tbuckley/cabot-search huggingface dataset:
How international organizations can support the development of cardio-oncology in the Latin American and the Caribbean region
Authors: Amalia Peix, Manuel Bazan, Jorge E Aguiar, Jesus Sanchez, Enrique Estrada, Aurelio Mendoza, Diana Paez
Journal:  (2024)

Abstract Health problems in the Latin American and the Caribbean (LAC) region are highly concentrated on non-communicable diseases, being cardiovascular diseases (CVDs) and cancer the leading causes of death. Different countries of the region are at different stages of development in addressing CVDs and cancer. Opportunities for training and continuing education in cardio-oncology, as well as active cardio-oncology groups, are primarily limited to large academic institutions in major metropolitan areas. In addition, the development of advanced imaging modalities in LAC faces challenges such as the high cost of equipment, a lack of equipment maintenance and service, as well as insufficient specific training for both imaging specialists and referring clinicians. To contribute to the implementation of actionable strategies ensuring equitable access to care for all, international organizations, such as the International Atomic Energy Agency (IAEA), offer support for the regional development of health projects that address educational needs. In this context, a new IAEA regional cooperation project for LAC titled ‘Strengthening of regional capacities on the use of Nuclear Medicine techniques in a Cardio-oncology multimodality approach in patients with cancer’ will be developed during 2024–2025. The experience of some centres, as well as national experiences in certain countries of the region, that have been previously involved in other regional projects, can be leveraged for the benefit of the entire region. We present a proposed road map for cross-institutional/countries collaboration in the development of cardio-oncology in the LAC region, contributing to decreasing the barriers to the growth of the subspecialty.
Adaptive evolution of <i>Pseudomonas aeruginosa</i> in human airways shows phenotypic convergence despite diverse patterns of genomic changes
Authors: Akbar Espaillat, Claudia Antonella Colque, Daniela Rago, Ruggero La Rosa, Søren Molin, Helle Krogh Johansen
Journal: Molecular Biology and Evolution (2024)

Abstract Selective forces in the environment drive bacterial adaptation to novel niches, choosing the fitter variants in the population. However, in dynamic and changing environments, the evolutionary processes controlling bacterial adaptation are difficult to monitor. Here, we follow 9 people with cystic fibrosis chronically infected with Pseudomonas aeruginosa, as a proxy for bacterial adaptation. We identify and describe the bacterial changes and evolution occurring between 15 and 35 yr of within-host evolution. We combine whole-genome sequencing, RNA sequencing, and metabolomics and compare the evolutionary trajectories directed by the adaptation of 4 different P. aeruginosa lineages to the lung. Our data suggest divergent evolution at the genomic level for most of the genes, with signs of convergent evolution with respect to the acquisition of mutations in regulatory genes, which drive the transcriptional and metabolomic program at late time of evolution. Metabolomics further confirmed convergent adaptive phenotypic evolution as documented by the reduction of the quorum-sensing molecules acyl-homoserine lactone, phenazines, and rhamnolipids (except for quinolones). The modulation of the quorum-sensing repertoire suggests that similar selective forces characterize at late times of evolution independent of the patient. Collectively, our data suggest that similar environments and similar P. aeruginosa populations in the patients at prolonged time of infection are associated with an overall reduction of virulence-associated features and phenotypic convergence.
Postinduction molecular MRD identifies patients with <i>NPM1</i> AML who benefit from allogeneic transplant in first remission
Authors: Jad Othman, Nicola Potter, Adam Ivey, Jelena Jovanovic, Manohursingh Runglall, Sylvie D. Freeman, Amanda Gilkes, Ian Thomas, Sean Johnson, Joanna Canham, Jamie Cavenagh, Panagiotis Kottaridis, Claire Arnold, Hans Beier Ommen, Ulrik Malthe Overgaard, Mike Dennis, Alan Burnett, Charlotte Wilhelm-Benartzi, Richard Dillon, Nigel H. Russell
Journal: Blood (2024)
Feasibility of daily pain measurement using text messages in hidradenitis suppurativa clinical trials; data from the THESEUS study
Authors: Samar B Hasan, Janine Bates, Rebecca Cannings-John, Fiona Collier, Judith Evans, Angela Gibbons, Ceri Harris, Laura Howells, Kerenza Hood, Rachel Howes, Paul Leighton, Muhammad Riaz, Jeremy Rodrigues, Helen Stanton, Kim S Thomas, Emma Thomas-Jones, John R Ingram
Journal: British Journal of Dermatology (2024)

