bluuebunny/crossref_metadata_2025_split huggingface dataset:
Patients’ perception towards chronic disease self-management and its program: A cross-sectional survey
Authors: Halim Nur Atiyah Abdul , Sopri Nur Hikmah Ahmad , Wong Yuet Yen , Mustafa Qarem Mohamed , Lean Qi Ying 
Published: July 2023

Objective This study aimed to assess the perceptions towards chronic disease self-management and its program among patients with chronic diseases. Methods A cross-sectional study using pre-validated questionnaire was conducted among patients with chronic diseases at outpatient pharmacy in a hospital in Penang, Malaysia from April to June 2021. Results Of 270 patients participated in this study, 87.8% were interested in chronic disease self-management. Nonetheless, they faced common barriers including time constraint (71.1%), no health monitoring devices (44.1%) and poor health knowledge (43.0%). More than half of the patients expressed that having a better knowledge of the disease and its treatment (64.1%), getting supportive guidance from healthcare providers (59.6%) and having monitoring devices (58.1%) were the top three facilitators to self-management. The patients preferred chronic disease self-management programs that (a) discuss the topic of motivation (b) are available both as mobile applications and hands-on training, (c) individual session, (d) range between 1 and 5 sessions with a duration of 1 to 2 h/session, (e) occurring on monthly basis, (f) conducted by doctor or healthcare professionals and (g) fully sponsored by government or at affordable fee. Conclusion The findings serve as pre-requisite step in future design and development of chronic disease self-management program, targeting the patients’ needs and preferences.
Core stability status classification based on mediolateral head motion during rhythmic movements and functional movement tests
Authors: Jeong Siwoo , Kim Si-Hyun , Park Kyue-Nam 
Published: July 2023

Objective Core stability assessment is paramount for the prevention of low back pain, with core stability being considered as the most critical factor in such pain. The objective of this study was to develop a simple model for the automated assessment of core stability status. Methods To assess core stability—defined as the ability to control trunk position relative to the pelvic position - we used an inertial measurement unit sensor embedded within a wireless earbud to estimate the mediolateral head angle during rhythmic movements (RMs) such as cycling, walking, and running. The activities of muscles around the trunk were analyzed by an experienced, highly trained individual. Functional movement tests (FMTs) were performed, including single-leg squat, lunge, and side lunge. Data was collected from 77 participants, who were then classified into good and poor core stability groups based on their Sahrmann core stability test scores. Results From the head angle data, we extrapolated the symmetry index (SI) and amplitude of mediolateral head motion (Amp). Support vector machine and neural network models were trained and validated using these features. In both models, the accuracy was similar across three feature sets for RMs, FMTs, and full, and support vector machine accuracy (∼87%) is greater than neural network (∼75%). Conclusion The use of this model, trained with head motion-related features obtained during RMs or FMTs, can help to accurately classify core stability status during activities.
Individual Variation in Adaptive Ability of the Anticipated Postural Stability During a Dual-Task Single-Leg Landing in Female Athletes
Authors: Ogasawara Issei , Revankar Gajanan S. , Konda Shoji , Matsuo Tomoyuki , Aoyama Chisa , Nakata Ken 
Published: July 2023

