tbuckley/cabot-search huggingface dataset:
Foundations of a knee joint digital twin from qMRI biomarkers for osteoarthritis and knee replacement
Authors: Gabrielle Hoyer, Kenneth T. Gao, Felix G. Gassert, Johanna Luitjens, Fei Jiang, Sharmila Majumdar, Valentina Pedoia
Journal: npj Digital Medicine (2025)

This study forms the basis of a digital twin system of the knee joint, using advanced quantitative MRI (qMRI) and machine learning to advance precision health in osteoarthritis (OA) management and knee replacement (KR) prediction. We combined deep learning-based segmentation of knee joint structures with dimensionality reduction to create an embedded feature space of imaging biomarkers. Through cross-sectional cohort analysis and statistical modeling, we identified specific biomarkers, including variations in cartilage thickness and medial meniscus shape, that are significantly associated with OA incidence and KR outcomes. Integrating these findings into a comprehensive framework represents a considerable step toward personalized knee-joint digital twins, which could enhance therapeutic strategies and inform clinical decision-making in rheumatological care. This versatile and reliable infrastructure has the potential to be extended to broader clinical applications in precision health.
Effects of high-fiber, high-fruit and high-vegetable, low-fat dietary intervention on the rectal tissue microbiome
Authors: Doratha A Byrd, Maria Gomez, Stephanie Hogue, Yunhu Wan, Ana Ortega-Villa, Andrew Warner, Casey Dagnall, Kristine Jones, Belynda Hicks, Paul Albert, Gwen Murphy, Rashmi Sinha, Emily Vogtmann
Journal: JNCI Journal of the National Cancer Institute (2025)

Emerging evidence suggests that bacteria residing in colorectal tissue are plausibly associated with colorectal cancer (CRC). Prior studies investigated the effects of dietary interventions on the fecal microbiome, but few assessed colorectal tissue microbiome endpoints. We investigated the effects of a high-fiber, high-fruit and -vegetable, low-fat dietary intervention on the rectal tissue microbiome in the Polyp Prevention Trial (PPT). PPT is a 4-year randomized clinical trial with intervention goals of consuming: 1) ≥ 18 g of fiber per 1,000 kcal/day; 2) ≥3.5 servings of fruits and vegetables per 1,000 kcal/day; and 3) <20% of kcal/day from fat. Using 16S rRNA gene sequencing, we characterized bacteria in rectal biopsies collected at baseline and the end of years 1 and 4 (N = 233 in intervention arm and N = 222 in control arm). We estimated effects of the intervention on alpha/beta diversity and relative abundance of a priori-selected bacteria using repeated-measures linear mixed-effects models. The intervention did not statistically significantly modify rectal tissue alpha diversity. Compared to the control arm, relative abundance of a priori-selected Porphyromonas (absolute intervention effects [standard errors] at T1 vs T0=-0.24 [0.07] and T4 vs T0=-0.12 [0.07]; P = .004) and Prevotella (absolute intervention effects at T1 vs T0=-0.40 [0.14] and at T4 vs T0=-0.32 [0.15]; P = .01) were more strongly decreased in the intervention arm. The PPT intervention did not influence rectal tissue microbiome diversity nor the relative abundance of most bacteria, except for two oral-originating bacteria that were previously associated with CRC presence. NCT00339625.
Long-acting injectable nanoparticle formulation for sustained release of anti-TNF-α antibody therapeutic in ulcerative colitis treatment
Authors: Yicheng Zhang, Li Ling, Jiayuan Kong, Yuanmuhuang Long, Xiaoya Lu, Christopher J Erb, Yurun Miao, Sachin V Kammula, Jordan Popov, Alexander J Tinana, Florin M Selaru, Hai-Quan Mao
Journal: Journal of Controlled Release (2025)
PROTAC based targeted degradation of LRG1 for mitigating corneal neovascularization
Authors: Jingjuan Zhang, Yongjun Qi, Yongzheng Li, Furong Zhu, Yizhuo Geng, Yu Li, Bai Xue, Hongzheng Bi, Ya Jiao, Huan Min, Duyin Jiang, Guangjun Nie, Yingqiu Qi
Journal: Journal of Controlled Release (2025)
Joint modelling histology and molecular markers for cancer classification
Authors: Xiaofei Wang, Hanyu Liu, Yupei Zhang, Boyang Zhao, Hao Duan, Wanming Hu, Yonggao Mou, Stephen Price, Chao Li
Journal: Medical Image Analysis (2025)

