bluuebunny/crossref_metadata_2025_split huggingface dataset:
Neuron-binding antibody responses are associated with Black ethnicity in multiple sclerosis during natalizumab treatment
Authors: Telesford Kiel M , Smith Chad , Mettlen Marcel , Davis Melissa B , Cowell Lindsay , Kittles Rick , Vartanian Timothy , Monson Nancy 
Published: August 2023

Abstract
Multiple sclerosis is an inflammatory degenerative condition of the central nervous system that may result in debilitating disability. Several studies over the past twenty years suggest that multiple sclerosis manifests with a rapid, more disabling disease course among individuals identifying with Black or Latin American ethnicity relative to those of White ethnicity. However, very little is known about immunologic underpinnings that may contribute to this ethnicity-associated discordant clinical severity. Given the importance of B cells to multiple sclerosis pathophysiology, and prior work showing increased antibody levels in the cerebrospinal fluid of Black-identifying, compared to White-identifying multiple sclerosis patients, we conducted a cohort study to determine B cell subset dynamics according to both self-reported ethnicity and genetic ancestry over time. Further, we determined relationships between ethnicity, ancestry, and neuron-binding IgG levels. We found significant associations between Black ethnicity and elevated frequencies of class-switched B cell subsets, including memory B cells; double negative two B cells; and antibody-secreting cells. The frequencies of these subsets positively correlated with West African genetic ancestry. We also observed significant associations between Black ethnicity and increased IgG binding to neurons. Our data suggests significantly heightened T cell-dependent B cell responses exhibiting increased titres of neuron-binding antibodies among individuals with multiple sclerosis identifying with the Black African diaspora. Factors driving this immunobiology may promote the greater demyelination, central nervous system atrophy and disability more often experienced by Black-, and Latin American-identifying individuals with multiple sclerosis.
Functional and structural brain reorganization in patients with ischemic stroke: a multimodality MRI fusion study
Authors: Cui Fangyuan , Zhao Lei , Lu Mengxin , Liu Ruoyi , Lv Qiuyi , Lin Dan , Li Kuangshi , Zhang Yong , Wang Yahui , Wang Yue , Wang Liping , Tan Zhongjian , Tu Yiheng , Zou Yihuai 
Published: August 2023

Abstract
Understanding how structural and functional reorganization occurs is crucial for stroke diagnosis and prognosis. Previous magnetic resonance imaging (MRI) studies focused on the analyses of a single modality and demonstrated abnormalities in both lesion regions and their associated distal regions. However, the relationships of multimodality alterations and their associations with poststroke motor deficits are still unclear. In this study, 71 hemiplegia patients and 41 matched healthy controls (HCs) were recruited and underwent MRI examination at baseline and at 2-week follow-up sessions. A multimodal fusion approach (multimodal canonical correlation analysis + joint independent component analysis), with amplitude of low-frequency fluctuation (ALFF) and gray matter volume (GMV) as features, was used to extract the co-altered patterns of brain structure and function. Then compared the changes in patients’ brain structure and function between baseline and follow-up sessions. Compared with HCs, the brain structure and function of stroke patients decreased synchronously in the local lesions and their associated distal regions. Damage to structure and function in the local lesion regions was associated with motor function. After 2 weeks, ALFF in the local lesion regions was increased, while GMV did not improve. Taken together, the brain structure and function in the local lesions and their associated distal regions were damaged synchronously after ischemic stroke, while during motor recovery, the 2 modalities were changed separately.
The MetaGens algorithm for metagenomic database lossy compression and subject alignment
Authors: Cervi Gustavo Henrique , Flores Cecilia Dias , Thompson Claudia Elizabeth 
Published: August 2023

