bluuebunny/crossref_metadata_2025_split huggingface dataset:
Research
Authors: Higgins Lee 
Published: September 2024

Abstract
This think piece aims to evoke research approaches resonating with community music’s ethos and practice. After contextualizing questions that have driven the author’s project, this chapter engages with a figure of the margin and presents some ideas of how this may be useful when considering community music research. Following this, the author uses his tenure as the editor of the International Journal of Community Music as a case to explore Gianni Vattimo’s notion of weak thought, suggesting ways those in positions of power might model community musics ethos for the next generation of scholars. Through two illustrations of practice, the author discusses representations of community music practice within two different research frames and asks, How might I do community music research?
Departure
Authors: Higgins Lee 
Published: September 2024

Abstract
The final chapter of Thinking Community Music brings together the ideas emerging from the eight think pieces. Integrating key themes explored in previous think pieces, this short chapter offers five statements reflecting possible ways to think about community music. Each statement contains ideas drawn from the eight think pieces, and each idea has a location so readers can pinpoint where to find the expanded descriptions. As a constellation of concepts, community music is finally understood as hospitable music making, a relational music practice vibrating to the tune of the politics of cultural democracy and responding to contemporary and historical forms of cultural and social inequality.
Alcohol pharmacotherapy dispensing trends in Australia between 2006 and 2023
Authors: Quintrell Ebony , Page Amy , Wyrwoll Caitlin , Larcombe Alexander , Preen David B , Almeida Osvaldo , Etherton-Beer Christopher , Kelty Erin 
Published: September 2024

Abstract

Aims
This study aimed to investigate acamprosate and naltrexone dispensing patterns in Australia.

Methods
A 10% representative sample of medications subsidized by the Australian Pharmaceutical Benefits Scheme (PBS) was used to identify individuals who were dispensed naltrexone or acamprosate between January 2006 and December 2023. Data were used to examine concurrent dispensing, medication switching and treatment episode length, as well as changes in prevalence and incidence over time.

Results
During the study, we identified 22 745 individuals with a total of 117 548 dispensed prescriptions (45.3% naltrexone, 43.0% acamprosate, and 11.7% concurrent dispensing). Alcohol pharmacotherapy dispensing occurred in 1354 per 100 000 individuals. It is estimated that 2.9% of individuals with an alcohol use disorder in Australia are receiving a PBS-listed pharmacological treatment. For both pharmacotherapies, individuals were most likely to be male (60.0%) and 35–54 years of age (56.0%). Individuals were more likely to switch from acamprosate to naltrexone rather than the reverse. From 2006 and 2023, the number of prevalent individuals treated with an alcohol pharmacotherapy significantly increased, driven mainly the use of naltrexone, which more than doubled over the study period. Incident naltrexone-treated individuals were more likely to remain on treatment for the recommended minimum 3-month period compared to acamprosate treated individuals, although overall dispensing for at least 3 months was low (5.1%).

Conclusions
In Australia between 2006 and 2023, rates of naltrexone dispensing have substantially increased, while acamprosate dispensing showed minimal changes. However, the use of alcohol pharmacotherapies remains low compared with the likely prevalence of alcohol use disorders.
The Effect of Tranexamic Acid Administration During Liposuction on Bleeding Complications and Ecchymosis: A Systematic Review
Authors: ElAbd Rawan , Richa Yasmina , Pouramin Panthea , Dow Todd , AlNesef Meshari , Safran Tyler , Gilardino Mirko , Samargandi Osama A 
Published: September 2024