Treatment of Hidradenitis Suppurativa Evaluation Study (THESEUS) was an observational study involving 10 centres in the UK and one of its objectives was to optimize the outcome measure instruments for use in future hidradenitis suppurativa trials. Part of the study included sending daily text messages to patients for 12 weeks once the intervention had been started. Our study showed that the response rates to the text messages were 70%, 60%, 55% and 20% after 2, 4, 8 and 12 weeks, respectively.
Susceptible Young Adults and Development of COPD Later in Life
Authors: Yunus Çolak, Peter Lange, Jørgen Vestbo, Børge G Nordestgaard, Shoaib Afzal
Journal: American Journal of Respiratory and Critical Care Medicine (2024)

Rationale: Chronic obstructive pulmonary disease (COPD) has its origin in early life, and the Global Initiative for Chronic Obstructive Lung Disease (GOLD) proposes a pre-disease state "pre-COPD". Objective: We tested the hypothesis that susceptible young adults identified with chronic bronchitis and subtle lung function impairment will develop COPD later in life. Methods: We followed random non-obstructive individuals aged 20-50years from two population-based cohorts from different smoking eras, the Copenhagen General Population Study from 2003(N=5497) and Copenhagen City Heart Study from 1976-78(N=2609), for 10 and 25years for development of COPD(forced expiratory volume in one second[FEV1]/forced vital capacity[FVC]<0.70) and COPD GOLD 2-4 (additionally FEV1<80% predicted). Measurements and Main Results: After 10 years follow-up, 28% developed COPD and 13% COPD GOLD 2-4 in individuals susceptible to COPD compared to 8% and 1% in those without any susceptibility to COPD. Correspondingly, after 25years, 22% versus 13% developed COPD and 20% versus 8% developed COPD GOLD 2-4. More than half of incident COPD cases developed from a susceptible state. Compared to those without susceptibility to COPD, multivariable adjusted odds ratios in those susceptible to COPD were 3.42(95% confidence interval:2.78-4.21) for COPD and 10.1(6.77-15.2) for COPD GOLD 2-4 after 10years, and 1.54(1.23-1.93) and 2.12(1.64-2.73) after 25years. The ability of a COPD risk score consisting of the susceptibility state to COPD with smoking and asthma as risk factors to predict COPD later in life was high. Conclusions: Our study suggests the existence of a pre-disease state of COPD, which can be used for early identification of susceptible individuals at risk for COPD later in life.
Romidepsin Plus Cyclophosphamide, Doxorubicin, Vincristine, and Prednisone Versus Cyclophosphamide, Doxorubicin, Vincristine, and Prednisone in Patients With Previously Untreated Peripheral T-Cell Lymphoma: Final Analysis of the Ro-CHOP Trial
Authors: Vincent Camus, Catherine Thieblemont, Philippe Gaulard, Morgane Cheminant, Rene-Olivier Casasnovas, Loïc Ysebaert, Gandhi Laurent Damaj, Stéphanie Guidez, Gian Matteo Pica, Won Seog Kim, Soon Thye Lim, Marc Andre, Norma Gutiérrez, Maria Jesus Penarrubia, Philipp B. Staber, Judith Trotman, Andreas Hüttmann, Vittorio Stefoni, Alessandra Tucci, Patrick Fogarty, Hassan Farhat, Julie Abraham, Wajed Abarah, Fatiha Belmecheri, Vincent Ribrag, Marie-Helene Delfau-Larue, Anne-Ségolène Cottereau, Emmanuel Itti, Ju Li, Richard Delarue, Laurence de Leval, Franck Morschhauser, Emmanuel Bachy
Journal: Journal of Clinical Oncology (2024)

