tbuckley/cabot-search huggingface dataset:
PREDICTION OF PERIOPERATIVE MAJOR ADVERSE CARDIOVASCULAR AND CEREBROVASCULAR EVENTS (MACCE) USING AUTOMATED MACHINE LEARNING (AUTOML) ALGORITHMS WITH GOOGLE AUTOML TABLES (GAMLT) USING THE AMERICAN COLLEGE OF SURGEONS NATIONAL SURGICAL QUALITY IMPROVEMENT PROGRAM (ACS NSQIP) DATABASE
Authors: Avinash Thangirala, Yindalon Aphinyanaphongs, Karen Kan, Nina Talmor, Nathaniel Rosso Smilowitz
Journal: Journal of the American College of Cardiology (2022)
How to Breathe
Authors: David Haosen Xiang
Journal: JAMA Oncology (2022)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA Oncology HomeNew OnlineCurrent IssueFor Authors Podcast Journals JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA Oncology journal
Transcriptomics of rhinovirus persistence reveals sustained expression of RIG‐I and interferon‐stimulated genes in nasal epithelial cells in vitro
Authors: Hsiao Hui Ong, Anand Kumar Andiappan, Kaibo Duan, Josephine Lum, Jing Liu, Kai Sen Tan, Shanshan Howland, Bernett Lee, Yew Kwang Ong, Mark Thong, Vincent T. Chow, De‐Yun Wang
Journal: Allergy (2022)

Human rhinoviruses (HRVs) are frequently associated with asthma exacerbations, and have been found in the airways of asthmatic patients. While HRV-induced acute infection is well-documented, it is less clear whether the nasal epithelium sustains prolonged HRV infections along with the associated activation of host immune responses.To investigate sustainably regulated host responses of human nasal epithelial cells (hNECs) during HRV persistence.Using a time-course study, HRV16 persistence and viral replication dynamics were established using an in vitro infection model of hNECs. RNA sequencing was performed on hNECs in the early and late stages of infection at 3 and 14 days post-infection (dpi), respectively. The functional enrichment of differentially expressed genes (DEGs) was evaluated using gene ontology (GO) and Ingenuity pathway analysis.HRV RNA and protein expression persisted throughout prolonged infections, even after decreased production of infectious virus progeny. GO analysis of unique DEGs indicated altered regulation of pathways related to ciliary function and airway remodeling at 3 dpi and serine-type endopeptidase activity at 14 dpi. The functional enrichment of shared DEGs between the two time-points was related to interferon (IFN) and cytoplasmic pattern recognition receptor (PRR) signaling pathways. Validation of the sustained regulation of candidate genes confirmed the persistent expression of RIG-I and revealed its close co-regulation with interferon-stimulated genes (ISGs) during HRV persistence.The persistence of HRV RNA does not necessarily indicate an active infection during prolonged infection. The sustained expression of RIG-I and ISGs in response to viral RNA persistence highlights the importance of assessing how immune-activating host factors can change during active HRV infection and the immune regulation that persists thereafter.
Clinical and Serological Characterization of Orf-Induced Immunobullous Disease
Authors: Kaan Yilmaz, Stephanie Goletz, Henri H. Pas, Renate R. van den Bos, Andrew Blauvelt, Wain L. White, Jean-David Bouaziz, Elina Zuelgaray, Maryam Daneshpazhooh, Kim B. Yancey, Matthias Goebeler, Enno Schmidt
Journal: JAMA Dermatology (2022)

