bluuebunny/crossref_metadata_2025_split huggingface dataset:
Preoperative opioid use and postoperative return to work following spinal surgery in workers’ compensation settings: a systematic review and meta-analysis
Authors: Tefera Yonas G. , Gray Shannon , Nielsen Suzanne , Collie Alex 
Published: January 2024

Background:
Opioid use prior to spinal surgery is common among patients with workers’ compensation (WC) claims. Extended opioid use for pain management in this population is associated with several adverse outcomes including delayed return to work (RTW).

Objective:
This systematic review and meta-analysis aim to assess the evidence on the association of preoperative opioid use with stable RTW and RTW within 1-year after spinal surgery.

Material and methods:
The authors searched MEDLINE, Embase, PsycINFO, Emcare, CINAHL Plus, Scopus, and Web of Science from inception to 14 January 2023. The authors included studies that compared any preoperative opioid use with no opioid use, and those that enabled a comparison of different durations of preoperative opioid use. The primary outcome was stable RTW after spinal surgery. Secondary outcomes were RTW within 1-year after surgery and cost of WC claims. A random effect model was assumed to pool the effect estimate. The GRADE approach was applied to evaluate the certainty of evidence.

Results:
From 2589 records, 10 studies were included, and of these, nine were considered for quantitative synthesis. All studies were observational with eight retrospective cohort and two case–control studies. Five studies each investigated cervical and lumbar disorders. With moderate certainty evidence, the odds of postoperative stable RTW reduced by half (OR: 0.51, 95% CI: 0.43–0.59; 5549 participants) in patients using opioids preoperatively. Similarly, moderate certainty evidence from 2348 participants demonstrated that the odds of RTW within 1-year after surgery were reduced by more than half in patients with preoperative opioid prescriptions (OR: 0.46, 95% CI: 0.36–0.59).

Conclusions:
This systematic review and meta-analysis shows that preoperative opioid use is associated with a reduction in odds of postoperative RTW by half in patients with WC-funded spinal surgery.
Crocin inhibit the metastasis of MDA-MB-231 cell line by suppressing epithelial to mesenchymal transition through WNT/β-catenin signalling pathway
Authors: Ghorbanzadeh Vajihe , Hassan ALJAF Karwan Anwar , Wasman Hunar Mustafa , Dariushnejad Hassan 
Published: January 2024

Background:
Triple-negative breast cancer has the poorest prognosis and survival rates compared to other breast cancer subtypes due to its invasive behaviours. This type of cancer does not respond to biological therapies and exhibits resistance to available treatment options. Therefore, it is imperative to discover new therapeutics to address this challenge.

Methods:
In this study, a TNBC cell line was utilized to investigate the anti-metastatic effect of crocin on the Wnt/β-catenin pathway. Cell proliferation was assessed using the MTT assay, and the effects of crocin on migration were monitored through transwell and wound healing experiments. The expression of specific epithelial-mesenchymal transition marker genes was evaluated using real-time polymerase chain reaction, and β-catenin expression was also examined through real-time polymerase chain reaction.

Results:
The findings revealed that crocin significantly inhibits cell proliferation and migration of tumour cells in a dose-dependent manner. Moreover, crocin decreased the expression of Vimentin, Snail, Zeb-1, and β-catenin. Additionally, crocin increased the expression of E-cadherin in the MDA-MB-231 cell line.

Conclusions:
The results demonstrated an association between crocin and the Wnt/β-catenin signalling pathway. In conclusion, this study establishes that crocin holds promise as a potential therapeutic option for triple-negative breast cancer.
Challenges in Male Partner Referral among Trichomonas vaginalis-Infected Women
Authors: Pearlman Rebecca L. , Van Gerwen Olivia T. , Aaron Kristal J. , Kissinger Patricia J. , Muzny Christina A. 
Published: January 2024

Abstract
This study assessed feasibility of male partner referral by T. vaginalis-infected women. Of 93 women approached, only 20 enrolled. Only 1 male partner contacted the study but was unable to be reached for scheduling. Other public health interventions are necessary to engage women and their male partners of T. vaginalis-infected women in care.
Returning to work after dysvascular lower limb amputation—A novel multivariate approach to examine relative contributions of biopsychosocial predictors
Authors: Lee Szu-Ping , Chien Lung-Chang , Shih Hui-Ting , Ho Sabrina , Clemens Sheila 
Published: January 2024

Background:
Returning to work is a key outcome of rehabilitation and social re-integration after lower limb amputation. It is important to understand what biopsychosocial factors contribute to returning to work after dysvascular amputation.