JCO
Reply to: Z-Scores or Fixed Cut-Off Values to Interpret Oscillometry: Opportunities from the LEAD Study
Authors: Chiara Veneroni, Christoph Valach, Emiel F. M. Wouters, Alessandro Gobbi, Raffaele L. Dellacà, Marie-Kathrin Breyer, Sylvia Hartl, Owat Sunanta, Charles G. Irvin, Caspar Schiffers, Pasquale Pio Pompilio, Robab Breyer-Kohansal
Journal: American Journal of Respiratory and Critical Care Medicine (2024)

"Reply to: Z-Scores or Fixed Cut-Off Values to Interpret Oscillometry: Opportunities from the LEAD Study." American Journal of Respiratory and Critical Care Medicine, 0(ja), pp.
Association Between Celiac Disease and Irritable Bowel Syndrome: A Nationwide Cohort Study
Authors: Karl Mårild, Jonas Söderling, Benjamin Lebwohl, Peter H.R. Green, Hans Törnblom, Magnus Simrén, Kyle Staller, Ola Olén, Jonas F. Ludvigsson
Journal: Clinical Gastroenterology and Hepatology (2024)

enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record.
People living with HIV who have poor immune status are a key population for SARS-CoV-2 prevention
Authors: Jie Zhou, Liuyan Lan, Sufang Ai,, Jianyan Lin, Ningmei Liu, Yulan Xie, Ping Cui, Hao Liang, Li Ye, Jiegang Huang, Zhiman Xie
Journal: Journal of Infection (2024)

In this Journal, Meredith Leston and colleagues reviewed the disparities in COVID-19 mortality amongst the immunosuppressed, and suggested People living with HIV (PLWH) (pooled OR:1.20, 95%CI:1.05-1.36) had just slightly higher risks than the immunocompetent people1. We further analyzed the expression levels of SARS-CoV-2 antibodies IgG and IgM in 184 PLWH after receiving the SARS-CoV-2 vaccine, as well as the influencing factors, in order to more meaningfully subdivide the COVID-19 prevention population.
The role and mechanism of RNA-binding proteins in bone metabolism and osteoporosis
Authors: Jiaqiang Wu, Liyan Niu, Kangping Yang, Jingdong Xu, Deju Zhang, Jitao Ling, Panpan Xia, Yuting Wu, Xiao Liu, Jianping Liu, Jing Zhang, Peng Yu
Journal: Ageing Research Reviews (2024)
Epigenetic regulations of cellular senescence in osteoporosis
Authors: Shaochuan Huo, Xinzheng Tang, Weijian Chen, Donghao Gan, Hai Guo, Qing Yao, Rongdong Liao, Tingting Huang, Junxian Wu, Junxing Yang, Guozhi Xiao, Xia Han
Journal: Ageing Research Reviews (2024)
Efficacy of deprescribing on health outcomes: An umbrella review of systematic reviews with meta-analysis of randomized controlled trials
Authors: Nicola Veronese, Umberto Gallo, Virginia Boccardi, Jacopo Demurtas, Alberto Michielon, Xhoajda Taci, Giulia Zanchetta, Sophia Elizabeth Campbell Davis, Marco Chiumente, Francesca Venturini, Alberto Pilotto
Journal: Ageing Research Reviews (2024)