<h3>Importance</h3> Ecthyma contagiosum, or orf, is a viral zoonotic infection caused by<i>Poxviridae</i>. Although human orf infection is considered to follow a self-limited course, various immunological reactions may be triggered, including immunobullous diseases. In the majority of the latter cases, the antigenic target remained enigmatic. <h3>Objective</h3> To characterize the predominant autoantigen in orf-induced immunobullous disease and further describe this clinical entity. <h3>Design, Setting, and Participants</h3> This multicenter case series sought to provide detailed clinical, histopathological and immunological characteristics of a patient with orf-induced pemphigoid. Based on this index patient, serological analyses were conducted of 4 additional patients with previously reported orf-induced immunobullous disease. Immunoblotting with extracellular matrix and a recently established indirect immunofluorescence assay for detection of serum anti–laminin 332 IgG were performed. <h3>Exposures</h3> The disease course and clinical characteristics of orf-induced immunobullous disease were observed. <h3>Main Outcomes and Measures</h3> Orf-induced immunobullous disease is primarily characterized by anti–laminin 332 autoantibodies, predominant skin involvement, and a self-limiting course. The study provides further details on epidemiological, clinical, immunopathological, diagnostic, and therapeutic aspects of orf-induced immunobullous disease. <h3>Results</h3> In all 5 patients, IgG1 and/or IgG3 autoantibodies against laminin 332 were identified. The α3, β3, and γ2 chains were recognized in 2, 4, and 1 patient(s), respectively. <h3>Conclusions and Relevance</h3> In this case series, laminin 332, a well-known target antigen in mucous membrane pemphigoid, was a major autoantigen in orf-induced immunobullous disease, even though predominant mucosal lesions were lacking in this autoimmune blistering disease. Orf-induced anti–laminin 332 pemphigoid is proposed as distinct clinical entity.
IVUS AS AN ADJUNCT TO DIGITAL SUBTRACTION ANGIOGRAPHY IN THE TREATMENT OF INFLOW PERIPHERAL ARTERIAL DISEASE: EFFECT ON LUMEN GAIN
Authors: Danial Saleem, Isaac Dreyfus, Matthew T. Finn, Sanjum S. Sethi, Anthony L. Pucillo, Ajay J. Kirtane, Sahil A. Parikh
Journal: Journal of the American College of Cardiology (2022)
Impaired glymphatic function in the early stages of disease in a TDP-43 mouse model of amyotrophic lateral sclerosis
Authors: Akram Zamani, Adam K. Walker, Ben Rollo, Katie L. Ayers, Raysha Farah, Terence J. O’Brien, David K. Wright
Journal: Translational Neurodegeneration (2022)

Abstract Background Multiple lines of evidence suggest possible impairment of the glymphatic system in amyotrophic lateral sclerosis (ALS). To investigate this, we used in vivo magnetic resonance imaging (MRI) to assess glymphatic function early in the course of disease in a transgenic mouse with doxycycline (Dox)-controlled expression of cytoplasmic human TDP-43 (hTDP-43ΔNLS), mimicking the key pathology implicated in ALS. Methods Adult TDP-43 transgenic and littermate monogenic control mice underwent longitudinal multimodal MRI one and three weeks after the cessation of Dox feed, together with weekly rotarod assessments of motor performance. Glymphatic function was assessed using dynamic contrast-enhanced MRI to track the clearance of an MR contrast agent injected into the cisterna magna. Results Compared to their littermate controls, TDP-43 mice exhibited progressive neurodegeneration including that within the primary motor cortex, primary somatosensory cortex and corticospinal tract, significant weight loss including gastrocnemius atrophy, and shortened telomere length. Furthermore, in the presence of this ALS-like phenotype, these mice have significantly disrupted glymphatic function. Conclusions Although the relationship between glymphatic clearance and ALS disease progression remains to be elucidated, these changes occurred very early in the disease course. This provides initial evidence to suggest that the glymphatic system might be a potential therapeutic target in the treatment of ALS.
Home Dust Allergen Exposure Is Associated with Outcomes among Sensitized Individuals with Chronic Obstructive Pulmonary Disease
Authors: Nirupama Putcha, Han Woo, Meredith C. McCormack, Ashraf Fawzy, Karina Romero, Meghan F. Davis, Robert A. Wise, Gregory B. Diette, Kirsten Koehler, Elizabeth C. Matsui, Nadia N. Hansel
Journal: American Journal of Respiratory and Critical Care Medicine (2021)