Background: Precise postural control helps prevent anterior cruciate ligament injury. However, it is unknown whether the anticipated postural stability can be improved during a physically uncertain and cognitively demanding task. Hypothesis: Anticipated postural stability will improve through unanticipated single-leg landing with a rapid foot placement target tracking. Study Design: Controlled laboratory study. Methods: A total of 22 healthy female university-level athletes performed a novel dual-task paradigm: an unanticipated single-leg landing with foot placement target tracking. In the normal condition (60 trials), the participants jumped from a 20 cm–high box onto the landing target with their dominant leg as softly as possible. In the subsequent perturbation condition (PC) (60 trials), the initially assigned landing target was abruptly switched randomly, requiring participants to modify their preplanned foot placement position to the newly assigned position. The center-of-pressure trajectory length within the first 100 ms after foot impact (CoP100) was calculated as a measure of anticipated postural stability for each trial. In addition, the peak vertical ground-reaction force (FzPeak) was quantified to assess landing load, and the degree of postural adaptation during PC was quantified by fitting an exponential function to trial-by-trial changes in CoP100. Participants were divided into 2 groups according to increase or decrease in CoP100, and results were compared between the groups. Results: The direction and magnitude of postural sway alterations of the 22 participants showed a spectrum-like variation during the repeated trials. Twelve participants (sway-decreased group) exhibited a gradual reduction in postural sway (CoP100) during the PC, while the remaining 10 participants (sway-increased group) showed a gradual increase in CoP100. The FzPeak during the PC was significantly less in the sway-decreased group compared with the sway-increased group ( P < .05). Conclusion: Variation in the direction and magnitude of postural sway alteration among participants suggested that there was individual variation in an athlete’s adaptive ability of the anticipated postural stability. Clinical Relevance: The novel dual-task paradigm described in this study may be useful for rating individual injury risk based on an athlete’s postural adaptation ability and may aid in targeted prevention strategies.
Determinants of microbial colonization in the premature gut
Authors: Chen Xiaoyu , Shi Yongyan 
Published: July 2023

AbstractAbnormal microbial colonization in the gut at an early stage of life affects growth, development, and health, resulting in short- and long-term adverse effects. Microbial colonization patterns of preterm infants differ from those of full-term infants in that preterm babies and their mothers have more complicated prenatal and postnatal medical conditions. Maternal complications, antibiotic exposure, delivery mode, feeding type, and the use of probiotics may significantly shape the gut microbiota of preterm infants at an early stage of life; however, these influences subside with age. Although some factors and processes are difficult to intervene in or avoid, understanding the potential factors and determinants will help in developing timely strategies for a healthy gut microbiota in preterm infants. This review discusses potential determinants of gut microbial colonization in preterm infants and their underlying mechanisms.
Segregation between breeds and local breed proportions in genetic and genomic models for crossbreds
Authors: Eiríksson Jón H. , Su Guosheng , Strandén Ismo , Christensen Ole F. 
Published: July 2023

Abstract
Background
The breeding value of a crossbred individual can be expressed as the sum of the contributions from each of the contributing pure breeds. In theory, the breeding value should account for segregation between breeds, which results from the difference in the mean contribution of loci between breeds, which in turn is caused by differences in allele frequencies between breeds. However, with multiple generations of crossbreeding, how to account for breed segregation in genomic models that split the breeding value of crossbreds based on breed origin of alleles (BOA) is not known. Furthermore, local breed proportions (LBP) have been modelled based on BOA and is a concept related to breed segregation. The objectives of this study were to explore the theoretical background of the effect of LBP and how it relates to breed segregation and to investigate how to incorporate breed segregation (co)variance in genomic BOA models.

Results
We showed that LBP effects result from the difference in the mean contribution of loci between breeds in an additive genetic model, i.e. breed segregation effects. We found that the (co)variance structure for BS effects in genomic BOA models does not lead to relationship matrices that are positive semi-definite in all cases. However, by setting one breed as a reference breed, a valid (co)variance structure can be constructed by including LBP effects for all other breeds and assuming them to be correlated. We successfully estimated variance components for a genomic BOA model with LBP effects in a simulated example.

Conclusions
Breed segregation effects and LBP effects are two alternative ways to account for the contribution of differences in the mean effects of loci between breeds. When the covariance between LBP effects across breeds is included in the model, a valid (co)variance structure for LBP effects can be constructed by setting one breed as reference breed and fitting an LBP effect for each of the other breeds.
MOKPE: drug–target interaction prediction via manifold optimization based kernel preserving embedding
Authors: Binatlı Oğuz C. , Gönen Mehmet 
Published: July 2023

