bluuebunny/crossref_metadata_2025_split huggingface dataset:
Folicular dynamics, endocrine profiles and endometrial gene expression in fertile and subfertile cows
Authors: Viñoles C. , Álvez A. , González X. , Meikle A. 
Published: February 2025

Context Subfertility has a negative impact on the productivity of beef cow herds; thus, it is relevant to unravel the mechanisms. Aims To study follicular development, body composition, concentrations of progesterone and metabolic hormones and their gene expression in the endometrium during the oestrus cycle. Methods Fertile and subfertile Hereford cows were classified at 25 (n = 84) and 60 (n = 25) months old, as (1) fertile, pregnant at first insemination at 25 months, that became pregnant more than three of five times at 60 months (n = 5), or (2) subfertile, i.e. failed to became pregnant during three inseminations at 25 months, that became pregnant at fewer than two of the five opportunities at 60 months (n = 6). Key results Fertile cows had greater concentrations of insuling-like growth factor 1 (IGF-1), leptin and adiponectin (P < 0.05), associated with differences in body composition. Insulin and progesterone concentrations were lower during the mid–late luteal phase (P < 0.05) in fertile than subfertile cows, with no impact on follicle dynamics. At dissection, healthy follicles from fertile cows tended (P < 0.1) to have more granulosa cells and higher concentrations of IGF-1 in the follicular fluid. Fertile cows had a lower (P < 0.05) endometrial IGF-1 mRNA expression, but tended to have increased (P < 0.1) progesterone and adiponectin 2 receptor expression on Day 7 of the oestrus cycle. Conclusions Differences in progesterone and metabolic hormones in plasma and follicular fluid and their endometrial expression are associated with the success of pregnancy in beef cows. Implications Strategies to improve the follicle and endometrial microenvironments are needed to improve the productivity of beef herds.
The Diagnostic Accuracy of Using Borderline High Office Blood Pressure Thresholds to Diagnose Masked Hypertension According to the 2017 American College of Cardiology/American Heart Association Blood Pressure Guideline
Authors: Walsh Sophie , Choi Eunhee , Fang Chloe , Narita Keisuke , Cepeda Maria , Frangaj Brulinda , Kim Sofia , Mercado Yaniris , Nesheim-Case Riley , Ramirez Uriel Alvira , Barrett Matthew , Schwartz Joseph E , Shimbo Daichi 
Published: February 2025

Abstract

BACKGROUND
The 2017 American College of Cardiology (ACC)/American Heart Association (AHA) BP guideline recommends ambulatory BP monitoring (ABPM) for diagnosing masked hypertension among adults not taking antihypertensive medication with borderline office BP (i.e., office systolic BP [SBP] 120 to &lt; 130 mm Hg or diastolic BP [DBP] 75 to &lt; 80 mm Hg).

METHODS
Using data from the Improving the Detection of Hypertension Study, sensitivity (SN), specificity (SP), positive predictive value (PPV), negative predictive value (NPV), and likelihood ratios for a positive and negative test of having borderline office BP (i.e., office SBP 120 to &lt; 130 mm Hg or DBP 75 to &lt; 80 mm Hg) for diagnosing masked hypertension (i.e., mean awake SBP ≥ 130 mm Hg or mean awake DBP ≥ 80 mm Hg) were determined among 263 participants who had a mean office SBP &lt; 130 mm Hg and mean DBP &lt; 80 mm Hg. Likelihood ratios for a positive test &gt; 10, 5–10, and &lt; 5 were considered strong, moderate, and weak, respectively. Likelihood ratios for a negative test &lt; 0.1, 0.1–0.2, and &gt; 0.2 were considered strong, moderate, and weak, respectively.

RESULTS
Among the 263 participants, mean ± SD age was 39.2 ± 12.8 years, 62.4% were female, 38.4% had borderline office BP, and 26.2% had masked hypertension. SN, SP, PPV, and NPV were 0.754, 0.747, 0.515, and 0.895, respectively. The likelihood ratios for a positive and negative test were 2.984 (weak) and 0.330 (weak), respectively.