Environmental exposures have been associated with adverse outcomes in chronic obstructive pulmonary disease (COPD). Approximately one-third of individuals with COPD have allergic sensitization, but it is unknown whether exposure to allergens in the home is associated with outcomes.
In Situ Tumor Vaccination with Calcium‐Linked Degradable Coacervate Nanocomplex Co‐Delivering Photosensitizer and TLR7/8 Agonist to Trigger Effective Anti‐Tumor Immune Responses
Authors: Yutong Liu, Hui Li, Huajun Zhao, Yanyun Hao, Simon Van Herck, Zejun Xu, Guan Wang, Xiao Wang, Xinke Zhang, Xiaoyan Ge, Xia Li, Ailu Yang, Hongfei Chen, Jing Zou, Wentao Wang, Bruno G. De Geest, Zhiyue Zhang
Journal: Advanced Healthcare Materials (2022)

Abstract In situ anti‐tumor vaccination is an attractive type of cancer immunotherapy which relies on the effectiveness of dendritic cells (DCs) to engulf tumor antigens, become activated, and present antigens to T cells in lymphoid tissue. Here, a multifunctional nanocomplex based on calcium crosslinked polyaspartic acid conjugated to either a toll‐like receptor (TLR)7/8 agonist or a photosensitizer is reported. Intratumoral administration of the nanocomplex followed by laser irradiation induces cell killing and hence generation of a pool of tumor‐associated antigens, with concomitant promotion of DCs maturation and expansion of T cells in tumor‐draining lymph nodes. Suppression of tumor growth is observed both at the primary site and at the distal site, thereby hinting at successful induction of an adaptive anti‐tumor response. This strategy holds promise for therapeutic application in a pre‐operative and post‐operative setting to leverage to mutanome of the patient's own tumor to mount immunological memory to clear residual tumor cells and metastasis.
THE RELATIONSHIP OF CYP2D6 GENE POLYMORPHISM AND THERAPEUTIC EFFECT OF METOPROLOL IN PATIENTS WITH HYPERTROPHIC CARDIOMYOPATHY
Authors: Rasha Aurshiya, Leyla Gasimli-Gamache, Scott Kaniper, Glenn Gerhard, Santo V. Longo, Jamshid Shirani
Journal: Journal of the American College of Cardiology (2022)
Variability in Postdischarge Survival Among Older Adults With Traumatic Injury
Authors: Thomas J. Esposito
Journal: JAMA Network Open (2022)

Molly P. Jarman, PhD, MPH; Ginger Jin, MS; Joel S. Weissman, PhD; Arlene S. Ash, PhD; Jennifer Tjia, MD, MSCE; Ali Salim, MD; Adil Haider, MD, MPH; Zara Cooper, MD, MSc
Nirmatrelvir Plus Ritonavir: First Approval
Authors: Yvette N. Lamb
Journal: Drugs (2022)

Nirmatrelvir plus ritonavir (Paxlovid™; Pfizer) is a co-packaged combination of nirmatrelvir and ritonavir tablets, intended for co-administration and developed for the treatment and post-exposure prophylaxis of coronavirus disease 2019 (COVID-19). Nirmatrelvir is a peptidomimetic inhibitor of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) main protease, while ritonavir is a human immunodeficiency virus type 1 (HIV-1) protease inhibitor and CYP3A inhibitor. Nirmatrelvir plus ritonavir received its first conditional authorization in December 2021 in the United Kingdom, for the treatment of COVID-19 in adults who do not require supplemental oxygen and who are at increased risk for progression to severe COVID-19. In January 2022, nirmatrelvir plus ritonavir received authorization in the EU for use in the same indication. Nirmatrelvir plus ritonavir is authorized for emergency use in the USA. This article summarizes the milestones in the development of nirmatrelvir plus ritonavir leading to its first authorizations and approval for the treatment of COVID-19.
IMPACT OF PHENOMAPPING TO PREDICT OUTCOMES AFTER MITRAL VALVE INTERVENTION IN PATIENTS WITH ISCHEMIC CARDIOMYOPATHY
Authors: Deborah Kwon, Xiaozhen Han, Tom Kai Ming Wang, Samir R. Kapadia, Amar Krishnaswamy, Gillinov Mark, Scott D. Flamm, Wai Hong Wilson Tang
Journal: Journal of the American College of Cardiology (2022)
Abstract ES1-2: Genomics of HER2+ breast cancer
Authors: C Perou
Journal: Cancer Research (2022)