Abstract
The advancement of genetic sequencing techniques led to the production of a large volume of data. The extraction of genetic material from a sample is one of the early steps of the metagenomic study. With the evolution of the processes, the analysis of the sequenced data allowed the discovery of etiological agents and, by corollary, the diagnosis of infections. One of the biggest challenges of the technique is the huge volume of data generated with each new technology developed. To introduce an algorithm that may reduce the data volume, allowing faster DNA matching with the reference databases. Using techniques like lossy compression and substitution matrix, it is possible to match nucleotide sequences without losing the subject. This lossy compression explores the nature of DNA mutations, insertions and deletions and the possibility that different sequences are the same subject. The algorithm can reduce the overall size of the database to 15% of the original size. Depending on parameters, it may reduce up to 5% of the original size. Although is the same as the other platforms, the match algorithm is more sensible because it ignores the transitions and transversions, resulting in a faster way to obtain the diagnostic results. The first experiment results in an increase in speed 10 times faster than Blast while maintaining high sensitivity. This performance gain can be extended by combining other techniques already used in other studies, such as hash tables.
Database URL https://github.com/ghc4/metagens
Post-diagnostic statin use and its association with cancer recurrence and mortality in breast cancer patients: a systematic review and meta-analysis
Authors: Jaiswal Vikash , Agrawal Vibhor , Ang Song Peng , Saleeb Marina , Ishak Angela , Hameed Maha , Rajak Kripa , Kalra Kriti , Jaiswal Akash 
Published: August 2023

Abstract

Background
Statins are widely acknowledged for their application in patients with hypercholesterolemia to reduce cardiovascular morbidity and mortality. More recently, their potential to exert pleiotropic effects, particularly in impeding the proliferation of neoplastic cells, has attracted considerable attention. Prior studies have demonstrated that statins may mitigate cancer progression and micrometastasis. However, the benefits of statins in breast cancer have been inconclusive.

Objective
The aim of this meta-analysis was to evaluate the impact of statin use following a breast cancer diagnosis on breast cancer recurrence and mortality.

Methods
We performed a systematic literature search using PubMed, Embase, and Scopus for relevant articles from inception until 30th May 2023. Hazard ratios (HR) were pooled using a random-effect model. The primary outcome of interest was the risk of breast cancer recurrence. The secondary outcomes included breast cancer-specific mortality and all-cause mortality.

Results
A total of 15 studies with 156 448 patients were included in the final analysis. The mean age of patients between statin users and non-users was 64.59 and 59.15 years, respectively. Statin use was associated with a reduction in the recurrence of breast cancer [HR 0.76, 95% confidence interval (CI): 0.67–0.87] compared with non-statin users. This trend was similar among lipophilic statin users (HR 0.73, 95% CI: 0.63–0.85) but not for hydrophilic statin users (HR 1.17, 95% CI: 0.82–1.68). Furthermore, statin users exhibited a lower risk of breast cancer mortality (HR 0.80, 95% CI: 0.66–0.96) but all-cause mortality (HR 0.82, 95% CI: 0.66–1.02) was comparable among both groups of patients. Conversely, lipophilic statins demonstrated a reduction in both all-cause mortality (HR 0.84, 95% CI: 0.75–0.93) and breast cancer mortality (HR 0.85, 95% CI: 0.74–0.99) compared to non-statin users.

Conclusion
Among patients with breast cancer, statin use post-diagnosis decreases the risk of breast cancer recurrence and breast cancer mortality. Furthermore, lipophilic statins exhibit an additional advantage of reduction in all-cause mortality.
PROSPERO registration: CRD42022362011.
Near chromosome–level genome assembly of the microsporidium Hamiltosporidium tvaerminnensis
Authors: Angst Pascal , Pombert Jean-François , Ebert Dieter , Fields Peter D 
Published: August 2023