Deprescribing is an important intervention across different settings in medicine, but the literature supporting such a practice is still conflicting. Therefore, we aimed to capture the breadth of outcomes reported and assess the strength of evidence of the use of deprescribing for health outcomes. Umbrella review of systematic reviews of the use of deprescribing searching in Medline, Scopus, and Web of Science until 01 November 2023. The grading of evidence was carried out using the GRADE for intervention studies, whilst data regarding systematic reviews were reported as narrative findings. Among 456 papers, 12 systematic reviews (six with meta-analysis) for a total of 231 RCTs and 44,193 patients were included. In any setting, deprescribing was able to significantly reduce the number of total and of potentially inappropriate medications (PIMs) in older patients (low certainty of evidence) and to reduce the proportion of participants potentially having several or PIMs (moderate certainty of evidence). In community, supported by a high certainty of evidence, deprescribing was not more effective than standard care in decreasing injurious falls, any falls or number of fallers. In nursing home, deprescribing was associated with a significantly lower PIMs than standard care (very low certainty of evidence). In end-of-life situations, deprescribing significantly reduced mortality rate of approximately 41% (high certainty of evidence). Deprescribing is a promising intervention across different settings and situations, but a notable gap in the literature concerning its effects on substantial outcomes still exists.
Molecular insights into the adaptive evolution of SARS-CoV-2 spike protein
Authors: Zhuocheng Yao, Lin Zhang, Yuange Duan, Xiaolu Tang, Jian Lu
Journal: Journal of Infection (2024)

The COVID-19 pandemic, caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), has substantially damaged the global economy and human health. The spike (S) protein of coronaviruses plays a pivotal role in viral entry by binding to host cell receptors. Additionally, it acts as the primary target for neutralizing antibodies in those infected and is the central focus for currently utilized or researched vaccines. During the virus's adaptation to the human host, the S protein of SARS-CoV-2 has undergone significant evolution. As the COVID-19 pandemic has unfolded, new mutations have arisen and vanished, giving rise to distinctive amino acid profiles within variant of concern strains of SARS-CoV-2. Notably, many of these changes in the S protein have been positively selected, leading to substantial alterations in viral characteristics, such as heightened transmissibility and immune evasion capabilities. This review aims to provide an overview of our current understanding of the structural implications associated with key amino acid changes in the S protein of SARS-CoV-2. These research findings shed light on the intricate and dynamic nature of viral evolution, underscoring the importance of continuous monitoring and analysis of viral genomes. Through these molecular-level investigations, we can attain deeper insights into the virus's adaptive evolution, offering valuable guidance for designing vaccines and developing antiviral drugs to combat the ever-evolving viral threats.
Sphingolipid metabolism controls mammalian heart regeneration
Authors: Xiaoqian Ji, Zihao Chen, Qiyuan Wang, Bin Li, Yan Wei, Yun Li, Jianqing Lin, Weisheng Cheng, Yijie Guo, Shilin Wu, Longkun Mao, Yuzhou Xiang, Tian Lan, Shanshan Gu, Meng Wei, Joe Z. Zhang, Lan Jiang, Jia Wang, Jin Xu, Nan Cao
Journal: Cell Metabolism (2024)
Donor-recipient intermicrobial interactions impact transfer of subspecies and fecal microbiota transplantation outcome
Authors: Qiyi Chen, Chunyan Wu, Jinfeng Xu, Chen Ye, Xiang Chen, Hongliang Tian, Naixin Zong, Shaoyi Zhang, Long Li, Yuan Gao, Di Zhao, Xiaoqiong Lv, Qilin Yang, Le Wang, Jiaqu Cui, Zhiliang Lin, Jubao Lu, Rong Yang, Fang Yin, Nan Qin, Ning Li, Qian Xu, Huanlong Qin
Journal: Cell Host & Microbe (2024)
Opening avenues for treatment of neurodegenerative disease using post-biotics: Breakthroughs and bottlenecks in clinical translation
Authors: Bushra Bashir, Shahbaz Alam, Nikhil Khandale, Devendra Birla, Sukriti Vishwas, Narendra Kumar Pandey, Gaurav Gupta, Keshav Raj Paudel, Harish Dureja, Puneet Kumar, Thakur Gurjeet Singh, Gowthamarajan Kuppusamy, Flavia C. Zacconi, Terezinha de Jesus Andreoli Pinto, Muralikrishnan Dhanasekaran, Monica Gulati, Kamal Dua, Sachin Kumar Singh
Journal: Ageing Research Reviews (2024)
Pluripotent stem cell-derived models of retinal disease: Elucidating pathogenesis, evaluating novel treatments, and estimating toxicity
Authors: Marzena Kurzawa-Akanbi, Nikolaos Tzoumas, Julio C. Corral-Serrano, Rosellina Guarascio, David H. Steel, Michael E. Cheetham, Lyle Armstrong, Majlinda Lako
Journal: Progress in Retinal and Eye Research (2024)

