tbuckley/cabot-search huggingface dataset:
Cohabitation facilitates microbiome shifts that promote isoflavone transformation to ameliorate liver injury
Authors: Yunong Zeng, Rong Wu, Yi He, Qian Zhang, Ze Wang, Ping Qin, Fangyuan Yang, Yingshi Han, Mingjing Hao, Yujian Zheng, Lei Gao, Xia Chen, Xiaoshan Zhao, Zhenhua Zeng, Zhe-Xiong Lian, Weidong Xiao, Zhanguo Liu, Zhi-Bin Zhao, Shenhai Gong
Journal: Cell Host & Microbe (2025)
Bringing reproductive, pelvic and breast health to light: insights from the Health of Elite Retired Australian female athletes survey (HER-Aus)
Authors: Daniel J Friedman, David Hughes, Jane S Thornton, Richard Saw, Michael Girdwood, Kimberley R Wells, Kay M Crossley
Journal: British Journal of Sports Medicine (2025)

Objectives To describe the reproductive, pelvic and breast health of retired elite Australian female athletes. Methods Data were collected as part of a larger online cross-sectional survey that was cocreated with female athletes and disseminated to Australian retired elite (international-level and national-level) female athletes aged ≥18 years old and retired from elite competition ≥2 years. Results 199 retired female athletes (mean (SD) age 44 (10) years; retired for 16 (9) years; competed for 10 (5) years) across 31 different sports responded to the survey. 23% (46/199) experienced primary amenorrhoea, and 48% (95/197) reported ever experiencing secondary amenorrhoea. Of athletes with pregnancy difficulties (n=45), 42% reported menstrual cycle irregularity during their career. Of athletes who gave birth (n=98), 19% had difficulties conceiving, requiring fertility treatments. The majority of athletes reported current symptoms of urinary incontinence (70% (140/198)) and faecal incontinence (54% (106/197)). 18% (33/188) reported that they currently experience exercise-related breast pain; however, 87% (164/188) reported that breast pain never negatively impacts their current physical activity. Conclusions A high prevalence of reported menstrual irregularities, pelvic floor dysfunction and fertility issues highlights the need for early prevention and intervention measures to address long-term health and the unique challenges faced by female athletes during and after their sporting careers.
Immunopathological and microbial signatures of inflammatory bowel disease in partial RAG deficiency
Authors: Riccardo Castagnoli, Francesca Pala, Poorani Subramanian, Cihan Oguz, Benjamin Schwarz, Ai Ing Lim, Andrew S. Burns, Elena Fontana, Marita Bosticardo, Cristina Corsino, Angelina Angelova, Ottavia M. Delmonte, Heather Kenney, Deanna Riley, Grace Smith, Lisa Ott de Bruin, Vasileios Oikonomou, Lucas Dos Santos Dias, Danielle Fink, Eric Bohrnsen, Cole D. Kimzey, Gian Luigi Marseglia, Guisela Alva-Lozada, Jenna R.E. Bergerson, Ana Brett, Karlla W. Brigatti, Dimana Dimitrova, Cullen M. Dutmer, Alexandra F. Freeman, Hanadys Ale, Steven M. Holland, Francesco Licciardi, Srdjan Pasic, Laura E. Poskitt, David E. Potts, Joseph F. Dasso, Svetlana O. Sharapova, Kevin A. Strauss, Brant R. Ward, Melis Yilmaz, Douglas B. Kuhns, Michail S. Lionakis, Stephen R. Daley, Heidi H. Kong, Julia A. Segre, Anna Villa, Stefania Pittaluga, Jolan E. Walter, Ivan Vujkovic-Cvijin, Yasmine Belkaid, Luigi D. Notarangelo
Journal: The Journal of Experimental Medicine (2025)