Abstract
Microsporidia are intracellular parasitic fungi whose genomes rank among the smallest of all known eukaryotes. A number of outstanding questions remain concerning the evolution of their large-scale variation in genome architecture, responsible for genome size variation of more than an order of magnitude. This genome report presents the first near-chromosomal assembly of a large-genome microsporidium, Hamiltosporidium tvaerminnensis. Combined Oxford Nanopore, Pacific Biosciences (PacBio), and Illumina sequencing led to a genome assembly of 17 contigs, 11 of which represent complete chromosomes. Our assembly is 21.64 Mb in length, has an N50 of 1.44 Mb, and consists of 39.56% interspersed repeats. We introduce a novel approach in microsporidia, PacBio Iso-Seq, as part of a larger annotation pipeline for obtaining high-quality annotations of 3,573 protein-coding genes. Based on direct evidence from the full-length Iso-Seq transcripts, we present evidence for alternative polyadenylation and variation in splicing efficiency, which are potential regulation mechanisms for gene expression in microsporidia. The generated high-quality genome assembly is a necessary resource for comparative genomics that will help elucidate the evolution of genome architecture in response to intracellular parasitism.
Base Composition, Codon Usage, and Patterns of Gene Sequence Evolution in Butterflies
Authors: Näsvall Karin , Boman Jesper , Talla Venkat , Backström Niclas 
Published: August 2023

AbstractCoding sequence evolution is influenced by both natural selection and neutral evolutionary forces. In many species, the effects of mutation bias, codon usage, and GC-biased gene conversion (gBGC) on gene sequence evolution have not been detailed. Quantification of how these forces shape substitution patterns is therefore necessary to understand the strength and direction of natural selection. Here, we used comparative genomics to investigate the association between base composition and codon usage bias on gene sequence evolution in butterflies and moths (Lepidoptera), including an in-depth analysis of underlying patterns and processes in one species, Leptidea sinapis. The data revealed significant G/C to A/T substitution bias at third codon position with some variation in the strength among different butterfly lineages. However, the substitution bias was lower than expected from previously estimated mutation rate ratios, partly due to the influence of gBGC. We found that A/T-ending codons were overrepresented in most species, but there was a positive association between the magnitude of codon usage bias and GC-content in third codon positions. In addition, the tRNA-gene population in L. sinapis showed higher GC-content at third codon positions compared to coding sequences in general and less overrepresentation of A/T-ending codons. There was an inverse relationship between synonymous substitutions and codon usage bias indicating selection on synonymous sites. We conclude that the evolutionary rate in Lepidoptera is affected by a complex interaction between underlying G/C -&gt; A/T mutation bias and partly counteracting fixation biases, predominantly conferred by overall purifying selection, gBGC, and selection on codon usage.
Relationships in Shark Skin: Mechanical and Morphological Properties Vary between Sexes and among Species
Authors: Hagood Madeleine E , Alexander Joseph R S , Porter Marianne E 
Published: August 2023

Synopsis
Shark skin is a composite of mineralized dermal denticles embedded in an internal collagen fiber network and is sexually dimorphic. Female shark skin is thicker, has greater denticle density and denticle overlap compared to male shark skin, and denticle morphology differs between sexes. The skin behaves with mechanical anisotropy, extending farther when tested along the longitudinal (anteroposterior) axis but increasing in stiffness along the hoop (dorsoventral or circumferential) axis. As a result, shark skin has been hypothesized to function as an exotendon. This study aims to quantify sex differences in the mechanical properties and morphology of shark skin. We tested skin from two immature male and two immature female sharks from three species (bonnethead shark, Sphyrna tiburo; bull shark, Carcharhinus leucas; silky shark, Carcharhinus falciformis) along two orientations (longitudinal and hoop) in uniaxial tension with an Instron E1000 at a 2 mm s−1 strain rate. We found that male shark skin was significantly tougher than female skin, although females had significantly greater skin thickness compared to males. We found skin in the hoop direction was significantly stiffer than the longitudinal direction across sexes and species, while skin in the longitudinal direction was significantly more extensible than in the hoop direction. We found that shark skin mechanical behavior was impacted by sex, species, and direction, and related to morphological features of the skin.
Uniportal video-assisted thoracoscopic surgery for lobectomy: the learning curve
Authors: Laven Iris E W G , Daemen Jean H T , Franssen Aimée J P M , Gronenschild Michiel H M , Hulsewé Karel W E , Vissers Yvonne L J , de Loos Erik R 
Published: August 2023