Abstract

Liposuction is the most frequently performed cosmetic procedure. Tranexamic acid (TXA) has emerged as a promising blood loss reducing agent in plastic surgery, but its value in liposuction is still being studied. This systematic review investigates the safety and efficacy of TXA in reducing blood loss during liposuction procedures. A systematic review of PubMed, EMBASE, and Cochrane databases from inception to June 2023 was performed. The primary objective was to compare blood loss, hematoma rate, and ecchymosis from liposuction procedures in patients who received TXA with those who did not. The secondary objective was to assess the incidence of TXA-related complications. A total of 9 studies were included, published between 2018 and 2023, of which 8 were prospective and 1 was retrospective. A total of 345 intervention vs 268 control arms were compared. Follow-up time ranged from 1 to 14 days. Mean age and mean BMI ranged from 33 to 50 years and 23 to 30 kg/m2, respectively. Blood loss in aspirate was significantly less with TXA administration as assessed in 5 studies (P &lt; .05). Of the 5 studies that described assessment of the incidence of ecchymosis, all reported less bruising with TXA use. Among all the studies, only 1 reported postoperative complications in 5 patients requiring transfusion in the control group (without TXA). The evidence provided in the literature suggests that TXA administration in liposuction is safe and effective for reducing blood loss and ecchymosis by both intravenous and local administration.

Level of Evidence: 3 (Therapeutic)
Acoustic effects complement visual displays of Great Bowerbird bowers
Authors: Endler John A , Meehan Selina , Rodrigues Aida , Hallett Vicki 
Published: September 2024

Abstract
Sexual selection can result in extreme development of multimodal mate-attracting traits, including complex constructions. Male Great Bowerbirds build bowers for attracting females. Bowers contain a thatched twig tunnel (avenue) opening onto 2 courts covered with decorations. Males displaying on a court are seen by a female from within the avenue. She sees and hears displays through the avenue entrance but can only see the male’s head and objects in his bill as it passes repeatedly across the entrance. Because the bower may affect the auditory as well as the visual parts of the multimodal male display we investigated bower acoustic properties by playing standard sounds from multiple court positions, recording the resulting sounds at the female’s head position within the avenue. Bower geometry results in a limited zone at the avenue entrance where his vocalisations can be heard with maximum intensity; this corresponds to his typical display position. Experiments show that court decorations increase the intensity of some frequencies and reduce the intensity of others. Bower structure simultaneously affects both visual and auditory male display components and could be important in sexual selection. It is important to consider more than 1 sensory mode, especially in the context of built signaling structures.
CSV-Filter: a deep learning-based comprehensive structural variant filtering method for both short and long reads
Authors: Xia Zeyu , Xiang Weiming , Wang Qingzhe , Li Xingze , Li Yilin , Gao Junyu , Tang Tao , Yang Canqun , Cui Yingbo 
Published: September 2024

Abstract

Motivation
Structural variants (SVs) play an important role in genetic research and precision medicine. As existing SV detection methods usually contain a substantial number of false positive calls, approaches to filter the detection results are needed.

Results
We developed a novel deep learning-based SV filtering tool, CSV-Filter, for both short and long reads. CSV-Filter uses a novel multi-level grayscale image encoding method based on CIGAR strings of the alignment results and employs image augmentation techniques to improve SV feature extraction. CSV-Filter also utilizes self-supervised learning networks for transfer as classification models, and employs mixed-precision operations to accelerate training. The experiments showed that the integration of CSV-Filter with popular SV detection tools could considerably reduce false positive SVs for short and long reads, while maintaining true positive SVs almost unchanged. Compared with DeepSVFilter, a SV filtering tool for short reads, CSV-Filter could recognize more false positive calls and support long reads as an additional feature.

Availability and implementation
https://github.com/xzyschumacher/CSV-Filter
bio2Byte Tools deployment as a Python package and Galaxy tool to predict protein biophysical properties
Authors: Gavalda-Garcia Jose , Díaz Adrián , Vranken Wim 
Published: September 2024

Abstract

Summary
We introduce a unified Python package for the prediction of protein biophysical properties, streamlining previous tools developed by the Bio2Byte research group. This suite facilitates comprehensive assessments of protein characteristics, incorporating predictors for backbone and sidechain dynamics, local secondary structure propensities, early folding, long disorder, beta-sheet aggregation and FUS-like phase separation. Our package significantly eases the integration and execution of these tools, enhancing accessibility for both computational and experimental researchers.