Abstract Human epidermal growth factor receptor 2 (HER2) is amplified and overexpressed in about 20% ofall breast cancers and, when untreated, is the most aggressive breast cancer phenotype. The prognosis of patients with HER2-positive breast cancer has been markedly improved thanks to the effectiveness of anti-HER2 therapies. However, we still overtreat a high proportion of patients with toxic chemotherapy +antiHER2 combinations, while others still develop recurrent disease despite these complex regimens. Both the intrinsic complexity of HER2-positive tumors and the properties of its tumor microenvironment likely contribute to differences in response toanti-HER2 targeted therapies. HER2-positive breast cancer is highly heterogeneous, and all the intrinsic molecular subtypes can be identified within HER2-positive tumors by gene expression. HER2-enriched subtype has been systematically associated with higher pCR rates to anti-HER2 targeted therapies across multiple trials in early stages. Genomically, the HER2-enriched subtype is the most HER2 oncogene addicted of the subtypes, which likely explains the high sensitivity to anti-HER2 therapies. However, this may also explain why a HER2-enriched tumor with residual disease after anti-HER2 treatments carries a particularly poor prognosis. Conversely, both tumor-infiltrating lymphocytes (TILs) and RNA-based immune-signatures are significantly and independently associated with a higher likelihood of pCR and better survival outcomes in patients with HER2-positive disease. Thus, integrating the prognostic information provided by clinical factors, genomic subtype, and immune-related signatures is essential to improve the design of future clinical trials and establish new and better treatment algorithms for HER2-positive breast cancer treatment. Citation Format: C Perou. Genomics of HER2+ breast cancer. [abstract]. In: Proceedings of the 2021 San Antonio Breast Cancer Symposium; 2021 Dec 7-10; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2022;82(4 Suppl):Abstract nr ES1-2.
TRENDS, PREDICTORS AND OUTCOMES OF TAVI VERSUS SAVR IN CANCER PATIENTS WITH SEVERE AORTIC STENOSIS; A NATIONWIDE INPATIENT SAMPLE DATABASE ANALYSIS
Authors: Waqas Ullah, Nishanth Thalambedu, Salman Zahid, Hamza Zahid Ullah Muhammadzai, Nicholas J. Ruggiero, David L. Fischman
Journal: Journal of the American College of Cardiology (2022)
Examining the relationship between malaria burden and domestic spending on malaria in 106 countries, 2000–2019
Authors: Ian Cogswell, Emilie Maddison, Paola Pedroza, Yingxi Zhao, Golsum Tsakalos, Joseph Dieleman, Angela Micah
Journal: The Lancet Global Health (2022)