AbstractOBJECTIVESPrior reported learning curves for uniportal video-assisted thoracoscopic lobectomy were predominantly based on surgery duration, while reports on complications are limited. Therefore, our study assessed the learning curve based on both technique-related complications and surgery duration.METHODSWe retrospectively collected data from patients who had undergone uniportal video-assisted thoracoscopic lobectomy between 2015 and 2020. Exclusion criteria were concomitant procedures other than ipsilateral wedge resection, discontinued procedures, or lost to follow-up (less than 30 days). Learning curves were constructed per surgeon who performed over 20 procedures using non-risk adjusted cumulative sum (CUSUM) analysis for technique-related complications and cumulative sum analysis for surgery duration. Based on the literature, an acceptable complication rate was set at 30%, an unacceptable complication rate at 45%, and a mean surgery duration of 145 min.RESULTSLearning curves were constructed for three thoracic surgeons and one fellow who performed 324 uniportal video-assisted thoracoscopic lobectomies in total. Each surgeon was experienced in multiportal video-assisted thoracoscopic lobectomy, the fellow was familiar with basic multiportal video-assisted thoracoscopic procedures. Cumulative sum charts of three surgeons reached a statistically significant technique-related complication rate below 30% between 50 and 96 procedures. Regarding surgery duration, typical learning curves were observed for three surgeons with a transition point between 14 and 26 procedures.CONCLUSIONSLearning of uniportal video-assisted thoracoscopic surgery for lobectomy is safe without unacceptable complication rates and has a declining surgery duration over time for thoracic surgeons with experience in multiportal video-assisted thoracoscopic lobectomies. However, it remains unknown when the different stages of mastery are completed.
How Useful Are Bilingualized Dictionaries in Discriminating Between Near-Synonyms?
Authors: Kamiński Mariusz Piotr 
Published: August 2023

Abstract
This study investigates the usefulness of a bilingualized dictionary (BLD) against a monolingual one (MD) in a fill-in-the-blank test requiring the ability to discriminate between a set of near-synonyms. 156 participants, all English major undergraduates studying in Poland, were divided into two groups based on the type of dictionary they used. The study compared the two groups with respect to their test scores, learners’ prior receptive vocabulary knowledge, and task completion time. The experiment revealed the limitations of the BLD in this type of task, demonstrating that the dictionary was no more useful than the MD. While the scores were unaffected by dictionary type, they were significantly influenced by the learners’ receptive vocabulary size: the larger the size, the better the performance. The task completion time was not significantly affected by dictionary type, vocabulary size, or scores. The paper discusses learners’ errors and possible reasons for the limitations of the BLD.
Measuring moral development in the pharmacy profession from undergraduate to established practitioner: a decadal longitudinal study
Authors: Gallagher Cathal T , Kareem-Alliu Waseeat O D 
Published: August 2023

Abstract
The aim of this study is to measure and evaluate the moral reasoning of undergraduate pharmacy students as they progress through a British university, and onward through the early years of their professional practice. This study utilizes version 2 of Rest’s Defining Issues Test in a longitudinal design, evaluating a single cohort of future pharmacists, which started a 4-year Master of Pharmacy degree program in 2008–09, completed their preregistration training, and progressed through their early careers. The final dataset was collected in 2019. Both descriptive and inferential statistical analysis was subsequently carried out. The cohort experienced significant moral growth during the 4 years of their undergraduate degree, where they were exposed to an ethical education designed to engage students at the “plus one” level of moral reasoning. There is also evidence for work-based augmentation of moral development between graduation from university and qualification as pharmacists. The subjects underwent a marked increase in moral development as they progressed through their undergraduate studies, followed by another sizeable, though not statistically significant developmental progression during the preregistration year. The retrograde step in moral development observed between newly qualified level and established practitioner level requires further investigation: structured interviews with participants, which focus on changes to their experiences in practice and how these affected their moral agency are already underway.
Grazing activity of Clibanarius corallinus (H. Milne Edwards, 1848) (Decapoda: Anomura: Diogenidae) on epilithic algae in Australian coral reefs
Authors: Bravo Henrique , Tibbetts Ian R 
Published: August 2023