Availability and Implementation
The suite is available on the Python Package Index (PyPI): https://pypi.org/project/b2bTools/ and Bioconda: https://bioconda.github.io/recipes/b2btools/README.html for Linux and macOS systems, with Docker images hosted on Biocontainers: https://quay.io/repository/biocontainers/b2btools?tab=tags&tag=latest and Docker Hub: https://hub.docker.com/u/bio2byte. Online deployments are available on Galaxy Europe: https://usegalaxy.eu/root?tool_id=b2btools_single_sequence and our online server: https://bio2byte.be/b2btools/. The source code can be found at https://bitbucket.org/bio2byte/b2btools_releases

Supplementary information
Supplementary information are available at Bioinformatics online.
SCMeTA: a pipeline for single-cell metabolic analysis data processing
Authors: Pan Xingyu , Pan Siyuan , Du Murong , Yang Jinlei , Yao Huan , Zhang Xinrong , Zhang Sichun 
Published: September 2024

Abstract

Summary
To address the challenges in single-cell metabolomics (SCM) research, we have developed an open-source Python-based modular library, named SCMeTA, for SCM data processing. We designed standardized pipeline and inter-container communication format and have developed modular components to adapt to the diverse needs of SCM studies. The validation was carried out on multiple SCM experiment data. The results demonstrated significant improvements in batch effects, accuracy of results, metabolic extraction rate, cell matching rate, as well as processing speed. This library is of great significance in advancing the practical application of SCM analysis and makes a foundation for wide-scale adoption in biological studies.

Availability and implementation
SCMeTA is freely available on https://github.com/SCMeTA/SCMeTA and https://doi.org/10.5281/zenodo.13569643.
Social networks of threatened Chaco tortoises (Chelonoidis chilensis) in the wild
Authors: Madile Hjelt Marco , Moyano Luis , Echave María Eugenia , Kubisch Erika , Kazimierski Laila Daniela , Catalano Nicolás , Abramson Guillermo , Laneri Karina 
Published: September 2024

Abstract
We studied encounters between Chaco tortoises (Chelonoidis chilensis) that are in a threatened state of conservation in Patagonia, Argentina, which constitutes the southern limit of their geographical distribution. We monitored six individuals during different behavioural periods of the year (mating, nesting, and brumation), recording 24 344 encounters after tagging the animals with GPS tags. Constructing bipartite networks of burrows and tortoises, in addition to their projections, we discovered a spatial clustering of the burrows. Moreover, our research revealed that as tortoises approach the brumation period they use fewer unique burrows, engage in less burrow sharing, and increasingly favour spending time in their preferred burrow. During the mating and nesting periods some burrows are shared, whereas this was not the case during the brumation period. We studied the daily interactions through proximity-based networks, accounting for the daytime encounters during the different annual behavioural periods. We found the highest network density during the mating period, decreasing to zero, as expected, for the brumation period, when tortoises remain in their burrows during both night and day. Male–male interactions were more probable during the post-brumation and mating periods. Moreover, the number of daily encounters after sharing a burrow for a given night was found to be significant, which could be an indication of social behaviour and memory. Performing numerical simulations, we found that the proximity-based network densities were much higher than expected by chance, which could be attributable to individual selection of preferred sites or could be indicative of social behaviour among these threatened reptiles.
How rugose can you go? Spiny Agonidae armour decreases boundary layer separation
Authors: Vandenberg Megan L , Hawkins Olivia H , Chier Eric , Kahane-Rapport Shirel R , Summers Adam P , Donatelli Cassandra M 
Published: September 2024