Objective:
Examining relative contributions of functional and contextual predictors of returning to work in participants with lower limb amputation due to diabetes and other dysvascular diseases.

Study Design:
Cross-sectional.

Methods:
Return-to-work outcome, biopsychosocial characteristics including physical functioning, self-efficacy & perceived ability, and socioeconomical support data were collected from a purposive sample (n = 57) in a multi-state collaborative research network. Grouped Weighted Quantile Sum model analysis was conducted to evaluate relative contributions of biopsychosocial predictors.

Results:
Less than 30% of the participants returned to work after their amputation. Physical functioning (odds ratio = 10.19; 95% CI 2.46−72.74) was the most important predictor group. Working before amputation, prosthetic mobility, and access to rehabilitation care were also identified as key factors associated with returning to work.

Conclusions:
Fewer than 1 in 3 participants with dysvascular amputation returned to work, despite an average age of only 54 years at the time of amputation. Physical functioning was shown to be the most important predictor, while socioeconomic factors such as a lack of access to care also contribute to not returning to work after dysvascular amputation.
Four Atypical Cases of Subclinical Rhythmic Electroencephalogram Discharge of Adults: Case Series and Review
Authors: Gonzalez Aura , Pana Raluca , Dubeau Francois , Kobayashi Eliane 
Published: January 2024

Summary:
Subclinical rhythmic EEG discharge of adults is an uncommon variant that represents a diagnostic challenge in the clinical practice because it can be mistaken for an electrographic seizure. We present a case series of four patients who underwent EEG because of suspicious events or an unclear medical history of epilepsy. In all cases, the EEG revealed atypical features including focal and asymmetric distribution, presentation during NREM and REM sleep, rhythmic activity in the delta range with a notched appearance and blocked by eyes opening.
Actinoplanes sandaracinus sp. nov., a novel ligninase- producing and cellulose-degrading actinobacterium isolated from soil
Authors: Wang Zishan , Xu Yan , Zhou Changjian , Sun Xiujun , Huang Zhenzhen , He Chuan , Yao Siqi , Zhao Junwei , Wang Xiangjing , Song Jia , Xiang Wensheng 
Published: January 2024

A novel ligninase-producing and cellulose-degrading actinobacterium, designated strain NEAU-A12T, was isolated from a soil sample collected from Aohan banner, Chifeng City, Inner Mongolia Autonomous Region, PR China. A polyphasic taxonomic study was used to establish the status of strain NEAU-A12T. 16S rRNA gene sequence analysis revealed that strain NEAU-A12T belonged to the genus

Actinoplanes

and showed the highest similarity (98.3 %) to

Actinoplanes palleronii

DSM 43940T, while showing less than 98.3 % similarity to other members of the genus

Actinoplanes

. The phospholipid profile contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and glycosylphosphatidylinositol. The diagnostic sugars in cell hydrolysates were determined to be arabinose, glucose and xylose. The cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-9(H2). The major fatty acids were C15 : 0, C16 : 0, C16 : 1
ω7c and C17 : 0. Meanwhile, genomic analysis revealed a genome size of 10 192 524 bp and a DNA G+C content of 70.6 mol%, and indicated that strain NEAU-A12T had the potential to degrade lignin and cellulose, as well as produce bioactive compounds. In addition, the average nucleotide identity values between strain NEAU-A12T and its reference strains

A. palleronii

DSM 43940T,

Actinoplanes regularis

DSM 43151T,

Actinoplanes philippinensis

DSM 43019T,

Actinoplanes xinjiangensis

DSM 45184T and

Actinoplanes italicus

DSM 43146T were 80.3, 80.3, 84.1, 84.3 and 84.0 %, respectively. The levels of digital DNA–DNA hybridization between them were found to be 23.6 % (21.3–26.1 %), 23.8 % (21.5–26.3 %), 28.3 % (25.9–30.8 %), 28.6 % (26.0–30.9 %) and 28.4 % (26.2–31.1 %), respectively. Based on phenotypic, chemotaxonomic and genotypic data, strain NEAU-A12T is considered to represent a novel species of the genus

