , Wey Sasha , Krislov Stephanie , Theisen Frances , Okonkwo Ozioma , Cary Paul , Oh Jennifer , Illingworth Chuck , Wakely Michael , Law Lena , Gallagher Catherine L 
Published: January 2023

AbstractIn Parkinson’s disease (PD), reduced cerebral cortical thickness may reflect network-based degeneration. This study performed cognitive assessment and brain MRI in 30 PD participants and 41 controls at baseline and 18 months later. We hypothesized that cerebral cortical thickness and volume, as well as change in these metrics, would differ between PD participants who remained cognitively stable and those who experienced cognitive decline. Dividing the participant sample into PD-stable, PD-decline, and control-stable groups, we compared mean cortical thickness and volume within segments that comprise the prefrontal cognitive-control, memory, dorsal spatial, and ventral object-based networks at baseline. We then compared the rate of change in cortical thickness and volume between the same groups using a vertex-wise approach. We found that the PD-decline group had lower cortical thickness within all 4 cognitive networks in comparison with controls, as well as lower cortical thickness within the prefrontal and medial temporal networks in comparison with the PD-stable group. The PD-decline group also experienced a greater rate of volume loss in the lateral temporal cortices in comparison with the control group. This study suggests that lower thickness and volume in prefrontal, medial, and lateral temporal regions may portend cognitive decline in PD.
Virus-induced interference as a means for accelerating fitness-based selection of cyprinid herpesvirus 3 single-nucleotide variantsin vitroandin vivo
Authors: Gao Yuan , Sridhar Arun , Bernard Noah , He Bo , Zhang Haiyan , Pirotte Sébastien , Desmecht Salomé , Vancsok Catherine , Boutier Maxime , Suárez Nicolás M , Davison Andrew J , Donohoe Owen , Vanderplasschen Alain F C 
Published: January 2023

AbstractCyprinid herpesvirus 3 (CyHV-3) is the archetype of fish alloherpesviruses and is advantageous to research because, unlike many herpesviruses, it can be studied in the laboratory by infection of the natural host (common and koi carp). Previous studies have reported a negative correlation among CyHV-3 strains between viral growth in vitro (in cell culture) and virulence in vivo (in fish). This suggests the existence of genovariants conferring enhanced fitness in vitro but reduced fitness in vivo and vice versa. Here, we identified the syncytial plaque formation in vitro as a common trait of CyHV-3 strains adapted to cell culture. A comparison of the sequences of virion transmembrane protein genes in CyHV-3 strains, and the use of various recombinant viruses, demonstrated that this trait is linked to a single-nucleotide polymorphism (SNP) in the open reading frame (ORF) 131 coding sequence (C225791T mutation) that results in codon 183 encoding either an alanine (183A) or a threonine (183T) residue. In experiments involving infections with recombinant viruses differing only by this SNP, the 183A genovariant associated with syncytial plaque formation was the more fit in vitro but the less fit in vivo. In experiments involving coinfection with both viruses, the more fit genovariant contributed to the purifying selection of the less fit genovariant by outcompeting it. In addition, this process appeared to be accelerated by viral stimulation of interference at a cellular level and stimulation of resistance to superinfection at a host level. Collectively, this study illustrates how the fundamental biological properties of some viruses and their hosts may have a profound impact on the degree of diversity that arises within viral populations.