tbuckley/cabot-search huggingface dataset:
Recent Advances in Bacterium‐Based Therapeutic Modalities for Melanoma Treatment
Authors: Mubassir Khan, Yilong Dong, Razi Ullah, Menghuan Li, Qiping Huang, Yan Hu, Li Yang, Zhong Luo
Journal: Advanced Healthcare Materials (2024)

Melanoma is one of the most severe skin cancer indications with rapid progression and a high risk of metastasis. However, despite the accumulated advances in melanoma treatment including adjuvant radiation, chemotherapy, and immunotherapy, the overall melanoma treatment efficacy in the clinics is still not satisfactory. Interestingly, bacterial therapeutics have demonstrated unique properties for tumor-related therapeutic applications, such as tumor-targeted motility, tailorable cytotoxicity, and immunomodulatory capacity of the tumor microenvironment, which have emerged as a promising platform for melanoma therapy. Indeed, the recent advances in genetic engineering and nanotechnologies have boosted the application potential of bacterium-based therapeutics for treating melanoma by further enhancing their tumor-homing, cell-killing, drug delivery, and immunostimulatory capacities. This review provides a comprehensive summary of the state-of-the-art bacterium-based anti-melanoma modalities, which are categorized according to their unique functional merits, including tumor-specific cytotoxins, tumor-targeted drug delivery platforms, and immune-stimulatory agents. Furthermore, a perspective is provided discussing the potential challenges and breakthroughs in this area. The insights in this review may facilitate the development of more advanced bacterium-based therapeutic modalities for improved melanoma treatment efficacy.
Hierarchical Integration of Curcumin‐Loaded CaCO<sub>3</sub> Nanoparticles and Black Phosphorus Nanosheets in Core/Shell Nanofiber for Cranial Defect Repair
Authors: Yan Zheng, Lu Tan, Hang Chen, Shuohan He, Menghuan Li, Zhong Luo, Kaiyong Cai, Yan Hu
Journal: Advanced Healthcare Materials (2024)

Abstract Reconstruction and healing of large craniofacial bone defects are major clinical challenges due to high risk of chronic inflammation and reduced cell mineralization levels. Herein, a core‐shell nanofiber‐based implant with significant pro‐osteogenesis capability for treating skull defects is reported, which is hierarchically integrated with curcumin‐loaded calcium carbonate nanoparticles (CaCO 3 @Cur NPs) in the outer layers and black phosphorus nanosheets (BPNSs) in the core compartments. The radical alignment of the integrated nanocomponents allows the sequential in situ release of the therapeutic agents in a controlled manner after implantation. Curcumin can repolarize M1 macrophages into M2 phenotypes for anti‐inflammation purposes. Meanwhile, the released calcium and phosphate ions can promote the biomineralization of hydroxyapatite at the defect site and facilitate bone regeneration. Evaluations on cranial defect‐bearing rat models demonstrated that the electrospun fibers in the present study substantially promoted restoration of the damaged skulls and inhibited inflammation in the wound bed. This strategy provides a new idea for the treatment of skull defects in the clinic.
Correction: RNA m6A modification in ferroptosis: implications for advancing tumor immunotherapy
Authors: Jun-xiao Shi, Zhi-chao Zhang, Hao-zan Yin, Xian-jie Piao, Cheng-hu Liu, Qian-jia Liu, Jia-cheng Zhang, Wen-xuan Zhou, Fu-chen Liu, Fu Yang, Yue-fan Wang, Hui Liu
Journal: Molecular Cancer (2024)
NSGS mice humanized with cord blood mononuclear cells show sustained and functional myeloid–lymphoid representation with limited graft-versus-host disease
Authors: Carla Panisello, Rosario Aschero, Alba Martinez-Moreno, Heleia Roca Ho, Aida Falgas, Europa Azucena González-Navarro, Julieta Carabelli, Edwards Pradenas, María Lázaro-Díez, Julia G Prado, Julià Blanco, Jorge Carrillo, Manel Juan, Ángel M Carcaboso, Clara Bueno, Pablo Menendez
Journal: Journal for ImmunoTherapy of Cancer (2024)