Cancers are characterized by remarkable heterogeneity and diverse prognosis. Accurate cancer classification is essential for patient stratification and clinical decision-making. Although digital pathology has been advancing cancer diagnosis and prognosis, the paradigm in cancer pathology has shifted from purely relying on histology features to incorporating molecular markers. There is an urgent need for digital pathology methods to meet the needs of the new paradigm. We introduce a novel digital pathology approach to jointly predict molecular markers and histology features and model their interactions for cancer classification. Firstly, to mitigate the challenge of cross-magnification information propagation, we propose a multi-scale disentangling module, enabling the extraction of multi-scale features from high-magnification (cellular-level) to low-magnification (tissue-level) whole slide images. Further, based on the multi-scale features, we propose an attention-based hierarchical multi-task multi-instance learning framework to simultaneously predict histology and molecular markers. Moreover, we propose a co-occurrence probability-based label correlation graph network to model the co-occurrence of molecular markers. Lastly, we design a cross-modal interaction module with the dynamic confidence constrain loss and a cross-modal gradient modulation strategy, to model the interactions of histology and molecular markers. Our experiments demonstrate that our method outperforms other state-of-the-art methods in classifying glioma, histology features and molecular markers. Our method promises to promote precise oncology with the potential to advance biomedical research and clinical applications. The code is available at github.
Integrative single-cell multi-omics of CD19-CARpos and CARneg T cells suggest drivers of immunotherapy response in B cell neoplasias
Authors: Mercedes Guerrero-Murillo, Aina Rill-Hinarejos, Juan L. Trincado, Alex Bataller, Valentín Ortiz-Maldonado, Daniel Benítez-Ribas, Marta Español-Rego, E Azucena González-Navarro, Nuria Martínez-Cibrián, Doménica Marchese, Lourdes Martín-Martín, Alejandro Martín García-Sancho, Susana Rives, Holger Heyn, Manel Juan, Álvaro Urbano-Ispizúa, Julio Delgado, Alberto Orfao, Elisabetta Mereu, Clara Bueno, Pablo Menendez
Journal: Cell Reports Medicine (2025)
Which transgender and gender diverse groups benefit most from E-health? Subgroup analyses of the randomized controlled trial i <sup>2</sup> TransHealth in Germany
Authors: Janis Renner, Peer Briken, Arne Dekker, Lea Pregartbauer, Antonia Zapf, Susanne Sehner, Amra Pepić, Matthias Augustin, Timo O. Nieder
Journal: International Journal of Transgender Health (2025)
Nanocomposite hydrogels optimize the microenvironment by exterior/interior crosstalk for reprogramming osteoporotic homeostasis in bone defect healing
Authors: Dengke Chen, Yuying Yang, Beibei Li, Yingjuan Yao, Junyi Xu, Rongyan Liu, Jiao Peng, Zhuangpeng Chang, Rui Zhao, Ruigang Hou, Min Lee, Xianghui Xu, Xiao Zhang
Journal: Journal of Controlled Release (2025)
Long-term effects of s-KL treatment in wild-type mice: enhancing longevity, physical well-being, and neurological resilience
Authors: Joan Roig-Soriano, Ángel Edo, Sergi Verdés, Carlos Martín-Alonso, Cristina Sánchez-de-Diego, Laura Rodriguez-Estevez, Antonio L Serrano, Carmela R Abraham, Assumpció Bosch, Francesc Ventura, Bryen A Jordan, Pura Muñoz-Cánoves, Miguel Chillón
Journal: Molecular Therapy (2025)