In 2019, there were 231 million (95% uncertainty interval [UI] 186-290) new malaria cases across the 106 malaria-endemic countries worldwide. Since 2000, malaria control and elimination has been a priority for the international community. This has driven global health leadership to invest in prevention, treatment, and surveillance strategies. However, as countries move from malaria control to elimination, financing sources shift from mainly development assistance for health and out-of-pocket spending to government and prepaid private spending. We aimed to examine the association between malaria burden and spending on malaria prevention and treatment activities.Malaria incidence, prevalence, and mortality rates were extracted from the 2019 Global Burden of Diseases, Injuries, and Risk Factors Study. We extracted data from 546 data sources on government, out-of-pocket, and prepaid private malaria spending; cost of patient care; and drug prices for malaria-endemic countries from 2000 to 2019. We used panel regression methods to explore the relationship between malaria burden and domestic spending on malaria. We report all spending estimates in inflation-adjusted 2019 US$.Our preliminary results suggest a negative correlation between domestic spending and new malaria cases. Additionally, decreases in malaria incidence rates were associated with increases in investment in activities to strengthen health systems and prevent malaria re-introduction. Lastly, out-of-pocket spending had a positive correlation with incidence rates in endemic countries.As countries succeed in reducing the malaria burden, prioritising investments in malaria surveillance and prevention is paramount to strengthen health systems, prevent resurgence, and provide financial protection to people affected by malaria.Bill & Melinda Gates Foundation.
Nationwide Analysis of the Heat- and Cold-Related Mortality Trends in Switzerland between 1969 and 2017: The Role of Population Aging
Authors: Evan de Schrijver, Marvin Bundo, Martina S. Ragettli, Francesco Sera, Antonio Gasparrini, Oscar H. Franco, Ana M. Vicedo-Cabrera
Journal: Environmental Health Perspectives (2022)

Background: Because older adults are particularly vulnerable to nonoptimal temperatures, it is expected that the progressive population aging will amplify the health burden attributable to heat and cold due to climate change in future decades. However, limited evidence exists on the contribution of population aging on historical temperature–mortality trends. Objectives: We aimed to a) assess trends in heat- and cold-related mortality in Switzerland between 1969 and 2017 and b) to quantify the contribution of population aging to the observed patterns. Methods: We collected daily time series of all-cause mortality by age group (&lt;65, 65–79, and 80 y and older) and mean temperature for each Swiss municipality (1969–2017). We performed a two-stage time-series analysis with distributed lag nonlinear models and multivariate longitudinal meta-regression to obtain temperature–mortality associations by canton, decade, and age group. We then calculated the corresponding excess mortality attributable to nonoptimal temperatures and compared it to the estimates obtained in a hypothetical scenario of no population aging. Results: Between 1969 and 2017, heat- and cold-related mortality represented 0.28% [95% confidence interval (CI): 0.18, 0.37] and 8.91% (95% CI: 7.46, 10.21) of total mortality, which corresponded to 2.4 and 77 deaths per 100,000 people annually, respectively. Although mortality rates for heat slightly increased over time, annual number of deaths substantially raised up from 74 (12;125) to 181 (39;307) between 1969–78 and 2009–17, mostly driven by the ≥80-y-old age group. Cold-related mortality rates decreased across all ages, but annual cold-related deaths still increased among the ≥80, due to the increase in the population at risk. We estimated that heat- and cold-related deaths would have been 52.7% and 44.6% lower, respectively, in the most recent decade in the absence of population aging. Discussion: Our findings suggest that a substantial proportion of historical temperature-related impacts can be attributed to population aging. We found that population aging has attenuated the decrease in cold-related mortality and amplified heat-related mortality. https://doi.org/10.1289/EHP9835
Blood Eosinophil Counts in Chronic Obstructive Pulmonary Disease: Adding Within-Day Variability to the Equation
Authors: Inès Van Rossem, Shane Hanon, Sylvia Verbanck, Eef Vanderhelst
Journal: American Journal of Respiratory and Critical Care Medicine (2021)

"Blood Eosinophil Counts in Chronic Obstructive Pulmonary Disease: Adding Within-Day Variability to the Equation." American Journal of Respiratory and Critical Care Medicine, 205(6), pp. 727–729
CARDIAC MRI ACCURATELY IDENTIFIES ETIOLOGY OF MYOCARDIAL INJURY INCLUDING MYOCARDIAL INFARCTION IN PATIENTS WITH CHEST PAIN AND DETECTABLE TROPONINS
Authors: Carolyn Park, Jennifer H. Jordan, Anna C. Snavely, Michael E. Hall, Subha V. Raman, W. Gregory Hundley, Chadwick Miller
Journal: Journal of the American College of Cardiology (2022)
Fuel poverty is intimately linked to poor health
Authors: Margaret Whitehead, David Taylor-Robinson, Ben Barr
Journal: BMJ (2022)