Humanized immunodeficient mice serve as critical models for investigating the functional interplay between transplanted human cells and a pre-reconstituted human immune system. These models facilitate the study of molecular and cellular pathogenic mechanisms and enable the evaluation of the efficacy and toxicity of immunotherapies, thereby accelerating their preclinical and clinical development. Current strategies rely on inefficient, long-term/delayed hematopoietic reconstitution by CD34+ hematopoietic progenitors or short-term reconstitution with peripheral blood mononuclear cells (PB-MNCs) associated with high rates of graft-versus-host disease (GvHD) and an inefficient representation of immune cell populations. Here, we hypothesized that immunologically naïve cord blood mononuclear cells (CB-MNCs) could serve as a superior alternative, providing long-lasting and functionally effective immune reconstitution. We conducted a comprehensive comparison between the non-obese diabetic (NOD).Cg-Prkdc∧ˆscid-IL2rg∧ˆtm1Wjl/SzJ (NSG) and NSG-Tg(CMV-IL3,CSF2,KITLG)∧ˆ1Eav/MloySzJ (NSGS) immunodeficient mouse models following humanization with either PB-MNCs or CB-MNCs. We assessed the engraftment dynamics of various human immune cells over time and monitored the development of GvHD in both models. For the most promising model, we extensively evaluated immune cell functionality
EASIX-guided risk stratification for complications and outcome after CAR T-cell therapy with ide-cel in relapsed/refractory multiple myeloma
Authors: Jan H Frenking, Xiang Zhou, Vivien Wagner, Thomas Hielscher, Joseph Kauer, Elias K Mai, Mirco J Friedrich, Christian S Michel, Marina Hajiyianni, Iris Breitkreutz, Patrick Costello, Omar Nadeem, Niels Weinhold, Hartmut Goldschmidt, Anita Schmitt, Thomas Luft, Michael Schmitt, Carsten Müller-Tidow, Max Topp, Hermann Einsele, Peter Dreger, Nikhil C Munshi, Adam S Sperling, Leo Rasche, Sandra Sauer, Marc S Raab
Journal: Journal for ImmunoTherapy of Cancer (2024)

Chimeric antigen receptor (CAR) T-cell therapy has demonstrated significant benefits in the treatment of relapsed/refractory multiple myeloma (RRMM). However, these outcomes can be compromised by severe complications, including cytokine release syndrome, immune effector cell-associated neurotoxicity syndrome (ICANS) and immune effector cell-associated hematotoxicity (ICAHT), predisposing for life-threatening infections.
Disease-modifying therapies for Parkinson disease: lessons from multiple sclerosis
Authors: Lorraine V Kalia, Angelica Asis, Nathalie Arbour, Amit Bar-Or, Riley Bove, Daniel G Di Luca, Edward A Fon, Susan Fox, Ziv Gan-Or, Jennifer L Gommerman, Un Jung Kang, Eric C Klawiter, Marcus Koch, Shannon Kolind, Anthony E Lang, Karen K Lee, Matthew R Lincoln, Penny A MacDonald, Martin J McKeown, Tiago A Mestre, Veronique E Miron, Daniel Ontaneda, Maxime W C Rousseaux, Michael G Schlossmacher, Raphael Schneider, A Jon Stoessl, Jiwon Oh
Journal: Nature Reviews Neurology (2024)
IL-22 in <i>Mycobacterium leprae</i>-induced Nerve injury
Authors: Hanqing Geng, Fangfang Bao, Chuan Wang, Lele Sun, Xiaotong Xue, Hong Liu, Furen Zhang
Journal: British Journal of Dermatology (2024)