AbstractBackgroundIn many applications of bioinformatics, data stem from distinct heterogeneous sources. One of the well-known examples is the identification of drug–target interactions (DTIs), which is of significant importance in drug discovery. In this paper, we propose a novel framework, manifold optimization based kernel preserving embedding (MOKPE), to efficiently solve the problem of modeling heterogeneous data. Our model projects heterogeneous drug and target data into a unified embedding space by preserving drug–target interactions and drug–drug, target–target similarities simultaneously.ResultsWe performed ten replications of ten-fold cross validation on four different drug–target interaction network data sets for predicting DTIs for previously unseen drugs. The classification evaluation metrics showed better or comparable performance compared to previous similarity-based state-of-the-art methods. We also evaluated MOKPE on predicting unknown DTIs of a given network. Our implementation of the proposed algorithm in R together with the scripts that replicate the reported experiments is publicly available athttps://github.com/ocbinatli/mokpe.
Phylogenetic congruence, conflict and consilience between molecular and morphological data
Authors: Keating Joseph N , Garwood Russell J , Sansom Robert S 
Published: July 2023

AbstractMorphology and molecules are important data sources for estimating evolutionary relationships. Modern studies often utilise morphological and molecular partitions alongside each other in combined analyses. However, the effect of combining phenomic and genomic partitions is unclear. This is exacerbated by their size imbalance, and conflict over the efficacy of different inference methods when using morphological characters. To systematically address the effect of topological incongruence, size imbalance, and tree inference methods, we conduct a meta-analysis of 32 combined (molecular + morphology) datasets across metazoa. Our results reveal that morphological-molecular topological incongruence is pervasive: these data partitions yield very different trees, irrespective of which method is used for morphology inference. Analysis of the combined data often yields unique trees that are not sampled by either partition individually, even with the inclusion of relatively small quantities of morphological characters. Differences between morphology inference methods in terms of resolution and congruence largely relate to consensus methods. Furthermore, stepping stone Bayes factor analyses reveal that morphological and molecular partitions are not consistently combinable, i.e. data partitions are not always best explained under a single evolutionary process. In light of these results, we advise that the congruence between morphological and molecular data partitions needs to be considered in combined analyses. Nonetheless, our results reveal that, for most datasets, morphology and molecules can, and should, be combined in order to best estimate evolutionary history and reveal hidden support for novel relationships. Studies that analyse only phenomic or genomic data in isolation are unlikely to provide the full evolutionary picture.
Diversity and characteristics of plant immunity–activating bacteria from Brassicaceae plants
Authors: Kaneko Hiroki , Miyata Fuma , Kurokawa Mari , Hashimoto Kenji , Kuchitsu Kazuyuki , Furuya Toshiki 
Published: July 2023

Abstract
Background
Microorganisms that activate plant immune responses are useful for application as biocontrol agents in agriculture to minimize crop losses. The present study was conducted to identify and characterize plant immunity–activating microorganisms in Brassicaceae plants.

Results
A total of 25 bacterial strains were isolated from the interior of a Brassicaceae plant, Raphanus sativus var. hortensis. Ten different genera of bacteria were identified: Pseudomonas, Leclercia, Enterobacter, Xanthomonas, Rhizobium, Agrobacterium, Pantoea, Rhodococcus, Microbacterium, and Plantibacter. The isolated strains were analyzed using a method to detect plant immunity–activating microorganisms that involves incubation of the microorganism with tobacco BY-2 cells, followed by treatment with cryptogein, a proteinaceous elicitor of tobacco immune responses. In this method, cryptogein-induced production of reactive oxygen species (ROS) in BY-2 cells serves as a marker of immune activation. Among the 25 strains examined, 6 strains markedly enhanced cryptogein-induced ROS production in BY-2 cells. These 6 strains colonized the interior of Arabidopsis plants, and Pseudomonas sp. RS3R-1 and Rhodococcus sp. RS1R-6 selectively enhanced plant resistance to the bacterial pathogens Pseudomonas syringae pv. tomato DC3000 and Pectobacterium carotovorum subsp. carotovorum NBRC 14082, respectively. In addition, Pseudomonas sp. RS1P-1 effectively enhanced resistance to both pathogens. We also comprehensively investigated the localization (i.e., cellular or extracellular) of the plant immunity–activating components produced by the bacteria derived from R. sativus var. hortensis and the components produced by previously isolated bacteria derived from another Brassicaceae plant species, Brassica rapa var. perviridis. Most gram-negative strains enhanced cryptogein-induced ROS production in BY-2 cells via the presence of cells themselves rather than via extracellular components, whereas many gram-positive strains enhanced ROS production via extracellular components. Comparative genomic analyses supported the hypothesis that the structure of lipopolysaccharides in the outer cell envelope plays an important role in the ROS-enhancing activity of gram-negative Pseudomonas strains.