<h3>Abstract</h3> <h3>Summary</h3> The Artificial Intelligence-based structure prediction program AlphaFold-Multimer enabled structural modelling of protein complexes with unprecedented accuracy. Increasingly, AlphaFold-Multimer is also used to discover new protein-protein interactions. Here, we present <i>AlphaPulldown</i>, a Python package that streamlines protein-protein interaction screens and high-throughput modelling of higher-order oligomers using AlphaFold-Multimer. It provides a convenient command line interface, a variety of confidence scores, and a graphical analysis tool. <h3>Availability and implementation</h3> <i>AlphaPulldown</i> is freely available at https://www.embl-hamburg.de/AlphaPulldown.
Allo-reactive tissue-resident T cells causing damage: An inside job
Authors: René A.W. van Lier, Pleun Hombrink
Journal: The Journal of Experimental Medicine (2022)

Tissue-resident memory T cells (TRM cells) reside in the epithelium and contribute to the first line defense against invading pathogens. Snyder et al. (2022. J. Exp. Med.https://doi.org/10.1084/jem.20212059) now report that clonally expanded, recipient T cells persist as TRM cells in human lung allografts despite intensive immunosuppression. Their persistence may contribute to chronic allograft dysfunction.
Enzyme‐Mediated Alleviation of Peroxide Toxicity in Self‐Oxygenating Biomaterials
Authors: Niels G. A. Willemen, Shabir Hassan, Melvin Gurian, Maria Fernanda Jasso‐Salazar, Kai Fan, Haihang Wang, Malin Becker, Iris E. Allijn, Ayça Bal‐Öztürk, Jeroen Leijten, Su Ryon Shin
Journal: Advanced Healthcare Materials (2022)

Abstract Oxygen releasing biomaterials can facilitate the survival of living implants by creating environments with a viable oxygen level. Hydrophobic oxygen generating microparticles (HOGMPs) encapsulated calcium peroxide (CPO) have recently been used in tissue engineering to release physiologically relevant amounts of oxygen for several weeks. However, generating oxygen using CPO is mediated via the generation of toxic levels of hydrogen peroxide (H 2 O 2 ). The incorporation of antioxidants, such as catalases, can potentially reduce H 2 O 2 levels. However, the formulation in which catalases can most effectively scavenge H 2 O 2 within oxygen generating biomaterials has remained unexplored. In this study, three distinct catalase incorporation methods are compared based on their ability to decrease H 2 O 2 levels. Specifically, catalase is incorporated within HOGMPs, or absorbed onto HOGMPs, or freely laden into the hydrogel entrapping HOGMPs and compared with control without catalase. Supplementation of free catalase in an HOGMP‐laden hydrogel significantly decreases H 2 O 2 levels reflecting a higher cellular viability and metabolic activity of all the groups. An HOGMP/catalase‐laden hydrogel precursor solution containing cells is used as an oxygenating bioink allowing improved viability of printed constructs under severe hypoxic conditions. The combination of HOGMPs with a catalase‐laden hydrogel has the potential to decrease peroxide toxicity of oxygen generating tissues.
Polymeric coating on β-TCP scaffolds provides immobilization of small extracellular vesicles with surface-functionalization and ZEB1-Loading for bone defect repair in diabetes mellitus
Authors: Shi-Cong Tao, Xu-Ran Li, Wen-Jia Wei, Zhan-Ying Wei, Chang-Ru Zhang, Fei Wang, Helen Dawes, Shang-Chun Guo
Journal: Biomaterials (2022)