The neurotropism of Mycobacterium leprae is a unique characteristic that distinguishes it from other mycobacteria. However, the mechanism of peripheral nerve injury in leprosy is still unclear. In this study, immunohistochemistry and qPCR found that skin lesions from people with leprosy expressed IL-22 at a significantly higher rate than other mycobacterium-infected skin lesions, and that IL-22 was concentrated around the cutaneous nerves. Further investigation found that IL-22 is involved in leprosy by regulating neuroinflammation and promoting apoptosis via the JAK-STAT pathway.
Cost-effectiveness of a patient-reported outcome-based remote monitoring and alert intervention for early detection of critical recovery after joint replacement: A randomised controlled trial
Authors: Lukas Schöner, David Kuklinski, Laura Wittich, Viktoria Steinbeck, Benedikt Langenberger, Thorben Breitkreuz, Felix Compes, Mathias Kretzler, Ursula Marschall, Wolfgang Klauser, Mustafa Citak, Georg Matziolis, Daniel Schrednitzki, Kim Grasböck, Justus Vogel, Christoph Pross, Reinhard Busse, Alexander Geissler
Journal: PLoS Medicine (2024)

While the effectiveness of patient-reported outcome measures (PROMs) as an intervention to impact patient pathways has been established for cancer care, it is unknown for other indications. We assessed the cost-effectiveness of a PROM-based monitoring and alert intervention for early detection of critical recovery paths following hip and knee replacement.
Skin Bleaching: A Socio-ecological Perspective
Authors: Chinenye Lynette Ejezie, Sylvia Ayieko, Precious Chiamaka Anunobi, Olajumoke Ope Oladoyin, Sandrine Defeu, Nalini Ranjit
Journal: British Journal of Dermatology (2024)

Skin bleaching is a behaviour that is pervasive globally. The chemicals used for skin bleaching are harmful and result in several medical complications, including dermatitis, kidney failure, neuropathy and skin cancer. The socioecological model illustrates skin bleaching risk factors and potential prevention strategies.
The TRPC5 receptor as pharmacological target for pain and metabolic disease
Authors: Pragyanshu Khare, Jagdish Chand, Alexandra Ptakova, Renato Liguori, Fulvia Ferrazzi, Mahendra Bishnoi, Viktorie Vlachova, Katharina Zimmermann
Journal: Pharmacology & Therapeutics (2024)

The transient receptor potential canonical (TRPC) channels are a group of highly homologous nonselective cation channels from the larger TRP channel family. They have the ability to form homo- and heteromers with varying degrees of calcium (Ca
Intestinal fungal-host interactions in promoting and maintaining health
Authors: Jennifer H. Hill, June L. Round
Journal: Cell Host & Microbe (2024)

The resident microbiota are a key component of a healthy organism. The vast majority of microbiome studies have focused on bacterial members, which constitute a significant portion of resident microbial biomass. Recent studies have demonstrated how the fungal component of the microbiota, or the mycobiome, influences mammalian biology despite its low abundance compared to other microbes. Fungi are known for their pathogenic potential, yet fungi are also prominent colonizers in healthy states, highlighting their duality. We summarize the characteristics that define the gut mycobiome across life, the factors that can impact its composition, and studies that identify mechanisms of how fungi confer health benefits. The goal of this review is to synthesize our knowledge regarding the composition and function of a healthy mycobiome with a view to inspiring future therapeutic advances.
Targeting KLF2 as a Novel Therapy for Glomerular Endothelial Cell Injury in Diabetic Kidney Disease
Authors: Lulin Min, Yixin Chen, Ruijie Liu, Zhengzhe Li, Leyi Gu, Sandeep Mallipattu, Bhaskar Das, Kyung Lee, John Cijiang He, Fang Zhong
Journal: Journal of the American Society of Nephrology (2024)