Actinoplanes

, for which the name Actinoplanes sandaracinus sp. nov. is proposed, with NEAU-A12T (=CCTCC AA 2020039T=DSM 112043T) as the type strain.
Advancing Aquaculture Monitoring through Self-Powered Remote Systems: Piezoelectric Energy Harvesting Approach
Authors: Mehdipour Iman , Fachechi Luca , Rizzi Francesco , Vittorio Massimo De 
Published: January 2024

AbstractThis paper introduces the conceptualization and implementation of a sea wave piezoelectric energy harvesting system designed for a self-powered IoT buoy sensor, tailored for the remote monitoring of water quality variables in fish farming. The developed autonomous system undertakes periodic measurements of temperature, pH, and dissolved oxygen, with the gathered data transmitted locally through a low-power wide-area network protocol to a gateway. The gateway is intricately connected to a cloud service, facilitating efficient data storage and visualization. At the heart of this innovation lies a novel buoy design capable of harnessing energy from sea surface waves. The proposed piezoelectric energy harvesting system comprises two pivotal components: an energy transfer mechanism responsible for capturing incident sea surface wave energy and a piezoelectric fin serving as the transducer. Extensive data analysis of sea wave patterns spanning nearly 25 years informs the design process. Subsequently, a prototype is meticulously crafted, fabricated, and rigorously tested in a controlled environment, showcasing promising results. The outcome is a self-powered remote monitoring tool poised to revolutionize fish farming scenarios by enabling seamless, automatic data acquisition, and storage.
Unravelling the conundrum of nucleolar NR2F1 localization: A comparative analysis of NR2F1 antibody-based approachesin vitroandin vivo
Authors: Bertacchi Michele , Theiß Susanne , Ahmed Ayat , Eibl Michael , Loubat Agnès , Maharaux Gwendoline , Phromkrasae Wanchana , Chakrabandhu Krittalak , Camgöz Aylin , Schaaf Christian , Studer Michèle , Laugsch Magdalena 
Published: January 2024

ABSTRACTAs a transcription factor,NR2F1regulates spatiotemporal gene expression during development and in adulthood. AberrantNR2F1causes a rare neurodevelopmental disorder known as Bosch-Boonstra- Schaaf Optic Atrophy Syndrome. In addition, alteredNR2F1expression is frequently observed in various cancers and is considered a prognostic marker or potential therapeutic target. In this context, NR2F1 has been shown to localize not only in the nucleus but also in the nucleoli, suggesting a novel non-canonical role in this compartment. Hence, we studied this phenomenon employing variousin vitroandin vivomodels in different antibody-dependent approaches. Examination of seven commonly used anti-NR2F1 antibodies in different human cancer and stem cells as well as in wild type and null mice revealed that the nucleolar localization of NR2F1 is artificial and does not play a functional role. Our subsequent comparative analysis demonstrated for the first time which anti-NR2F1 antibody best fits which approach. As our data allow for correct data interpretation, making them publicly available may have far-reaching implications for NR2F1 research in health and disease. More generally, the study also underlines the need to optimize any antibody-mediated technique.
High-resolution low-cost LCD 3D printing of microfluidics
Authors: Shafique Houda , Karamzadeh Vahid , Kim Geunyong , Morocz Yonatan , Sohrabi-Kashani Ahmad , Shen Molly L. , Juncker David 
Published: January 2024