CONCLUSIONS
The use of borderline office BP thresholds recommended in the 2017 ACC/AHA BP guideline did not sufficiently rule in or rule out masked hypertension.
DeepES: Deep learning-based enzyme screening to identify orphan enzyme genes
Authors: Hirota Keisuke , Salim Felix , Yamada Takuji 
Published: February 2025

Abstract

Motivation
Progress in sequencing technology has led to determination of large numbers of protein sequences, and large enzyme databases are now available. Although many computational tools for enzyme annotation were developed, sequence information is unavailable for many enzymes, known as orphan enzymes. These orphan enzymes hinder sequence similarity-based functional annotation, leading gaps in understanding the association between sequences and enzymatic reactions.

Results
Therefore, we developed DeepES, a deep learning-based tool for enzyme screening to identify orphan enzyme genes, focusing on biosynthetic gene clusters and reaction class. DeepES uses protein sequences as inputs and evaluates whether the input genes contain biosynthetic gene clusters of interest by integrating the outputs of the binary classifier for each reaction class. The validation results suggested that DeepES can capture functional similarity between protein sequences, and it can be implemented to explore orphan enzyme genes. By applying DeepES to 4744 metagenome-assembled genomes, we identified candidate genes for 236 orphan enzymes, including those involved in short-chain fatty acid production as a characteristic pathway in human gut bacteria.

Availability
DeepES is available at https://github.com/yamada-lab/DeepES. Model weights and the candidate genes are available at Zenodo (https://doi.org/10.5281/zenodo.11123900).

Supplementary information
Supplementary data are available at Bioinformatics online.
Successful treatment of generalized inflammatory linear verrucous epidermal nevus with a somatic mutation in KRT10 with crisaborole 2% ointment
Authors: Li Zhongtao , Liu Qingfeng , Zhang Fang , Wang Sheng 
Published: February 2025

Abstract
Inflammatory linear verrucous epidermal nevus (ILVEN) is a rare skin disorder characterized by pruritic, erythematous, hyperkeratotic papules and plaques following the lines of Blaschko. Pathogenesis of ILVEN is not yet clear and treatment remains challenging. We analyzed the molecular basis of generalized ILVEN in a Chinese girl and evaluated the therapeutic effect of topical crisaborole 2% ointment. The patient was found to carry a somatic heterozygous c.467G &gt; A (p.Arg156His) mutation in the KRT10 gene. Expressions of IFN-γ, IL-12, IL-23 and IL-17A at mRNA level in her lesions were elevated. An excellent response was achieved after application of crisaborole 2% ointment. Our data reveal the crucial role of activation of immune response in the development of ILVEN with somatic KRT10 mutations, and suggest crisaborole 2% ointment should be considered for the treatment of ILVEN.
Relation as text: a semantic-preserving method for relational triple extraction
Authors: Chen Xinyi , Liu Bo , Hong Xueshu , Chen Wangqun , Qiu Houjie , Ma Xingkong 
Published: February 2025

Abstract
The typical aim of relational triple extraction is to identify entities along with their relations from unstructured text, which is a crucial task in information extraction. Recent methods achieve considerable performance by mining semantic associations within the input sentence but they hardly exploit the equally important semantic meaning of relations. Most methods simply represent relations as numeric labels and the rich semantic information is not fully utilized to enhance performance. To address the issue, we decompose the task into two sequential subtasks, entity pairing and relation matching, from a novel perspective and then propose a semantic-preserving model SPRel. Specifically, SPRel first extracts entity pairs associated with at least one relation, and then matches them with certain relations according to the descriptive text of relations. Comprehensive experiments on two widely used datasets demonstrate that SPRel outperforms previous methods, particularly in handling complex scenarios.
NIA and the White House Conference on Aging: Decades of Collaboration
Authors: Super Nora 
Published: February 2025

Abstract

Background and Objectives
On the National Institute on Aging’s (NIA’s) timeline of major milestones, the 1961 White House Conference on Aging (WHCOA) and the 1971 WHCOA are credited with recommending the creation of a separate National Institute on Aging. This article explores the relationship between NIA and the WHCOA, and how the two entities have worked together to increase research in the mechanisms of aging, diseases of older people, and long-term care..