DKD is a microvascular disease, and glomerular endothelial cell injury is a key pathological event in DKD development. Through unbiased screening of glomerular transcriptomes, we previously identified KLF2 as a highly regulated gene in diabetic kidneys. KLF2 exhibits protective effects in endothelial cells by inhibiting inflammation, thrombotic activation, and angiogenesis, all of which are protective for cardiovascular disease. We previously demonstrated that endothelial cell-specific ablation of Klf2 exacerbated diabetes-induced glomerular endothelial cell injury and DKD in mice. Therefore in this study, we sought to assess the therapeutic potential of KLF2 activation in murine models of DKD.
RFMiD: Retinal Image Analysis for multi-Disease Detection challenge
Authors: Samiksha Pachade, Prasanna Porwal, Manesh Kokare, Girish Deshmukh, Vivek Sahasrabuddhe, Zhengbo Luo, Feng Han, Zitang Sun, Li Qihan, Sei-Ichiro Kamata, Edward Ho, Edward Wang, Asaanth Sivajohan, Saerom Youn, Kevin Lane, Jin Chun, Xinliang Wang, Yunchao Gu, Sixu Lu, Young-Tack Oh, Hyunjin Park, Chia-Yen Lee, Hung Yeh, Kai-Wen Cheng, Haoyu Wang, Jin Ye, Junjun He, Lixu Gu, Dominik Müller, Iñaki Soto-Rey, Frank Kramer, Hidehisa Arai, Yuma Ochi, Takami Okada, Luca Giancardo, Gwenolé Quellec, Fabrice Mériaudeau
Journal: Medical Image Analysis (2024)
Self-Supervised Learning for Feature Extraction from Glomerular Images and Disease Classification with Minimal Annotations
Authors: Masatoshi Abe, Hirohiko Niioka, Ayumi Matsumoto, Yusuke Katsuma, Atsuhiro Imai, Hiroki Okushima, Shingo Ozaki, Naohiko Fujii, Kazumasa Oka, Yusuke Sakaguchi, Kazunori Inoue, Yoshitaka Isaka, Isao Matsui
Journal: Journal of the American Society of Nephrology (2024)

Deep learning has great potential in digital kidney pathology. However, its effectiveness depends heavily on the availability of extensively labeled datasets, which are often limited due to the specialized knowledge and time required for their creation. This limitation hinders the widespread application of deep learning for the analysis of kidney biopsy images. We applied self-distillation with no labels (DINO), a self-supervised learning method, to a dataset of 10,423 glomerular images obtained from 384 PAS-stained kidney biopsy slides. Glomerular features extracted from the DINO-pretrained backbone were visualized using principal component analysis (PCA). We then performed classification tasks by adding either k-nearest neighbor (kNN) classifiers or linear head layers to the DINO-pretrained or ImageNet-pretrained backbones. These models were trained on our labeled classification dataset. Performance was evaluated using metrics such as the area under the receiver operating characteristic curve (ROC-AUC). The classification tasks encompassed four disease categories (minimal change disease, mesangial proliferative glomerulonephritis, membranous nephropathy, and diabetic nephropathy) as well as clinical parameters such as hypertension, proteinuria, and hematuria. PCA visualization revealed distinct principal components corresponding to different glomerular structures, demonstrating the capability of the DINO-pretrained backbone to capture morphological features. In disease classification, the DINO-pretrained transferred model (ROC-AUC = 0.93) outperformed the ImageNet-pretrained fine-tuned model (ROC-AUC = 0.89). When the labeled data were limited, the ImageNet-pretrained fine-tuned model's ROC-AUC dropped to 0.76 (95% confidence interval [CI], 0.72-0.80), whereas the DINO-pretrained transferred model maintained superior performance (ROC-AUC 0.88, 95% CI 0.86-0.90). The DINO-pretrained transferred model also exhibited higher AUCs for the classification of several clinical parameters. External validation using two independent datasets confirmed DINO pre-training's superiority, particularly when labeled data were limited. The application of DINO to unlabeled PAS-stained glomerular images facilitated the extraction of histological features that can be effectively utilized for disease classification.
Autoantibodies Targeting Proteasome Subunit Alpha Type 1 in Autoimmune Podocytopathies
Authors: Huihui Liu, Chao Zhou, Dongjie Wang, Hanyan Meng, Shifan Zhu, Jiayu Zhang, Jianhua Mao, Qing Ye
Journal: Journal of the American Society of Nephrology (2024)