Abstract
Armour has been present in vertebrates for millions of years and has evolved independently several times in the ray finned fishes. While armour is typically considered defensive, it is a multifunctional trait with many plausible alternative functions. We explore the hydrodynamic function of armour in nine species of poachers (Agonidae) by visualizing flow to assess drag reduction. We used microcomputed tomography scans to categorize armour morphology into morphotypes, and compared the rugosity (surface roughness) across these morphotypes. We then used digital particle image velocimetry to visualize boundary layer separation along 3D-printed whole-body models made using the scans. Poacher armour comprises eight rows that, some distance behind the second dorsal fin, merge into six. We found four morphotypes, with higher rugosity observed for the prominent spine morphotype and the lowest rugosity in the no-spine morphotype. Principal component analysis revealed that much of the variation in armour morphology is driven by plate shape, spine size, and protrusion. The boundary layer was retained longer in species with larger spines. Overall, the presence of a spine increased boundary layer retention, decreasing the drag, which is advantageous for these benthic fish.
Diagnostic imaging analysis to differentiate struma ovarii from mucinous carcinomas, encompassing T2*-based imaging, diffusion-weighted imaging, and dynamic contrast-enhanced imaging
Authors: Ishiguro Toshitaka , Saida Tsukasa , Shikama Ayumi , Akiyama Azusa , Tenjimbayashi Yuri , Mori Kensaku , Satoh Toyomi , Nakajima Takahito 
Published: September 2024

Abstract

Objectives
To clarify the differences between struma ovarii (SO) and mucinous carcinomas (MC) on CT and MRI, including T2*-based images, diffusion-weighted images (DWI), and time-intensity curve (TIC) patterns, which have not been previously reported.

Methods
We retrospectively compared the presence of low intensity on T2-weighted and T2*-based images, high intensity on T1-weighted images, hyperattenuation on non-contrast CT, TIC pattern, T2 ratio, T1 ratio, CT value, and apparent diffusion coefficient (ADC) value in 15 patients with SO and 27 patients with MC.

Results
SO exhibited a significantly higher frequency of low intensity on T2-weighted and T2*-based images, and hyperattenuation on non-contrast CT than MC (P &lt; .001, &lt;.001, and .006, respectively). The T2 ratios and CT attenuation of the locules were also significantly different (P &lt; .001, and .006, respectively). In SO, sites of low intensity on T2-weighted and T2*-based images and sites of hyperattenuation on CT images always coincided. Regarding the TIC pattern, most SO showed a high-risk pattern, with a significant difference (P = .003). The ADC values of SO were significantly lower, and only one case of SO showed high signal intensity on DWI.

Conclusions
SO were more frequently with low intensity on T2-weighted and T2*-based images, and hyperattenuation on non-contrast CT, and showed high-risk TIC patterns without diffusion restriction.

Advances in knowledge
SO shows a high-risk TIC pattern but can be specifically diagnosed in combination with the lack of diffusion restriction and loculi with marked hypointensity on T2-weighted and T2*-based images consistent with hyperattenuation on non-contrast CT.
Haemato-radiology: the role of the radiologist at MDT
Authors: Ahmed Omnya , Ordidge Katherine , Hussain Tahir , Syed Adeel , Haroon Athar , Shahabuddin Khawaja 
Published: September 2024

Abstract
Haemato-radiology represents a relatively newly emerging, vast, and complex area of diagnostic imaging. Its complexity arises from the multimodality nature of patient assessment, the multisystem presentation of haematological malignancies and their complications, and the volume of imaging required for diagnosis and follow-up of the fifth most common malignancy type in the United Kingdom. Decisive and accurate assessment of disease by radiologists is at the heart of the haemato-oncology multidisciplinary team (MDT) and therefore essential for providing optimal patient care. We hope to support radiologists leading the MDT by streamlining the vast information in this field, emphasizing the most recent, evidence-based guidelines, and internationally accepted criteria for reporting imaging of lymphoma and myeloma. We also cover the various disease and treatment complications frequently presented to the MDT.
Iatrogenic harm in functional neurological disorder
Authors: Mcloughlin Caoimhe , Lee Wei Hao , Carson Alan , Stone Jon 
Published: September 2024