Aging is a major risk factors for pathologies including sarcopenia, osteoporosis, and cognitive decline, which bring suffering, disability, and elevated economic and social costs. Therefore, new therapies are needed to achieve healthy aging. The protein Klotho (KL) has emerged as a promising anti-aging molecule due to its pleiotropic actions modulating insulin/IGF-1 and Wnt signaling pathways and reducing inflammatory and oxidative stress. Here, we explored the anti-aging potential of the secreted isoform of this protein on the non-pathological aging progression of wild-type mice. The delivery of an AAV9 coding for s-KL efficiently increased the concentration of s-KL in serum, resulting in a 20% increase in lifespan. Notably, KL treatment improved physical fitness, related to a reduction in muscle fibrosis and an increase in muscular regenerative capacity. KL treatment also improved bone microstructural parameters associated with osteoporosis. Finally, s-KL-treated mice exhibited increased cellular markers of adult neurogenesis and immune response, with transcriptomic analysis revealing induced phagocytosis and immune cell activity in the aged hippocampus. These results show the potential of elevating s-KL expression to simultaneously reduce the age-associated degeneration in multiple organs, increasing both life and health span.
From Text to Insight: A Natural Language Processing-Based Analysis of Burst and Research Trends in HER2-low Breast Cancer Patients
Authors: Muyao Li, Ang Zheng, Mingjie Song, Feng Jin, Mengyang Pang, Yuchong Zhang, Ying Wu, Xin Li, Mingfang Zhao, Zhi Li
Journal: Ageing Research Reviews (2025)

With the intensification of population aging, the proportion of elderly breast cancer patients is continuously increasing, among which those with low HER2 expression account for approximately 45 %-55 % of all cases within traditional HER2-negative breast cancer. Concurrently, the significant therapeutic effect of T-DXd on patients with HER2-low tumors has brought this group into the public spotlight. Since the clinical approval of T-DXd in 2019, there has been a significant vertical surge in the volume of publications within this domain. We analyzed 512 articles on HER2-low breast cancer from the Web of Science Core Collection using bibliometrics, topic modeling, and knowledge graph techniques to summarize the current state and trends of research in this domain. Research efforts are particularly concentrated in the United States and China. Our analysis revealed six main research directions: HER2 detection, omics and clinical biomarkers, basic and translational research, neoadjuvant therapy and prognosis, progress of ADC drugs and clinical trials. To enhance the therapeutic efficacy and safety of antibodydrug conjugates (ADCs), researchers are actively exploring potential drug candidates other than T-DXd, with numerous ADC drugs emerging in clinical practice and trials. By incorporating emerging treatment strategies such as immunotherapy and employing circulating tumor cell (CTC) detection techniques, progress has been made toward improving the prognosis of patients with low HER2 expression. We believe that these research efforts hold promise as compelling evidence that HER2-low breast cancer may constitute a distinct and independent subtype.
Lyophilized Apoptotic Vesicles Improve Hemostasis and Bone Regeneration in Traumatic Hemorrhage Patients with Impacted Third Molar Extraction
Authors: Yexiang Jiang, Xuemeng Li, Ruoxin Huang, Fangcao Lei, Lingzhi Li, Bo Yang, Wenfeng Zen, Huagen Tan, Yun Huang, Jing Hu, Yasha Xiong, Zhiyuan Wang, Zetao Chen, Lili Chen, Songtao Shi, Xueli Mao
Journal: Molecular Therapy (2025)
Multifunctional Prussian Blue Nanoparticles loading with Xuetongsu for efficient Rheumatoid Arthritis therapy through targeting inflammatory Macrophages and Osteoclasts
Authors: Yasi Deng, Bin Li, Hao Zheng, Ling Liang, Yupei Yang, Shiqi Liu, Mengyun Wang, Caiyun Peng, Bin Liu, Wei Wang, Huanghe Yu
Journal: Asian Journal of Pharmaceutical Sciences (2025)
High prevalence of chronic hand eczema in Europe and Canada
Authors: Anna Sophie Quaade
Journal: British Journal of Dermatology (2025)