Blindness poses a growing global challenge, with approximately 26% of cases attributed to degenerative retinal diseases. While gene therapy, optogenetic tools, photosensitive switches, and retinal prostheses offer hope for vision restoration, these high-cost therapies will benefit few patients. Understanding retinal diseases is therefore key to advance effective treatments, requiring in vitro models replicating pathology and allowing quantitative assessments for drug discovery. Pluripotent stem cells (PSCs) provide a unique solution given their limitless supply and ability to differentiate into light-responsive retinal tissues encompassing all cell types. This review focuses on the history and current state of photoreceptor and retinal pigment epithelium (RPE) cell generation from PSCs. We explore the applications of this technology in disease modelling, experimental therapy testing, biomarker identification, and toxicity studies. We consider challenges in scalability, standardisation, and reproducibility, and stress the importance of incorporating vasculature and immune cells into retinal organoids. We advocate for high-throughput automation in data acquisition and analyses and underscore the value of advanced micro-physiological systems that fully capture the interactions between the neural retina, RPE, and choriocapillaris.
The Density of Regulatory Information Is a Major Determinant of Evolutionary Constraint on Noncoding DNA in <i>Drosophila</i>
Authors: Gonzalo Sabarís, Daniela M Ortíz, Ian Laiker, Ignacio Mayansky, Sujay Naik, Giacomo Cavalli, David L Stern, Ella Preger-Ben Noon, Nicolás Frankel
Journal: Molecular Biology and Evolution (2024)

Abstract Evolutionary analyses have estimated that ∼60% of nucleotides in intergenic regions of the Drosophila melanogaster genome are functionally relevant, suggesting that regulatory information may be encoded more densely in intergenic regions than has been revealed by most functional dissections of regulatory DNA. Here, we approached this issue through a functional dissection of the regulatory region of the gene shavenbaby (svb). Most of the ∼90 kb of this large regulatory region is highly conserved in the genus Drosophila, though characterized enhancers occupy a small fraction of this region. By analyzing the regulation of svb in different contexts of Drosophila development, we found that the regulatory information that drives svb expression in the abdominal pupal epidermis is organized in a different way than the elements that drive svb expression in the embryonic epidermis. While in the embryonic epidermis svb is activated by compact enhancers separated by large inactive DNA regions, svb expression in the pupal epidermis is driven by regulatory information distributed over broader regions of svb cis-regulatory DNA. In the same vein, we observed that other developmental genes also display a dense distribution of putative regulatory elements in their regulatory regions. Furthermore, we found that a large percentage of conserved noncoding DNA of the Drosophila genome is contained within regions of open chromatin. These results suggest that part of the evolutionary constraint on noncoding DNA of Drosophila is explained by the density of regulatory information, which may be greater than previously appreciated.
Correction: Collusion of α-Synuclein and Aβ aggravating co-morbidities in a novel prion-type mouse model
Authors: Grace M. Lloyd, Jess-Karan S. Dhillon, Kimberly-Marie M. Gorion, Cara Riffe, Susan E. Fromholt, Yuxing Xia, Benoit I. Giasson, David R. Borchelt
Journal: Molecular Neurodegeneration (2024)