Partial RAG deficiency (pRD) can manifest with systemic and tissue-specific immune dysregulation, with inflammatory bowel disease (IBD) in 15% of the patients. We aimed at identifying the immunopathological and microbial signatures associated with IBD in patients with pRD and in a mouse model of pRD (Rag1w/w) with spontaneous development of colitis. pRD patients with IBD and Rag1w/w mice showed a systemic and colonic Th1/Th17 inflammatory signature. Restriction of fecal microbial diversity, abundance of pathogenic bacteria, and depletion of microbial species producing short-chain fatty acid were observed, which were associated with impaired induction of lamina propria peripheral Treg cells in Rag1w/w mice. The use of vedolizumab in Rag1w/w mice and of ustekinumab in a pRD patient were ineffective. Antibiotics ameliorated gut inflammation in Rag1w/w mice, but only bone marrow transplantation (BMT) rescued the immunopathological and microbial signatures. Our findings shed new light in the pathophysiology of gut inflammation in pRD and establish a curative role for BMT to resolve the disease phenotype.
Comment on ‘A Proposal for a New Pathogenesis-guided Classification for Inherited Epidermal Differentiation Disorders’: reply from authors
Authors: Angela Hernández-Martín, Amy S Paller, Eli Sprecher, Masashi Akiyama, Antoni Gostynski, Juliette Mazereeuw-Hautier, Masashi Akiyama, Mandy Aldwin-Easton, Christine Bodemer, Keith Choate, Judith Fischer, Antoni Gostynski, Ángela Hernández-Martín, Alain Hovnanian, Akemi Ishida-Yamamoto, Juliette Mazereeuw-Hautier, Edel A O’Toole, Amy S Paller, Janice Schwartz, Matthias Schmuth, Eli Sprecher, Gianluca Tadini, Joyce Teng, Céline Granier Tournier
Journal: British Journal of Dermatology (2025)

Reply to ‘Comment on “A Proposal for a New Pathogenesis-guided Classification for Inherited Epidermal Differentiation Disorders”’ by Eisner et al.
Harmonizing Measurement of Eczema Control- Mapping Scores Between the Atopic Dermatitis Control Tool and The Recap of Atopic Eczema Instrument
Authors: Jordan Gillespie, Gina N Bash, Michael E Jacobson, Emile Latour, Eric L Simpson
Journal: British Journal of Dermatology (2025)

Abstract Background The Harmonizing Outcome Measures for Eczema (HOME) have established a core outcome set for atopic dermatitis (AD) clinical trials, including four core outcome domains: clinician-reported signs, patient-reported symptoms, eczema control, and quality of life. For eczema control, the Atopic Dermatitis Control Tool (ADCT) and the Recap of Atopic Eczema (RECAP) were chosen through consensus methods as equivalent instruments. This study aimed to develop equations to map scores between ADCT and RECAP to facilitate inter-measurement comparison and data synthesis. Methods Patients with AD completed the HOME core outcome set of instruments, including ADCT, RECAP, Dermatology Life Quality Index series [DLQI], Peak Pruritus Numerical Rating Scale [PP-NRS], and Patient-Oriented Eczema Measure [POEM], during routine clinic visits. Clinicians assessed disease severity using the Investigator Global Assessment x Body Surface Area (IGAxBSA). Results Among 50 participants, ADCT and RECAP were strongly correlated (Pearson’s correlation coefficient, r = 0.970). Four mapping models were evaluated: simple linear regression (SLR), SLR without intercept, square root transformation (SRT), and SRT without intercept. While the SRT no intercept model had the lowest root mean squared error (RMSE), it produced nonlinear confidence intervals and risked overfitting. The SLR no intercept model, with high predictive accuracy (R-squared = 0.971) and interpretability, was selected as the primary approach. Two equations were derived to convert scores between ADCT and RECAP, enabling standardized comparisons. Conclusions This study provides two equations for mapping between ADCT and RECAP, strengthening the HOME outcome measurement set and synthesizing the two measures for clinical and research purposes. Validation with larger, independent cohorts is warranted to confirm these findings.
Methylation-Based Test for Diagnosis of Benign and Malignant Melanocytoma
Authors: Wen-wen Zhang, Long-feng Ke, Yu Chen, Chen-yu Wu, Shu-yi Lu, Yun-li Xie, Huan-huan Zhu, Hao Chen, Gang Chen, Yan-ping Chen
Journal: British Journal of Dermatology (2025)