Journal Article Accepted manuscript High prevalence of chronic hand eczema in Europe and Canada Get access Anna Sophie Quaade Anna Sophie Quaade The National Allergy Research Centre, Department of Dermatology and Allergy, Copenhagen University Hospital, Herlev-Gentofte, Denmark Email:[email protected] Search for other works by this author on: Oxford Academic Google Scholar British Journal of Dermatology, ljaf066, https://doi.org/10.1093/bjd/ljaf066 Published: 22 February 2025 Article history Received: 14 February 2025 Accepted: 14 February 2025 Published: 22 February 2025
Cutaneous T-cell lymphoma in Australia: what drives geospatial?
Authors: Rosanne Ottevanger, Maarten H Vermeer
Journal: British Journal of Dermatology (2025)

Journal Article Accepted manuscript Cutaneous T-cell lymphoma in Australia: what drives geospatial? Get access Rosanne Ottevanger, Rosanne Ottevanger Department of dermatology, Leiden University Medical Centre, Leiden, The Netherlands Search for other works by this author on: Oxford Academic Google Scholar Maarten H Vermeer Maarten H Vermeer Department of dermatology, Leiden University Medical Centre, Leiden, The Netherlands Correspondence: Maarten H. Vermeer, Email:[email protected] https://orcid.org/0000-0002-5872-4613 Search for other works by this author on: Oxford Academic Google Scholar British Journal of Dermatology, ljaf026, https://doi.org/10.1093/bjd/ljaf026 Published: 22 February 2025 Article history Received: 10 January 2025 Accepted: 13 January 2025 Published: 22 February 2025
Dermatological Care in Muslim Patients – A Perspective on Gender and Cultural Considerations
Authors: Hibo Rijal, Shaimaa Helal, Morvarid Hessami-Booshehri, Erin Dahlke
Journal: British Journal of Dermatology (2025)

Increasing racial, ethnic, and religious global diversity of patient populations warrants integration of culturally sensitive care by dermatologists. The Muslim population represents one of interest with traditional practices of covering the skin and scalp that often intersect with dermatological care. Recommendations based on Islamic practices followed by many Muslim men and women including providing third party chaperones, limiting exposure of preferred religiously covered regions and providing spiritually informed treatment guidelines (oral medications within fasting periods) are described here to inform dermatologists on methods to optimize treatment outcomes in this population. Allowing for dermatologists to provide culturally-inclusive and equitable care for their Muslim patients.
Doxycycline Post-Exposure Prophylaxis (DoxyPEP): A Primer for Dermatologists
Authors: Jake Nusynowitz, Emily Woolhiser, Sophia Manduca, John G Zampella, John Trinidad
Journal: British Journal of Dermatology (2025)

Doxycycline post-exposure prophylaxis (DoxyPEP) is an effective strategy to reduce bacterial sexually transmitted infections (STIs) in high-risk populations. With its 2024 endorsement by the CDC, DoxyPEP offers timely benefits amid rising STI rates, but its broader adoption raises concerns about antimicrobial resistance and potential side effects. Dermatologists, with their extensive experience prescribing doxycycline, are well-positioned to educate patients, optimize its safe use, and contribute to holistic sexual health prevention strategies.
CVFSNet: A Cross View Fusion Scoring Network for end-to-end mTICI scoring
Authors: Weijin Xu, Tao Tan, Huihua Yang, Wentao Liu, Yifu Chen, Ling Zhang, Xipeng Pan, Feng Gao, Yiming Deng, Theo van Walsum, Matthijs van der Sluijs, Ruisheng Su
Journal: Medical Image Analysis (2025)
A National Cross-Sectional Survey of Skin of Color Dermatology Research Fellowships: Structure and Residency Match Outcomes
Authors: Iain Noel Encarnacion, Noelle Desir, Kevin Puerta Durango, Charissa N Obeng-Nyarko, Temitayo Ogunleye, Nada Elbuluk, Susan Taylor
Journal: Journal of the American Academy of Dermatology (2025)
Sociocultural constructs and sensorimotor control: a scoping review examining implications for anterior cruciate injury
Authors: Katherine F Wilford, Maria Jesus Mena-Iturriaga, Macarena Paz Wainer-Baracatt, Margaret Vugrin, Troy L Hooper, Toby Brooks, C Roger James, Shinye Kim, Gesine H Seeber, Phillip S Sizer
Journal: British Journal of Sports Medicine (2025)