The authors wish to correct an error in Fig. 7A of the original article [1].We have determined that the representative image of a hemibrain shown for 10 month-old, PBS-injected, nontransgenic (nTg) mice in panel A is incorrect.Due to a labeling error of the digital file name, the brain image shown was actually from a 10 month-old, PBS-injected, wild-type αSyn (M20) animal.The corrected panel for Fig. 7A is provided in the figure shown below.It is imperative to emphasize that this correction does not alter the conclusions presented in the paper.None of the 10 month-old nTg or M20 mice injected with PBS exhibited appreciable pathology.
Editor's Note: Delivery of Telomerase Reverse Transcriptase Small Interfering RNA in Complex with Positively Charged Single-Walled Carbon Nanotubes Suppresses Tumor Growth
Authors: Zhuohan Zhang, Xiaoying Yang, Yuan Zhang, Bin Zeng, Shujing Wang, Tianhui Zhu, Richard B.S. Roden, Yongsheng Chen, Rongcun Yang
Journal: Clinical Cancer Research (2024)

to concerns about this article (1): in Fig. 2A, the same micrograph was used to represent both the control and LLC cells treated with siRNA, and the figure legend for Fig. 2 did not clarify that the same micrograph was used to represent LLC cells
An Industry-Relevant Metal Mixture, Iron Status, and Reported Attention-Related Behaviors in Italian Adolescents
Authors: Samantha Schildroth, Katarzyna Kordas, Roberta F. White, Alexa Friedman, Donatella Placidi, Donald Smith, Roberto G. Lucchini, Robert O. Wright, Megan Horton, Birgit Claus Henn
Journal: Environmental Health Perspectives (2024)

Exposure to environmental metals has been consistently associated with attention and behavioral deficits in children, and these associations may be modified by coexposure to other metals or iron (Fe) status. However, few studies have investigated Fe status as a modifier of a metal mixture, particularly with respect to attention-related behaviors.
Restoration of blood vessel regeneration in the era of combination SGLT2i and GLP-1RA therapy for diabetes and obesity
Authors: Daniella C Terenzi, Ehab Bakbak, Hwee Teoh, Aishwarya Krishnaraj, Pankaj Puar, Ori D Rotstein, Francesco Cosentino, Ronald M Goldenberg, Subodh Verma, David A Hess
Journal: Cardiovascular Research (2023)

Abstract Ischaemic cardiovascular diseases, including peripheral and coronary artery disease, myocardial infarction, and stroke, remain major comorbidities for individuals with type 2 diabetes (T2D) and obesity. During cardiometabolic chronic disease (CMCD), hyperglycaemia and excess adiposity elevate oxidative stress and promote endothelial damage, alongside an imbalance in circulating pro-vascular progenitor cells that mediate vascular repair. Individuals with CMCD demonstrate pro-vascular ‘regenerative cell exhaustion’ (RCE) characterized by excess pro-inflammatory granulocyte precursor mobilization into the circulation, monocyte polarization towards pro-inflammatory vs. anti-inflammatory phenotype, and decreased pro-vascular progenitor cell content, impairing the capacity for vessel repair. Remarkably, targeted treatment with the sodium-glucose cotransporter-2 inhibitor (SGLT2i) empagliflozin in subjects with T2D and coronary artery disease, and gastric bypass surgery in subjects with severe obesity, has been shown to partially reverse these RCE phenotypes. SGLT2is and glucagon-like peptide-1 receptor agonists (GLP-1RAs) have reshaped the management of individuals with T2D and comorbid obesity. In addition to glucose-lowering action, both drug classes have been shown to induce weight loss and reduce mortality and adverse cardiovascular outcomes in landmark clinical trials. Furthermore, both drug families also act to reduce systemic oxidative stress through altered activity of overlapping oxidase and antioxidant pathways, providing a putative mechanism to augment circulating pro-vascular progenitor cell content. As SGLT2i and GLP-1RA combination therapies are emerging as a novel therapeutic opportunity for individuals with poorly controlled hyperglycaemia, potential additive effects in the reduction of oxidative stress may also enhance vascular repair and further reduce the ischaemic cardiovascular comorbidities associated with T2D and obesity.