Conclusions
The assay method described here based on elicitor-induced ROS production in cultured plant cells enabled the discovery of novel plant immunity–activating bacteria from R. sativus var. hortensis. The results in this study also suggest that components involved in the ROS-enhancing activity of the bacteria may differ depending largely on genus and species.
Molecular characterization of multidrug-resistant non-typeable Haemophilus influenzae with high-level resistance to cefuroxime, levofloxacin, and trimethoprim-sulfamethoxazole
Authors: Su Pei-Yi , Cheng Wei-Hung , Ho Cheng-Hsun 
Published: July 2023

Abstract
Background
Non-typeable Haemophilus influenzae (NTHi) has become the major cause of invasive H. influenzae diseases in the post-H. influenzae type b vaccine era. The emergence of multidrug-resistant (MDR) NTHi is a growing public health problem. Herein, we investigated the molecular basis of MDR in NTHi. The isolated NTHi were subjected to antimicrobial susceptibility testing for 12 agents. Whole genome and plasmid sequencing were conducted and analyzed to identify significant genetic variations and plasmid-encoded genes conferred antibiotic resistance.

Results
Thirteen (50%) MDR NTHi isolates were obtained; of these, 92.3% were non-susceptible to ampicillin, 30.8% to amoxicillin-clavulanate, 61.5% to cefuroxime, 61.5% to ciprofloxacin/levofloxacin, 92.3% to trimethoprim-sulfamethoxazole, 30.8% to tetracycline, and 7.7% to azithromycin. Eight ampicillin-resistant isolates were β-lactamase positive; of these, 6 carried blaTEM-1 and 2 carried blaROB-1, whereas 4 were β-lactamase negative. Genetic variations in mrdA, mepA, and pbpG were correlated with amoxicillin-clavulanate non-susceptibility, whereas variations in ftsI and lpoA conferred cefuroxime resistance. Five variations in gyrA, 2 in gyrB, 3 in parC, 1 in parE, and 1 in the parC-parE intergenic region were associated with levofloxacin/ciprofloxacin non-susceptibility. Among these genes, 8 variations were linked to high-level levofloxacin resistance. Six variations in folA were associated with trimethoprim-sulfamethoxazole resistance. Plasmid-bearing tet(B) and mef(A) genes were responsible for tetracycline and azithromycin resistance in 4 and 1 MDR isolates, respectively.

Conclusions
This study clarified the molecular epidemiology of MDR in NTHi. This can benefit the monitoring of drug resistance trends in NTHi and the adequate medical management of patients with NTHi infection.
Expression of NEAT1 can be used as a predictor for Dex resistance in multiple myeloma patients
Authors: Ren Yuyue , Liu Yijun , He Wanting , Zhao Weiwei , Pan Jiaqi , Gao Haiyan , Li Yuying , Zhang Ying , Wang Wei 
Published: July 2023

Abstract
Objective
Multiple myeloma is a heterogeneous disorder and the intratumor genetic heterogeneity contributes to emergency of drug resistance. Dexamethasone has been used clinically for decades for MM. Nevertheless, their use is severely hampered by the risk of developing side effects and the occurrence of Dex resistance. LncRNA NEAT1 plays a oncogenic role and participates in drug resistance in many solid tumors. Therefore, we investigated a potential usefulness of this molecular as a biomarker for diagnosis of MM and possible correlations of NEAT1 expression with drug resistance and prognosis.

Methods
Bone marrow and peripheral blood mononuclear cells samples were collected from 60 newly diagnosed MM patients. The expression of NEAT1expression level were detected by quantitative real-time PCR analyses. The relationship about the expression levels of lncRNA with other clinical and cytogenetic features was analyzed. In addition, we measured to analysis the correlation between the expression of NEAT1 and Dex resistance in MM patients.

Results
It was found that the expression of NEAT1 is significantly higher in multiple myeloma patients compared to controls and does not change with other clinical features and cytogenetic features. We further discovered that overexpression of NEAT1 was associated with Dex resistance and a poor prognosis in MM patients.