Research Design and Methods
Historical analyses of past WHCOA Final Reports, supplemental documents, websites, and interviews with key participants, including Dr. Richard Hodes, director of the NIA, from 1993 until the present.

Results
The results affirmed that NIA has been an active and collaborative partner of past WHCOAs, especially regarding the shared objective of increased funding for Alzheimer’s disease

Discussion and Implications
While not always a primary partner, NIA has played a key role in advising and assisting organizers of past WHCOAs, assuring that research remains an underlying theme and content generator of each conference. The Older Americans Act Reauthorization of 2024 (S. 4776) calls for a 2025 Conference to be planned and directed under the Secretary of HHS in cooperation with the Assistant Secretary for Aging and the Director of the NIA, among others.
Phenolic, antioxidant capacity and antinutritional compounds in different Australian acacia seeds
Authors: Chong Wei Shan Cassandra , Tilbrook Dale , Pereira Gavin , Dykes Gary A , George Nicholas , Coorey Ranil 
Published: February 2025

Abstract
The polyphenols, antioxidant activities and antinutrients in Acacia seeds of different species, growing locations and harvest years were characterised in this study. The main phenolic compounds were 6-hydroxy-2-methylindole and 2,2′-methylenebis(6-tert-butyl-methylphenol). The total phenolic and total flavonoid contents of the free polyphenol fractions were positively correlated, while the total phenolic content and ABTS, DPPH and ORAC of the bound fractions were negatively correlated. There were no differences in trypsin and chymotrypsin inhibition activities across all seed batches. The lowest phytate (11.1038 ± 0.006 mg/g) and tannin contents (2.0323 ± 0.7462%) were found in Acacia retinodes Amphitheatre 2020 and A. retinodes Firgrove 2022, respectively. The highest saponin (45.4578 ± 12.2990%) and oxalate contents (4.2396 ± 0.7949%) were found in A. retinodes Grampians 2020 and A. retinodes Firgrove 2020, respectively. The results of this study showed differences in antioxidant activities and antinutrients content which implies that compositional values should not be extrapolated between different species and harvest years.
Food loss and waste reduction by using industry 4.0 technologies: examples of promising strategies
Authors: Arshad Rai Naveed , Abdul-Malek Zulkurnain , Parra-López Carlos , Hassoun Abdo , Qureshi Muhammad Imran , Sultan Aysha , Carmona-Torres Carmen , Waal Jennifer Mignonne , Jagtap Sandeep , Garcia-Garcia Guillermo 
Published: February 2025

Abstract
Food loss and waste represent a significant global issue, posing a threat to food sustainability on a worldwide scale. Approximately one-third of the food produced for human consumption is wasted, resulting in substantial environmental impact and economic loss. However, the growing awareness among consumers and the development of emerging technologies driven by the 4th Industrial Revolution (Industry 4.0) present numerous opportunities to reduce food loss and waste. This article provides a comprehensive examination of recently developed strategies for reducing food loss and waste. The role of Industry 4.0 technologies, such as the Internet of Things, artificial intelligence, cloud computing, blockchain, and big data, is highlighted through examples of various promising initiatives. The results of this analysis show that the application of digital technologies to address the issue of food loss and waste is on the rise globally, with Industry 4.0 technologies revolutionizing many sectors, including the food sector. This article could assist scholars and industry leaders in comprehending the urgency and significance of implementing Industry 4.0 in the food sector. Further research is necessary, and closer collaboration between producers, distributors, consumers, and other actors involved in the food supply chain is still required to reduce food loss and waste further.
Pricing weather derivatives and managing weather risks under regime switching
Authors: Li Peng , Wang Funing , Wang Limei , Liu Keying , Shen Jianwei , Zhong Weizhou 
Published: February 2025