Objective There is a need to explore the many factors that may have a more subtle influence on, or relationship with, sensorimotor control as it pertains to anterior cruciate ligament injury risk. Due to well-established sex/gender-related differences in sensorimotor control, a close examination of key sociocultural constructs is warranted. This scoping review examined the connection between sociocultural constructs and sensorimotor control. Design Scoping review. Data sources The following databases were searched: PubMed, Embase, Scopus, CINAHL Complete, Academic Search Complete, Pre-Prints Database and Rehabilitation Reference Center from inception to September 2023. Additionally, relevant grey literature was identified. Eligibility criteria for selecting studies Two blinded reviewers independently performed screening, study selection and data extraction. Original references in English, Spanish and German reporting on sociocultural constructs and motor task performance were included. Results Data were extracted from 68 included articles. Stereotype threat, gender and race have been examined more than other sociocultural constructs. Sensorimotor control was assessed in upper and lower quarter tasks and physical activity (PA). Task assessment methods varied, often focusing on task completion or completion speed. It is evident that sociocultural constructs influence sensorimotor control, but the exact mechanism remains unclear. Conclusion Sociocultural constructs can influence sensorimotor control and PA. Future research should further explore this connection as it relates to biomechanical profiles associated with increased injury risk. Additionally, sociocultural construct inventory scores could be added to existing injury screening programmes to create a more gendered approach to risk mitigation.
A deep learning digital biomarker to detect hypertension and stratify cardiovascular risk from the electrocardiogram
Authors: Mostafa A. Al-Alusi, Samuel F. Friedman, Shinwan Kany, Joel T. Rämö, Daniel Pipilas, Pulkit Singh, Christopher Reeder, Shaan Khurshid, James P. Pirruccello, Mahnaz Maddah, Jennifer E. Ho, Patrick T. Ellinor
Journal: npj Digital Medicine (2025)

Hypertension is a major risk factor for cardiovascular disease (CVD), yet blood pressure is measured intermittently and under suboptimal conditions. We developed a deep learning model to identify hypertension and stratify risk of CVD using 12-lead electrocardiogram waveforms. HTN-AI was trained to detect hypertension using 752,415 electrocardiograms from 103,405 adults at Massachusetts General Hospital. We externally validated HTN-AI and demonstrated associations between HTN-AI risk and incident CVD in 56,760 adults at Brigham and Women's Hospital. HTN-AI accurately discriminated hypertension (internal and external validation AUROC 0.803 and 0.771, respectively). In Fine-Gray regression analyses model-predicted probability of hypertension was associated with mortality (hazard ratio per standard deviation: 1.47 [1.36-1.60], p < 0.001), HF (2.26 [1.90-2.69], p < 0.001), MI (1.87 [1.69-2.07], p < 0.001), stroke (1.30 [1.18-1.44], p < 0.001), and aortic dissection or rupture (1.69 [1.22-2.35], p < 0.001) after adjustment for demographics and risk factors. HTN-AI may facilitate diagnosis of hypertension and serve as a digital biomarker of hypertension-associated CVD.
STING pathway activation with cisplatin polyprodrug nanoparticles for chemo-immunotherapy in ovarian cancer
Authors: Huijiao Fu, Xiaoqiao Guo, Feng Fang, Cao Zhou, Yuanyuan Chen, Xuanbo Zhang, Bingchen Zhang, Xinran Li, Qiwen Liu, Jie Liu, Wei Chen, Ling Yu, Zhiqiang Yu, Xuefeng Wang
Journal: Journal of Controlled Release (2025)
The Oxytocin System and Implications for Oxytocin Deficiency in Hypothalamic-Pituitary Disease
Authors: Anna Aulinas, Elizabeth A Lawson
Journal: Endocrine Reviews (2025)