Abstract Background Accurate diagnosis of melanomas significantly improves patient survival rates. Distinguishing melanomas from nevi purely by morphology by pathologists can be challenging when the neoplastic cells are confined to the epidermis or lack marked nuclear pleomorphism. Objectives To investigate candidate DNA methylation alterations that can distinguish melanoma from nevus, to develop an efficient and convenient methylation-specific quantitative real time PCR assay (MS-qPCR) for the diagnosis of melanoma and to validate its diagnostic performance. Methods We collected 145 formalin-fixed paraffin embedded tissue (FFPE) samples of malignant melanoma, 143 FFPE samples of benign nevus, 31 plasma samples of melanoma and 37 plasma samples of healthy controls between March 2018 and July 2024. The FFPE samples were divided into the discovery set, training set and validation set. The PRAME, CLDN11 andSHOX2 promoter methylation levels were detected in the discovery set by pyrosequencing to identify melanoma-specific methylation markers. Using statistically different genes, we developed an efficient and convenient MS-qPCR diagnostic model and validated its diagnostic performance in the training set, validation set and plasma samples. Results Pyrosequencing in the discovery set showed that the PRAME and CLDN11 promoter methylation levels were significant diagnostic biomarkers of melanoma; no significant differences in SHOX2 promoter methylation were found between melanoma and nevi. MS-qPCR for the detection of PRAME andCLDN11 methylation levels was established, which allowed quantitative analysis of samples with as little as 1% diluted samples. A diagnostic algorithm based on CT values was constructed and achieved high accuracy in the training set (sensitivity=94.25%, specificity=85.56%), validation set (sensitivity=84.48%, specificity=88.68%) and plasma samples (sensitivity=51.61%, specificity=83.78%). In terms of different subtypes, the diagnostic algorithm enabled a high degree of discrimination for acral melanoma (sensitivity=89.90%, specificity=86.36%) and mucosal melanoma (sensitivity=100%, specificity=83.3%). More importantly, the diagnostic algorithm was able to distinguish early-stage melanoma from normal nevus, with an AUC of 0.879 and sensitivity of 77.27%. Conclusions The approach detecting PRAME and CLDN11 methylation levels using MS-qPCR has high sensitivity and specificity in the differential diagnosis between benign and malignant melanocytic tumors. Using this approach in plasma is a promising and easily implementable strategy for early screening of melanoma.
Erythema and scale in cutaneous lupus erythematosus significantly impacts patient quality of life and disease course impression
Authors: Grace Lu, Shae Chambers, Tyler Cepica, Lillian Xie, Rui Feng, Victoria P Werth, Benjamin F Chong
Journal: British Journal of Dermatology (2025)

Our study seeks to further characterize the impact of CLASI-A erythema and scale on patient quality of life in a larger multi-center cohort study. We found that both erythema and scale were associated with several patient-reported outcome measures both at baseline and over time, most notably with patient impressions of disease progression. These findings justify the inclusion of erythema and scale in CLASI-A scoring and has important implications for future treatment directions, as no accepted measure of disease severity currently exists for cutaneous lupus.
Is Ectopic Cushing Syndrome Commonly Associated with Small Cell Lung Cancer (SCLC)? Critical Review of the Literature and ACTH Expression in Resected SCLC
Authors: Ayako Ura, Elisa Moser, Matthias Evert, Katja Evert, Bruno Märkl, Eva Sipos, Marcus Kremer, Hironobu Sasano, Yoshinori Okada, Katja Steiger, Carolin Mogler, Hans Hoffmann, Alexander von Werder, Daniel Kaemmerer, Silvia Uccella, Stefano La Rosa, Günter Klöppel, Atsuko Kasajima
Journal: Endocrine Pathology (2025)