Abstract
Functional neurological disorder (FND) is continuing to gain increasing recognition globally as a valid and potentially treatable disorder. Iatrogenic harm towards patients with FND is significant, however, and has been around for centuries. Despite advances in our understanding around the aetiology, pathophysiology and treatment of FND, many aspects of such harm continue to persist. Avoidance of iatrogenic harm has been highlighted by clinicians as one of the most important therapeutic considerations in FND; however, the sources and range of potential harms, or indeed ways to mitigate them, have not previously been summarized.
Using a combination of clinical and research experience and scoping review methodology, this review aims to describe the main sources of iatrogenic harm towards patients with FND, including harm from misdiagnosis, delayed diagnosis and treatment, direct harm from professional interactions, other stigma-related harms, harm related to diagnostic overshadowing and over-diagnosis of FND. We also describe some potential ways to address and prevent such harms, such as ways to reduce misdiagnosis with a focus on rule in signs, optimizing teaching and communication, ensuring parity of FND with other medical conditions and continued integration of patient and professional organizations.
Visual hallucinations in Parkinson’s disease: spotlight on central cholinergic dysfunction
Authors: Ignatavicius Anna , Matar Elie , Lewis Simon J G 
Published: September 2024

Abstract
Visual hallucinations are a common non-motor feature of Parkinson’s disease and have been associated with accelerated cognitive decline, increased mortality and early institutionalization. Despite their prevalence and negative impact on patient outcomes, the repertoire of treatments aimed at addressing this troubling symptom is limited. Over the past two decades, significant contributions have been made in uncovering the pathological and functional mechanisms of visual hallucinations, bringing us closer to the development of a comprehensive neurobiological framework.
Convergent evidence now suggests that degeneration within the central cholinergic system may play a significant role in the genesis and progression of visual hallucinations. Here, we outline how cholinergic dysfunction may serve as a potential unifying neurobiological substrate underlying the multifactorial and dynamic nature of visual hallucinations.
Drawing upon previous theoretical models, we explore the impact that alterations in cholinergic neurotransmission has on the core cognitive processes pertinent to abnormal perceptual experiences. We conclude by highlighting that a deeper understanding of cholinergic neurobiology and individual pathophysiology may help to improve established and emerging treatment strategies for the management of visual hallucinations and psychotic symptoms in Parkinson’s disease.
Monoclonal antibodies for the management of cutaneous lupus erythematosus: an update on the current treatment landscape
Authors: Jafari Alexander J , McGee Christina , Klimas Natasha , Hebert Adelaide A 
Published: September 2024

Abstract
Cutaneous lupus erythematosus (CLE) is a complex autoimmune disease often characterized by a multitude of skin findings. CLE is generally classified into three main categories: acute CLE, subacute CLE and chronic CLE. The current therapeutic guidelines for CLE include counselling patients on general measures and medication regimens. Treatment options include optimized photoprotection, avoidance of environmental triggers, corticosteroids, topical and systemic immunomodulators, and antimalarials. To date, no biologic medications (i.e. monoclonal antibodies, mAbs) are approved for CLE. The first mAb for the treatment of both systemic lupus erythematosus (SLE) and active lupus nephritis was belimumab, and was approved for these diseases in 2011 and 2020, respectively. Belimumab is a specific inhibitor of B-lymphocyte stimulator. Anifrolumab, a type I interferon receptor antagonist, was approved in 2021 for SLE. Other mAbs with different targets, including a novel biologic that inhibits blood dendritic cell antigen 2, are currently under investigation for CLE. This review will describe the general treatment landscape for CLE. Selected studies related to these various mAbs will be discussed, as well as their safety profiles and efficacies demonstrated in clinical trials. Biologic medications can potentially augment the number of treatment options for patients living with CLE.