The antibody against proteasome subunit alpha type 1 (PSMA1) is a podocyte autoantibody in idiopathic nephrotic syndrome (INS) children identified in our previous study. The aim of this study was to explore the characteristics of INS in children and the mechanism underlying its involvement in the development of INS.
Phase I/II study of BMS-986156 with ipilimumab or nivolumab with or without stereotactic ablative radiotherapy in patients with advanced solid malignancies
Authors: Joe Y Chang, Xinyan Xu, Girish S Shroff, Nathan I Comeaux, Wei Li, Jordi Rodon Ahnert, Daniel D Karp, Ecaterina E Dumbrava, Vivek Verma, Aileen Chen, James Welsh, David S Hong
Journal: Journal for ImmunoTherapy of Cancer (2024)

BMS-986156 is an agonist of the glucocorticoid-induced tumor necrosis factor receptor (TNFR)-related protein (GITR) and promotes increased effector T-cell activation. Combined anti-GITR, anti-programmed death-1, anti-cytotoxic T-lymphocyte-associated protein 4 antibodies and radiotherapy improve tumor control in preclinical studies. Herein we describe the results of the safety and efficacy of BMS-986156+ipilimumab or nivolumab with/without stereotactic ablative radiotherapy (SABR) in patients with advanced solid cancers (NCT04021043).
Association of Neuromelanin-Sensitive MRI Signal With Lifetime Substance Use in Young Women
Authors: Greg Perlman, Kenneth Wengler, Scott J. Moeller, Roman Kotov, Daniel N. Klein, Jodi J. Weinstein, Guillermo Horga, Anissa Abi-Dargham
Journal: American Journal of Psychiatry (2024)

Midbrain dopamine function plays a key role in translational models of substance use disorders. Whether midbrain dopamine function is associated with substance use frequency and severity or reward function in 20-24 year-olds remains a critical gap in knowledge. The authors collected neuromelanin-sensitive magnetic resonance imaging (NM-MRI), a validated index of lifetime dopamine function in the substantia nigra/ventral tegmentum area (SN-VTA) complex, to characterize altered dopamine function.
Identifying Genetically Inferred Effects Linking Posttraumatic Stress Disorder to Women’s Health, Lipid Disorders, and Malaria Medications
Authors: Gita A. Pathak, Frank R. Wendt, Adam X. Maihofer, Kerry J. Ressler, Murray B. Stein, Karestan C. Koenen, Caroline M. Nievergelt, Renato Polimanti
Journal: American Journal of Psychiatry (2024)
HDAC inhibitor SAHA enhances antitumor immunity via the HDAC1/JAK1/FGL1 axis in lung adenocarcinoma
Authors: Tingting Xu, Yuan Fang, Yunru Gu, Duo Xu, Tong Hu, Tao Yu, Yang-Yue Xu, Hao-Yang Shen, Pei Ma, Yongqian Shu
Journal: Journal for ImmunoTherapy of Cancer (2024)

Histone deacetylase (HDAC), a kind of protease that regulates gene expression by modifying protein acetylation levels, is usually aberrantly activated in tumors. The approved pan-HDAC inhibitors (HDACi) have exhibited clinical benefits for hematopoietic malignancies. Recently, HDACis have emerged as enhancers of antitumor immunity. However, the effect of HDACs on the tumor immune microenvironment of lung adenocarcinoma (LUAD) and the underlying mechanism is largely unknown.
Peristomal Erosion in a Man With Crohn Disease
Authors: Valentina Caputo, Paolo Romanelli, Franco Rongioletti
Journal: JAMA Dermatology (2024)

A man in his 50s with a 10-year history of Crohn disease had intermittent bowel obstructions leading to total proctocolectomy and ileostomy, and 5 weeks after surgery he developed a painful, erosive lesion around his stoma on the anterior abdominal wall. What is your diagnosis?
Genetic Susceptibility to Hidradenitis Suppurativa and Predisposition to Cardiometabolic Disease
Authors: Valdemar Wendelboe Nielsen, Oliver Bundgaard Vad, Nikolaj Holgersen, Christian Paludan-Müller, Laia Meseguer Monfort, Astrid Filt Beyer, Gregor Borut Ernst Jemec, Rune Kjærsgaard Andersen, Alexander Egeberg, Jacob P. Thyssen, Jesper Hastrup Svendsen, Nana Aviaaja Lippert Rosenø, Peter Riis Hansen, Simon Francis Thomsen, Morten Salling Olesen
Journal: JAMA Dermatology (2024)