Abstract The literature emphasizes that pulmonary ectopic Cushing syndrome (ECS) is associated not only with neuroendocrine tumors (NETs), but also with small cell lung carcinomas (SCLCs). This statement is debatable, because extrapulmonary ECS is associated with NETs in the vast majority of cases and very rarely with neuroendocrine carcinomas (NECs). Therefore, we critically reviewed the literature on SCLCs associated with ECS (ECS-SCLC) and performed immunohistochemical analysis of ACTH expression in 155 resected SCLCs and 158 pulmonary NETs. The literature search revealed that 90% of the 205 ECS-SCLC patients identified between 1952 and 2023 had no or poor-quality histologic images, so the diagnosis of SCLC could not be confirmed. Review of the 20 reports (10%) with histologic images revealed that 18/20 (90%) had to be reclassified as "probable NET", of which 5/18 (28%) showed spindle cell morphology, while only 2 cases were qualified as "SCLC compatible" due to their pleomorphic cell features. Immunohistochemically, 5/155 (3%) resected SCLCs, all without ECS, showed weak single cell ACTH expression, whereas in the NET cohort, 61/158 (39%) tumors expressed ACTH, of which 4 (3%) were associated with ECS. Both observations, the literature review, which casts doubt on previously reported data regarding the frequency of SCLC in ECS, and the immunohistochemical study, suggest that there is limited evidence that SCLC is the cause of ECS.
A systematic review of quantum machine learning for digital health
Authors: Riddhi S Gupta, Carolyn E Wood, Teyl Engstrom, Jason D Pole, Sally Shrapnel
Journal: npj Digital Medicine (2025)

Abstract The growth in digitization of health data provides opportunities for using algorithmic techniques for data analysis. This systematic review assesses whether quantum machine learning (QML) algorithms outperform existing classical methods for clinical decisioning or health service delivery. Included studies use electronic health/medical records, or reasonable proxy data, and QML algorithms designed for quantum computing hardware. Databases PubMed, Embase, IEEE, Scopus, and preprint server arXiv were searched for studies dated 01/01/2015–10/06/2024. Of an initial 4915 studies, 169 were eligible, with 123 then excluded for insufficient rigor. Only 16 studies consider realistic operating conditions involving quantum hardware or noisy simulations. We find nearly all encountered quantum models form a subset of general QML structures. Scalability of data encoding is partly addressed but requires restrictive hardware assumptions. Overall, performance differentials between quantum and classical algorithms show no consistent trend to support empirical quantum utility in digital health.
Anti‐Infective Polyurethane Dressings via Ultrafast Laser Micro/Nanostructuring
Authors: Liang Jing, Zexu Zhang, Zongjing Li, Jing Jia, Lei Tian, Chunsan Deng, Si Wu, Jingbo Chen, Hongjie Hu, Hui Gao, Leimin Deng, Wei Xiong, Wei Zhu
Journal: Advanced Healthcare Materials (2025)