Abstract Oxytocin is a hypothalamic-posterior pituitary hormone with multiple effects, ranging from regulation of energy homeostasis to bone health and psychological wellbeing, in addition to its well-known effects in labor and lactation. Patients with hypothalamic and pituitary damage have a higher risk for medical and psychiatric comorbidities despite standard-of-care hormone replacement, and a clinically relevant oxytocin deficient state has been identified in patients with arginine vasopressin deficiency (formerly known as central diabetes insipidus) in the last decade. Therefore, oxytocin deficiency in patients with hypothalamic and pituitary damage is an emerging field. While intranasal oxytocin is readily available to patients, it is not FDA-approved in the US and the quality of compounded formulations is unclear. In addition, more research is needed to establish safety and efficacy of oxytocin-based therapeutics in patients with hypothalamic and pituitary damage before recommending treatment. This Review summarizes the current knowledge of the oxytocin system, oxytocin deficiency in other clinical conditions and relevance to patients with hypothalamic and pituitary damage. We highlight emerging data supporting oxytocin deficiency in hypothalamic-pituitary disease, diagnostic challenges, development of therapeutic strategies, and future research directions to advance the field.
Methotrexate continuation increases fracture risk in patients who sustained lower limb insufficiency fractures
Authors: Barbara Hauser, Andrew Merriman, Jonathan Foley, Janardhana Golla, Euan McRorie, Stuart H Ralston
Journal: Annals of the Rheumatic Diseases (2025)

Two recent case series and previous case reports have described methotrexate (MTX)-associated insufficiency fractures, so called methotrexate osteopathy (MTXO). Our aim was to assess whether the continuation of MTX after an insufficiency fracture impacts future fracture risk. Retrospective single-centre case note review of patients who suffered MTXO insufficiency fractures. We assessed the occurrence of subsequent fractures and evaluated fracture healing in patients who either continued or discontinued MTX following the initial fracture. We identified 33 patients with characteristic MTXO lower limb insufficiency fractures. The mean MTX dose was 20 ± 5.9 mg weekly with average treatment duration of 10.7 ± 6.2 years. MTX was continued in 21 out of 32 patients following the initial insufficiency fracture. Almost all patients (95.2%) who continued methotrexate sustained either further insufficiency (67%) or major osteoporotic (33%) fractures. There were significantly fewer fractures (3 out of 11, 27.3%) in the group that stopped MTX after the initial insufficiency fracture (χ2 = (1, N = 32) = 13.4; P < .001). A Kaplan-Meier analysis showed that significantly increased number of patients who continued MTX after the initial insufficiency fracture sustained a further fracture over time when compared to patients who stopped methotrexate (P = .042). Discontinuation of MTX was associated with greater clinical improvement in pain (77.8% vs 36.4%, P = .036) and weight-bearing capacity (71.4% vs 22.7%, P = .030) during fracture healing. In patients with MTXO insufficiency fractures, continuation of MTX is associated with a high risk of further fracture. It is important to recognise such insufficiency fractures and stop MTX to minimise the future fracture risk.
Tumor-stromal opening via S. typhimurium VNP20009 administration for complete inhibition of refractory tumor growth with liposomal anticancer drugs
Authors: Akari Kato, Shoko Nomura, Maiko Takahashi, Erike Widyasari Sukowati, Hideyoshi Harashima, Hidefumi Mukai
Journal: Journal of Controlled Release (2025)