Hidradenitis suppurativa (HS) is associated with an increased prevalence of cardiovascular diseases compared with the general population. Any association between polygenic risk for HS, risk of incident cardiometabolic outcomes, and the plasma proteome is unclear.
Risk-Specific Training Cohorts to Address Class Imbalance in Surgical Risk Prediction
Authors: Jeremy A. Balch, Matthew M. Ruppert, Ziyuan Guan, Timothy R. Buchanan, Kenneth L. Abbott, Benjamin Shickel, Azra Bihorac, Muxuan Liang, Gilbert R. Upchurch, Christopher J. Tignanelli, Tyler J. Loftus
Journal: JAMA Surgery (2024)

Machine learning tools are increasingly deployed for risk prediction and clinical decision support in surgery. Class imbalance adversely impacts predictive performance, especially for low-incidence complications.
Relative, Absolute, and Excess Risk of Second Primary Melanomas Among Multiple Racial and Ethnic Groups—Analysis of Rare Events
Authors: Mya L. Roberson, Ivo Abraham
Journal: JAMA Dermatology (2024)

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Baked milk diet is associated with improved quality of life and growth parameters in milk‐allergic children
Authors: Lydia Su Yin Wong, Marion Groetch, Henry T. Bahnson, Elizabeth Strong, Anna Nowak‐Wegrzyn, Hugh A. Sampson
Journal: Allergy (2024)

The data that support the findings of this study are available from the corresponding author upon reasonable request. Figure S1. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
The loach haplotype-resolved genome and the identification of Mex3a involved in fish air breathing
Authors: Bing Sun, Qingshan Li, Xinxin Xiao, Jianwei Zhang, Ying Zhou, Yuwei Huang, Jian Gao, Xiaojuan Cao
Journal: Cell Genomics (2024)

Fish air breathing is crucial for the transition of vertebrates from water to land. So far, the genes involved in fish air breathing have not been well identified. Here, we performed gene enrichment analysis of positively selected genes (PSGs) in loach (Misgurnus anguillicaudatus, an air-breathing fish) in comparison to Triplophysa tibetana (a non-air-breathing fish), haplotype-resolved genome assembly of the loach, and gene evolutionary analysis of air-breathing and non-air-breathing fishes and found that the PSG mex3a originated from ancient air-breathing fish species. Deletion of Mex3a impaired loach air-breathing capacity by inhibiting angiogenesis through its interaction with T-box transcription factor 20. Mex3a overexpression significantly promoted angiogenesis. Structural analysis and point mutation revealed the critical role of the 201st amino acid in loach Mex3a for angiogenesis. Our findings innovatively indicate that the ancient mex3a is a fish air-breathing gene, which holds significance for understanding fish air breathing and provides a valuable resource for cultivating hypoxia-tolerant fish varieties.
A genome-wide association study of neonatal metabolites
Authors: Quanze He, Hankui Liu, Lu Lu, Qin Zhang, Qi Wang, Benjing Wang, Xiaojuan Wu, Liping Guan, Jun Mao, Ying Xue, Chunhua Zhang, Xinye Cao, Yuxing He, Xiangwen Peng, Huanhuan Peng, Kangrong Zhao, Hong Li, Xin Jin, Lijian Zhao, Jianguo Zhang, Ting Wang
Journal: Cell Genomics (2024)
Utilizing non-invasive prenatal test sequencing data for human genetic investigation
Authors: Siyang Liu, Yanhong Liu, Yuqin Gu, Xingchen Lin, Huanhuan Zhu, Hankui Liu, Zhe Xu, Shiyao Cheng, Xianmei Lan, Linxuan Li, Mingxi Huang, Hao Li, Rasmus Nielsen, Robert W Davies, Anders Albrechtsen, Guo-Bo Chen, Xiu Qiu, Xin Jin, Shujia Huang
Journal: Cell Genomics (2024)