Abstract Bacteria‐associated wound infections lead to life‐threatening complications such as systemic inflammatory response (SIRS) or septic shock. Even though affordable and permeable polyurethane (PU) dressings are widely used in clinical practice, their pure shielding function appears ineffective for contaminated wounds. Herein, an ultrafast laser is utilized to fabricate micro/nanostructures in PU dressings to significantly enhance drug loading capacity. In contrast to untreated areas, the laser direct writing with spatiotemporal regulation method enhances the drug loading capacity by 61 times. The anti‐infective capability is demonstrated by embedding clindamycin within the PU films, indicating that laser‐induced micro/nanostructured PU dressings (PU‐MS) not only exhibit stable mechanical properties and biocompatiability, but also produce an obvious inhibition zone of Staphylococcus aureus in vitro. Furthermore, a rat skin wound infection model verified that PU‐MS can effectively prevent bacteria‐associated wound infection and SIRS, promoting wound healing. The results show that PU‐MS offers considerable potential for various clinical applications, providing a new strategy for the development of advanced medical dressings.
Dual‐Network Hydrogel Loaded With ROS‐activated Hydrogen Sulfide Donor to Accelerate Wound Healing and Inhibit Scar Production
Authors: Ziqiang Zhou, Xuyang Ning, Wenlong Wei, Huangjie Lu, Haoyang Wen, Huiying Zeng, Yuan Chen, Jie Liu, Youfu Xie, Ping Hu
Journal: Advanced Healthcare Materials (2025)

Abstract The wound healing process consists of four continuous and overlapping stages‐hemostasis, inflammation, proliferation, and remodeling‐involving a variety of cells, growth factors, and the extracellular matrix. In recent years, growing evidence has shown that enhancing endogenous hydrogen sulfide (H 2 S) synthesis or providing exogenous H 2 S can promote angiogenesis, inhibit inflammation, reduce excessive oxidative stress, and support collagen deposition. However, the administration of exogenous H 2 S often presents challenges related to controlling its release duration and achieving targeted delivery. To achieve controlled and site‐specific delivery of H 2 S to the wound area, a dual‐network cross‐linked injectable hydrogel formed by grafted ε‐poly‐L‐lysine (designed as EG) and oxidized dextran (OD) (EGODF) loaded with a hydrogen sulfide donor (HSDF‐NH 2 ) to study its potential in wound healing is developed. The hydrogel exhibits excellent injectability, self‐healing capability, and mechanical strength. Upon reactive oxygen species (ROS) stimulation, HSDF‐NH 2 releases both self‐reporter fluorescence (HSDG‐NH 2 ) and H 2 S. Changes in the self‐reporter fluorescence signal reflect H 2 S production and its entry into the body to exert therapeutic effects. Finally, using a wound model and a hypertrophic scar repair model, it is demonstrated that EGODF hydrogel is effective in promoting wound healing and inhibiting scar production.
Four near-complete genome assemblies reveal the landscape and evolution of centromeres in Salicaceae
Authors: Yubo Wang, Lulu Zhao, Deyan Wang, Kai Chen, Tiannan Luo, Jianglin Luo, Chengzhi Jiang, Zhoujian He, Heng Huang, Jiaxiao Xie, Yuanzhong Jiang, Jianquan Liu, Tao Ma
Journal: Genome biology (2025)
Fabrication of Janus‐adhesion Multifunctional Hydrogel Based on β‐cyclodextrin for Wound Dressing
Authors: Juanli Shen, Shiyu Fu, Xiaohong Liu, Shenglong Tian, ZeDe Yi, Ying Wang
Journal: Advanced Healthcare Materials (2025)

Abstract Conventional wound dressings frequently face challenges of insufficient mechanical strength, inadequate adhesion, irregular drug release, and contamination from adherence to extraneous surfaces. These issues can lead to wound contamination and the risk of secondary injuries. In this work, a robust, thermoresponsive wound dressing is developed based on pH/thermal‐responsive supramolecular hydrogels, synthesized by integrating N‐isopropyl acrylamide, carboxymethyl cellulose, and β‐cyclodextrin‐grafted poly(acrylic acid). The novel finding is that the hydrogel exhibits a Janus‐like adhesion, wherein it adheres stably to the wound while losing adhesion to external environments resulting in reduced accumulation of impurities. The prepared hydrogels can self‐heal at low temperatures. It has antioxidant properties and excellent biocompatibility that can continuously and stably release active medicines. In vivo experiments in a rat model of full‐thickness skin wounds show that the hydrogels positively accelerate wound healing. The unique physicochemical properties and biological interactions of this multifunctional supramolecular hydrogel provide a promise for advancing wound management by modulating tissue adhesion.
Piezoelectric‐Triggered Ferroptosis for Cancer Therapy via Cascade‐Enhanced Immune Response
Authors: Huijuan Zheng, Huimin Lin, Yun Ke, Yawen Ma, Shengfang Ge, Fan Yang, Jing Ruan, Renbing Jia
Journal: Advanced Healthcare Materials (2025)