AbstractThe fabrication of microfluidic devices has progressed from cleanroom manufacturing to replica molding in polymers, and more recently to direct manufacturing by subtractive (e.g., laser machining) and additive (e.g., 3D printing) techniques, notably digital light processing (DLP) photopolymerization. However, many methods require technical expertise and while DLP 3D printers remain expensive at a cost ∼15-30K USD with ∼8M pixels that are 25-40 µm in size. Here, we introduce (i) the use of low-cost (∼150-600 USD) liquid crystal display (LCD) photopolymerization 3D printing with ∼8M-58M pixels that are 18-35 µm in size for direct microfluidic device fabrication and (ii) a poly(ethylene glycol) diacrylate-based ink developed for LCD 3D printing (PLInk). We optimized PLInk for high resolution, fast 3D printing and biocompatibility while considering the illumination inhomogeneity and low power density of LCD 3D printers. We made lateral features as small as 75 µm, 22-µm-thick embedded membranes, and circular channels with a 110 µm radius. We 3D printed microfluidic devices previously manufactured by other methods, including an embedded 3D micromixer, a membrane microvalve, and an autonomous capillaric circuit (CC) deployed for interferon-γ detection with excellent performance (limit of detection: 12 pg mL-1, CV: 6.8%), and we demonstrated compatibility with cell culture. Finally, large area manufacturing was illustrated by printing 42 CCs with embedded microchannels in <45 min. LCD 3D printing together with tailored inks pave the way for democratizing access to high-resolution manufacturing of ready-to-use microfluidic devices by anyone, anywhere.
Evolutionary impact ofin vitroadaptation on virulence in the pathogenZymoseptoria tritici
Authors: Jallet A. J. , Robert-Siegwald G. , Genissel A. 
Published: January 2024

AbstractAll species are living in variable environments. integrating the impact of changing environments into plant-pathogen studies becomes essential. This integration is key to expanding our understanding of the evolutionary dynamics governing plant-pathogen interactions.After subjecting Zymoseptoria tritici to 500 generations of experimental evolution in vitro under various temperature regimes, we assessed the evolved lineages’ virulence levels across six wheat cultivars. Additionally, we performed whole-genome sequencing on ten evolved lineages to identify accumulated mutationsOur study revealed a reduction in virulence among several evolved lineages, with variability based on the host genotype. We observed trans-lineage segregating mutations in the genome, encompassing both synonymous and non-synonymous mutations within the secretome. Intriguingly, despite 500 generations of experimental evolution, no loss of dispensable chromosomes was detectedThese findings suggest that the abiotic environment can significantly influence the dynamic evolution of the plant pathogenZ. tritici.
A Comprehensive Allele Specific Expression Resource for the Equine Transcriptome
Authors: Heath Harrison D. , Peng Sichong , Szmatola Tomasz , Bellone Rebecca R. , Kalbfleisch Theodore , Petersen Jessica L. , Finno Carrie J. 
Published: January 2024

AbstractBackgroundAllele-specific expression (ASE) analysis provides a nuanced view of cis-regulatory mechanisms affecting gene expression.ResultsIn this work, we introduce and highlight the significance of an equine ASE analysis, containing integrated long- and short-read RNA sequencing data, along with insight from histone modification data, from four healthy Thoroughbreds (2 mares and 2 stallions) across 9 tissues.ConclusionsThis valuable publicly accessible resource is poised to facilitate investigations into regulatory variation in equine tissues and foster a deeper understanding of the impact of allelic imbalance in equine health and disease at the molecular level.
Insights into Human Epileptogenesis with Proteomic Profiling
Authors: Zhou Najing , Di Yang , Zhang Di , Gang Wei , Zhang Huiran , Yuan Yi , Zhang Aitao , Dai Jie , Du Xiaona , Li Wenling , Zhang Hailin 
Published: January 2024

AbstractEpilepsy affects millions globally, and drug-resistant epilepsy remains a challenge. Molecular mechanisms underlying epilepsy remain elusive. Protein profiling through proteomics offers insight into biomarkers and therapeutic targets. Human brain tissue from epilepsy surgeries was analyzed using data-independent acquisition (DIA) proteomics. Samples were categorized into Core (epileptogenic focus), Border (marginal excision tissue), and Nonepileptic control groups. Differential expression proteins (DEPs) were identified and shared proteins were analyzed. 163 DEPs were identified which may has potential roles in the initiation of epileptic electrical firing, 412 DEPs which indicating the difference between epilepsy and Nonepilepsy patients and 10 DEPs consistently altered in Core which indicating potential roles in epileptogenesis. Notably, P35754/GLRX, O75335/PPFIA4, and Q96KP4/CNDP2 were consistently expressed differently in all group pairs. From validation experiments, the expression of Kv3.2 significant reduced in the Core group compare to border group by immunohistochemistry and knockdown of Kv3.2 increased seizure susceptibility and altered neuronal excitability through our cellular and animal experimentation.
MntJULiP and Jutils: Differential splicing analysis of RNA-seq data with covariates
Authors: Lui Wui Wang , Yang Guangyu , Florea Liliana 
Published: January 2024