Abstract
Accepted by: Aris Syntetos
A large number of empirical studies have shown that regime switching is an important characteristic of temperature processes. Thus, this work develops an efficient finite difference scheme with one-sided difference to price weather derivatives with the partial differential equations (PDEs) of regime-switching temperature models. For management purposes, an initial management model framework is then proposed to manage portfolios incorporating weather derivatives. This work also performs statistical analysis on the temperature dataset from Toronto, Canada and recalibrates the regime-switching temperature models, as one parameter value is found incorrect in the literature. Numerical experiments indicate that the finite difference scheme is much more competitive than the Monte Carlo simulations and the lattice approaches. The PDEs pricing approach has great potential to be used in practical portfolio management problems involving weather risks.
Life history strategies complement niche partitioning to support the coexistence of closely related Gilliamella species in the bee gut
Authors: Yang Chengfeng , Han Benfeng , Tang Junbo , Hu Jiawei , Qiu Lifei , Cai Wanzhi , Zhou Xin , Zhang Xue 
Published: February 2025

Abstract
The maintenance of bacterial diversity at both species and strain levels is crucial for the sustainability of honey bee gut microbiota and host health. Periodic or random fluctuation in diet typically alters the metabolic niches available to gut microbes, thereby continuously reshaping bacterial diversity and interspecific interactions. It remains unclear how closely related bacteria adapt to these fluctuations and maintain coexistence within the bee gut. Here, we demonstrate that the five predominant Gilliamella species associated with Apis cerana, a widely distributed Asiatic honey bee, have diverged in carbohydrate metabolism to adapt to distinct nutrient niches driven by dietary fluctuation. Specifically, the glycan-specialists gain improved growth on a pollen-rich diet, but are overall inferior in competition to non-glycan-specialist on either a simple sugar or sugar-pollen diet, when co-inoculated in the bee host and transmitted across generations. Strikingly, despite of their disadvantage in a high-sugar condition, the glycan-specialists are found prevalent in natural A. cerana guts. We further reveal that these bacteria have adopted a life history strategy characterized by high biomass yield on a low-concentration sugar diet, allowing them to thrive under poor nutritional conditions, such as when the bee hosts undergo periodical starvation. Transcriptome analyses indicate that the divergence in life history strategies is attributed to gene expression programming rather than genetic variation. This study highlights the importance of integrative metabolic strategies in carbohydrate utilization, which facilitate the coexistence of closely related Gilliamella species in a changing bee gut environment.
Factors associated with impaired physical functionality in x-linked hypophosphatemia
Authors: Ivanovic-Zuvic Danisa , Madison Annette , Jiménez Macarena , Oyanadel María Lorena , Gattini Natalia , Guzmán Carolina , Cifré Manuela , Silvestre Rony , García Cristián , Contreras Oscar , Collins Michael T , Florenzano Pablo 
Published: February 2025

Abstract
X-linked hypophosphatemia (XLH) is a rare inherited disorder characterized by elevated levels of fibroblast growth factor-23 (FGF23), chronic hypophosphatemia, impaired bone mineralization and chronic long-term manifestations. Treatment for XLH has been mainly focused on normalizing its biochemical abnormalities. Despite treatment, patients with XLH often present impaired physical function and decreased quality of life (QoL). We hypothesize that physical functionality and QoL is more strongly associated with chronic pain and decreased muscle mass than persistent biochemical abnormalities or exposure to conventional treatment. We conducted an observational, cross-sectional study with patients with XLH. Clinical records and biochemical parameters were assessed. QoL surveys SF36v.2 and WOMAC were applied. Functional status was measured by a physiatrist and an occupational therapist. Appendicular lean mass (ALM) was measured and compared to age and sex-matched healthy controls. Enthesopathies and osteoarthritis were evaluated. Pain was assessed using the Brief Pain Inventory, the Visual Analog Scale and the Doleur Neuropathique-4 scales. Muscle strength was evaluated by the Quadriceps Muscle isometric Strength (QMS) and physical performance with the 6-minute walk test (6MWT) and the Functional Independence Measure (FIM) scale. A total of 30 patients were included: 21 females; median age of 32 years. All participants had significant functional deficits, chronic pain and reduced QoL. Limitations in daily activities were significantly associated with higher severity of pain, decreased ALM, lower QMS, and less distance in 6MWT (P&lt;.05). Neither FIM scale, phosphate levels, FGF23, nor the lifetime exposure to conventional treatment were associated with these functional variables. In conclusion, impaired physical functionality in patients with XLH was associated with lower muscle mass, lower muscle strength and severe chronic pain. These findings highlight the importance of, in addition to optimizing the biochemical control of the disease, expanding patient care including pain prevention and management as well as comprehensive physical therapy and rehabilitation.
Proteomic analysis and effects on osteogenic differentiation of exosomes from patients with ossification of the spinal ligament
Authors: Nakajima Hideaki , Johnson William E B , Kamitani Mikiko , Watanabe Shuji , Honjoh Kazuya , Kubota Arisa , Matsumine Akihiko 
Published: February 2025