Abstract Eliciting ferroptotic cell death in tumors has enhanced prospects for cancer therapy because of its proinflammatory properties, which enable damage‐associated molecular pattern (DAMP) release and immune response activation. However, the immunogenicity of ferroptosis and how to controllably activate the self‐enhanced antitumor immune response by cellular ferroptosis require further investigation. In this study, a piezoelectric BaTiO 3 ‐based ferroptosis inducer (BTO@Fe) is synthesized for effective cancer immunotherapy. BTO@Fe induces moderate ferroptosis by introducing excess iron and catalyzing the Fenton reaction. When subjected to ultrasound (US) irradiation, the piezoelectrically excited electrons and holes are separated, further catalyzing reactive oxygen species (ROS) generation and glutathione (GSH) consumption and consequently causing intensified ferroptosis and immunogenic cell death (ICD). Moreover, activated CD8 + T cells respond to immune signals by releasing interferon gamma (IFNγ), which sensitizes tumor cells to ferroptosis in an intrinsic mechanism of ferroptosis initiation. The robust ferroptosis originating from exogenous piezocatalytic reactions and the endogenous immune responses demonstrates satisfactory in vitro and in vivo antitumor effects. This work suggests that doping‐engineered piezoelectric materials with augmented catalytic activity are promising countermeasures for restoring immunogenicity in ferroptotic cells.
Polyphenol Conductive Nanozyme‐Enhanced Redox Hydrogel Coupled with Vagus Nerve Electrical Stimulation for Diabetic Wound Repair
Authors: Jinhui Ran, Hao Xia, Chubao Liu, Zhiping Xie, Liwei Yan, Yue Hou, Xiaojing Liu, Xiaochuan Guo, Xiong Lu, Chaoming Xie
Journal: Advanced Healthcare Materials (2025)

Abstract Diabetic wound repair is complicated by excessive oxidative reactions, bacterial infection, and persistent inflammation. Nanozyme‐incorporated hydrogels have shown potential to facilitate diabetic wound repair. This study developed a polyphenol‐conductive nanozyme‐enhanced redox hydrogel composed of dopamine‐grafted fish gelatin, methacrylated silk fibroin, and dopamine‐mediated poly(3,4‐ethylenedioxythiophene) (PDA‐Fe‐PEDOT) conductive nanozymes. The PDA‐Fe‐PEDOT conductive nanozyme confers electrical conductivity to the hydrogel, enabling it to couple endogenous electrical signals at the wound site and transmit exogenous electrical signals to the wound. Additionally, the PDA‐Fe‐PEDOT nanozyme also imparts hydrogel peroxidase‐like activity, catalyzing hydrogen peroxide to generate hydroxyl radicals that effectively inhibit bacterial infection. The hydrogel also exhibits sustained antioxidant effects under exogenous electrical stimulation, reducing intracellular reactive oxygen species and protecting cells from oxidative stress. In vivo experiments demonstrated that vagus nerve electrical stimulation (VNS) regulates systemic inflammation, while the polyphenol‐conductive nanozyme‐enhanced redox hydrogel regulates local inflammation in diabetic wounds. The combination of polyphenol‐conductive nanozyme‐enhanced hydrogels and VNS synergistically promoted collagen deposition, angiogenesis, and nerve repair, leading to high‐quality wound healing in diabetic wounds, offering an innovative tissue repair strategy that integrates natural dressings with exogenous stimulation.