AbstractDifferences in alternative splicing patterns can reveal important markers of phenotypic differentiation, including biomarkers of disease. Emerging large and complex RNA-seq datasets from disease and population studies include multiple confounders such as sex, age, ethnicity and clinical attributes, which demand highly specialized data analysis tools. However, few methods are equipped to handle the new challenges. We describe an implementation of our programs MntJULiP and Jutils for differential splicing detection and visualization from RNA-seq data that takes into account covariates. MntJULiP detects intron-level differences in alternative splicing from RNA-seq data using a Bayesian mixture model. Jutils visualizes alternative splicing variation with heatmaps, PCA and sashimi plots, and Venn diagrams. Our tools are scalable and can process thousands of samples within hours. We applied our methods to the collection of GTEx brain RNA-seq samples to deconvolute the effects of sex and age at death on the splicing patterns. In particular, clustering of covariate adjusted data identifies a subgroup of individuals undergoing a distinct splicing program during aging. MntJULiP and Jutils are implemented in Python and are available fromhttps://github.com/splicebox/.
Downstream-of-gene (DoG) transcripts contribute to an imbalance in the cancer cell transcriptome
Authors: Avila-Lopez Pedro A. , Xu Jessica , Muhammad Nefertiti , Yang Guang-Yu , Lauberth Shannon M. 
Published: January 2024

AbstractDownstream-of-gene (DoG) transcripts are an emerging class of noncoding RNAs. However, it remains largely unknown how DoG RNA production is regulated and whether alterations in DoG RNA signatures exist in major cancers. Here, through transcriptomic analyses of matched tumors and non-neoplastic tissues and cancer cell lines, we reveal a comprehensive catalogue of DoG RNA signatures. Through separate lines of evidence, we support the biological importance of DoG RNAs in carcinogenesis. First, we reveal DoG RNAs are tissue-specific and differentially expressed in tumors versus paired normal tissues with their respective host genes involved in tumor promoting versus tumor suppressor pathways. Second, increased DoG RNA number and length is associated with poor patient prognosis. Third, depletion of essential enzyme Topoisomerase I in colon cancer alters RNA polymerase II chromatin engagement leading to termination defects and induction of DoG RNAs. Our results underlie the significance of DoG RNAs in diversifying the cancer transcriptome.
Integrating Equation Coding with Residual Networks for Efficient ODE Approximation in Biological Research
Authors: Yi Ziyue 
Published: January 2024

AbstractTraditional biological research heavily relies on experimental methodologies, which often lead to inefficiencies in communication and knowledge transfer. These methodologies frequently result in redundant trial-and-error experiments, posing challenges in standardizing results and impeding rapid knowledge dissemination. The complexity of biological systems and the sheer volume of experimental data generate a demand for precise mathematical models like Ordinary Differential Equations (ODEs) to articulate biological interactions. However, practical implementation of ODE-based models is hampered by their need for data curation, making them less feasible for everyday research applications. To address these limitations, we introduce LazyNet, a novel computational model that employs logarithmic and exponential functions embedded within a Residual Network (ResNet) architecture to approximate ODEs. LazyNet simplifies complex mathematical operations, reducing the dependency on large datasets and extensive computational resources. This study tests LazyNet across various biological scenarios, including HIV dynamics, gene regulatory networks, and mass spectrometry analysis of small molecules. Our results demonstrate that LazyNet can efficiently assimilate and predict complex biological processes, significantly enhancing model training speed and reducing the reliance on empirical experimentation. Therefore, a promising tool for advancing biological research and fostering more accurate and efficient scientific explorations.