Abstract
Following an incidental observation of captive Clibanarius corallinus (H. Milne Edwards, 1848) supposedly removing algae from each other’s shells, we conducted a feeding experiment over 72 hours to understand its potential role as a mesograzer in coral reef ecosystems. Epiphyte-covered, coral rubble fragments of Acropora spp. were exposed to hermit crab (N = 41) activity for 72 h in a flow-through seawater aquarium system at Heron Island, southern Great Barrier Reef, Australia to understand whether hermit crabs could remove epilithic algae and if so, to what extent. Coral fragments exposed to the hermit crabs had 9.1% less chlorophyll at the end of the experiment. The detritus generated in the experimental set-up had 2.4 times more chlorophyll and 33.4% less organic biomass than the detritus generated in the control environment. The crabs did on average lose 0.11 g of their initial weight, which could have been a consequence of the experimental set-up. These results suggest that C. corallinus has the potential to contribute to the control of epilithic algae in coral reefs, with such effect having hitherto been overlooked as a result of the cryptic behaviour of this hermit crab species.
Do it yourself: fabricating and evaluating a mosquito (Diptera: Culicidae) blood-feeding device to replace a commercial option
Authors: Dewsnup M Andrew , Faraji Ary , White Gregory S , Bibbs Christopher S 
Published: August 2023

Abstract
Tools for rearing hematophagous insects, such as mosquitoes (Diptera: Culicidae), in an insectary are essential for research and operational evaluations in vector biology and control. There is an abundance of low-cost options for practitioners without conventional infrastructure. However, few midrange options exist that provide a balance of efficiency and low material waste. We present here a reproducible design for an electrically powered blood-feeding device that offers long-term reusability, low material waste, and customizability for different species or experiments. The limitation is the requirement for electricity, but the gain is a simple, low-skill device that can be modified as needed. To validate the design, assessments of feeding angle and blood-feeding success were compared between the Salt Lake City Mosquito Abatement District artificial membrane feeder (SLAM) and a commercial system (Hemotek). Engorgement in Aedes aegypti (80–90%), Culex pipiens (50–80%), and Culex tarsalis (30–75%) was similar between the 2 units, resulting in nearly identical fecundity outcomes between devices. Additionally, 45° angles were more successful, generally, than presenting the feeders flat or vertical to the mosquitoes (df3,48, P = 1.014 × 10−15). This angle is simple to present with the SLAM device. Materials for in-house reproduction of the SLAM system are now widely available in regions with access to e-commerce and shipped goods. This results in a device schematic that should fit well into a relatively modular, do-it-yourself paradigm where the practitioner needs only to assemble some materials without complex engineering. This article provides schematics, cost comparison, and validation of the in-house-made SLAM system.
Diagnostic value of pleural effusion Krebs von den Lungen-6 in malignant pleural effusion of patients with non–small cell lung cancer
Authors: Wang Junjun , Ling Liqun , Chen Shuhui , Chou Lunan , Wang Yumin , Hu Lijuan 
Published: August 2023

Abstract

Objective
The aim of this study was to investigate the diagnostic potential of Krebs von den Lungen-6 (KL-6) in differentiating between malignant pleural effusion (MPE) induced by non–small cell lung cancer (NSCLC) and benign pleural effusion (BPE).

Methods
We collected 143 pleural effusion samples from August 2018 to March 2021. The samples included 91 cases of MPE and 52 cases of BPE. The KL-6 and other indicators in pleural effusion were detected.

Results
The level of pleural effusion KL-6 (pKL-6) in the MPE group was significantly higher than in the BPE group (Mann-Whitney U = 442.500, P = .000). The area under the curve (AUC) of pKL-6/pleural effusion adenosine deaminase (pADA) + pleural effusion carcinoembryonic antigen (pCEA)/pADA (AUC = 0.992) in diagnosing MPE was higher than that of pKL-6 alone (AUC = 0.903), with a sensitivity of 93.26% and specificity of 100%.

Conclusion
The measurement of pKL-6 can differentiate NSCLC-induced MPE from BPE. Furthermore, the combined detection of pKL-6/pADA and pCEA/pADA can significantly improve the diagnostic efficiency for distinguishing NSCLC-induced MPE.