Abstract
Ossification of the spinal ligament (OSL), including ossification of the posterior longitudinal ligament (OPLL) and ossification of the ligamentum flavum (OLF), is a multifactorial disease that includes genetic predisposition. The association between the rate of ossification in the spinal canal and the severity of myelopathy symptoms is well known, but the degree of progression varies widely among patients. Although many candidate genes and biomarkers have been reported, there are no definitive and quantitative conclusions to date, probably because of low reproducibility due to individual differences. In this study, we focused on exosomes secreted by ossified spinal ligament cells. Exosomes are crucial for intercellular communication during development and progression of disease. In a co-culture study of non-OLF cells with OLF cells, there was increased osteogenic differentiation, including Runx2 and Wnt3a expression, with use of exosome-penetrating filters (1.2 μm) compared to exosome-non-penetrating filters (0.03 μm). Dose-dependent increases in alkaline phosphatase activity and mineral deposition were observed in non-OLF cells treated with OLF-derived exosomes. These results support the hypothesis that OLF-derived exosomes are involved in regulation of osteogenic differentiation. In comparative proteomics analysis, 32 factors were increased and 40 were decreased in OLF-derived exosomes compared to non-OLF-derived exosomes. Molecular network analysis of these 72 factors indicated 10 significant pathways, including the MMP signaling, mTOR signaling, Wnt signaling and VDR-associated pathways. Among the upregulated exosomal membrane proteins in OLF samples, COL IV, FMNL3, mTORC2, and PIP4K showed increased expression with greater ossification, suggesting they may serve as biomarkers of disease activity and therapeutic targets. These factors are involved in the PI3K/Akt/mTOR signaling pathway, and particularly mTOR is known to regulate osteogenic and chondrogenic differentiation. In contrast, FABP5, several KRT family proteins, S100A8, SERPINB3, and TGM, were significantly downregulated in OLF-derived exosomes. These findings provide novel insights into the molecular mechanisms underlying OSL pathogenesis.
Minimally invasive solutions for ischiofemoral impingement: case analysis and evolving surgical strategies
Authors: Palma Inês , Nave Afonso , Torres Tiago , Neto Ana Luísa , Campos Martins José , Seco António 
Published: February 2025

Abstract
Variations in the femoral version are increasingly recognized as a cause of coxalgia due to impingement or instability. The true prevalence of these variations remains unknown. The authors report a case of bilateral ischiofemoral impingement (IFI) caused by excessive femoral anteversion treated with a subtrochanteric femoral derotational osteotomy and long intramedullary nailing. We report the case of a 22-year-old female patient with deep left hip pain, consistent with IFI, refractory to conservative treatment. Imaging revealed an ischiofemoral space (IFS) of 16 mm and a femoral anteversion of 34°. A subtrochanteric femoral derotational osteotomy stabilized with a long intramedullary nail was performed. At 18 months, the same surgical procedure was performed due to similar symptoms on the right side, with an IFS of 14 mm and femoral anteversion of 35°. Joint mobility was restored bilaterally, and the symptoms were resolved. Lesser trochanter resection has been reported as a surgical option for IFI in small case series. While conventional subtrochanteric femoral derotational osteotomy with plate fixation shows good functional outcomes, pseudarthrosis remains a concern. The authors’ minimally invasive technique using the backstroke technique for osteotomy site compression helps prevent this complication while preserving the iliopsoas insertion. In this case study, a subtrochanteric femoral derotational osteotomy effectively treated bilateral IFI associated with increased femoral anteversion. The patient achieved excellent clinical outcomes with complete symptom resolution following successful consolidation of both osteotomies, though subsequent implant removal was performed to facilitate potential future surgeries.