Conclusion
LncRNA NEAT1 has a significant value that might act as a promoting factor in the development of MM and may be severed as a diagnostic factor in MM. NEAT1 invovled in Dex resistance, which provide a new interpretation during the chemotherapy for MM.
GBAP1 functions as a tumor promotor in hepatocellular carcinoma via the PI3K/AKT pathway
Authors: Chen Rong , Zhao Meng , An Yanli , Liu Dongfang , Tang Qiusha 
Published: July 2023

AbstractHepatocellular carcinoma (HCC) is common worldwide, and novel therapeutic targets and biomarkers are needed to improve outcomes. In this study, bioinformatics analyses combined with in vitro and in vivo assays were used to identify the potential therapeutic targets. Differentially expressed genes (DEG) in HCC were identified by the intersection between The Cancer Genome Atlas and International Cancer Genome Consortium data. The DEGs were evaluated by a gene set enrichment analysis as well as Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses. A protein interaction network, univariate Cox regression, and Lasso regression were used to screen out hub genes correlated with survival. Increased expression of the long noncoding RNA GBAP1 in HCC was confirmed in additional datasets and its biological function was evaluated in HCC cell lines and nude mice. Among 121 DEGs, GBAP1 and PRC1 were identified as hub genes with significant prognostic value. Overexpression of GBAP1 in HCC was confirmed in 21 paired clinical tissues and liver cancer or normal cell lines. The inhibition of GBAP1 expression reduced HCC cell proliferation and promoted apoptosis by inactivating the PI3K/AKT pathway in vitro and in vivo. Therefore, GBAP1 has a pro-oncogenic function in HCC and is a candidate prognostic biomarker and therapeutic target.
Promoting physical activity through supervised vs motivational behavior change interventions in breast cancer survivors on aromatase inhibitors (PAC-WOMAN): protocol for a 3-arm pragmatic randomized controlled trial
Authors: Carraça Eliana V. , Rodrigues Bruno , Franco Sofia , Nobre Inês , Jerónimo Flávio , Ilharco Vítor , Gabriel Fernanda , Ribeiro Leonor , Palmeira António L. , Silva Marlene N. 
Published: July 2023

Abstract
Background
Aromatase inhibitors (AI) are frequently used to treat hormone-receptor-positive breast cancer, but they have multiple adverse effects (e.g., osteoporosis, arthralgia), resulting in premature therapy discontinuation/switch. Physical activity (PA) can attenuate these negative effects and improve quality of life (QoL). However, most cancer survivors fail to perform/sustain adequate PA levels, especially in the long-term. Theory-based interventions, using evidence-based behavior change techniques, aimed at promoting long-term behavior change in breast cancer survivors are effective, but remain scarce and fail to promote self-regulatory skills and better-quality motivations associated with sustained PA adoption. This paper describes the design of the PAC-WOMAN trial, which will test the long-term effectiveness and cost-effectiveness of two state of the art, group-based interventions encouraging sustained changes in PA, sedentary behavior, and QoL. Additional aims include examining the impact of both interventions on secondary outcomes (e.g., body composition, physical function), and key moderators/mediators of short and long-term changes in primary outcomes.

Methods
A 3-arm pragmatic randomized controlled trial, involving a 4-month intervention and a 12-month follow-up, will be implemented, in a real exercise setting, to compare: 1) brief PA counseling/motivational intervention; 2) structured exercise program vs. waiting-list control group. Study recruitment goal is 122 hormone-receptor-positive breast cancer survivors (stage I-III), on AI therapy (post-primary treatment completion) ≥ 1 month, ECOG 0–1. Outcome measures will be obtained at baseline, 4 months (i.e., post-intervention), 10 and 16 months. Process evaluation, analyzing implementation determinants, will also be conducted.

Discussion
PAC-WOMAN is expected to have a relevant impact on participants PA and QoL and provide insights for the improvement of interventions designed to promote sustained adherence to active lifestyle behaviors, facilitating its translation to community settings.

Trial registration
April 20, 2023 – NCT05860621.
April 21, 2023 – https://doi.org/10.17605/OSF.IO/ZAQ9N
April 27, 2023 – UMIN000050945.