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The epidemiological and clinical characteristics of COVID-19 patients admitted to a Fangcang shelter hospital in Beijing before the change in China's prevention and control policy 防控政策变化前北京市房仓方舱医院收治的COVID - 19患者的流行病学和临床特征
Pub Date : 2023-07-31 DOI: 10.1002/mef2.54
Xiaolong Xu, Hui Jiang, Maochen Li, Jvjv Shang, Yifan Shi, Yumeng Yan, Xintong Li, Shuang Song, Chunxia Zhao, Chunming Zhao, Chongpei Cen, Bo Li, Huahao Fan, Qingquan Liu

In November 2022, a large number of Omicron infections suddenly appeared in Beijing, but the epidemiological and clinical characteristics of the epidemic cases were unknown. We collected the data on COVID-19 cases in Fangcang Hospital in Beijing from November 20, 2022, to December 8, 2022, and analyzed the epidemiological and clinical characteristics. Of the enrolled study, 85.9% were asymptomatic and 14.1% were mild. Epidemiological data showed that the transmission speed of the Omicron variant was fast and the transmission range was wide, large-scale infections occurred in both rural and urban areas, and all age groups were susceptible to the Omicron variant. In addition, antipyretics and cough drugs were the two most used drugs, because 51.3% and 22.7% of patients had fever and cough, respectively, and 10.3% of patients took hypnotics. Furthermore, the proportion of patients with chronic diseases was low (13.9%), while the vaccination rate (71.2%) was relatively high. Based on the results, we found that most mild and asymptomatic cases did not need treatment, indicating that home isolation is correct and feasible. Although SARS-CoV-2 variants have characteristics such as high infectivity and immune-escape ability, the public should not be too afraid of COVID-19 infection; appropriate measures such as wearing masks and maintaining social distancing are sufficient to prevent reinfection.

背景:2022年11月,北京突然出现大量奥密克戎感染者,但疫情病例的流行病学和临床特征尚不清楚。方法:收集2022年11月20日至2022年12月8日北京方舱医院新冠肺炎病例资料,分析其流行病学和临床特点。我们使用描述性统计方法来探索基本特征,使用参数分布来计算事件发生的时间,并使用ArcGIS来探索不同地区新冠肺炎病例的分布模式。结果:方舱方舱医院共有1307例新冠肺炎病例,其中85.9%为无症状病例,14.1%为轻度病例。流行病学数据显示,奥密克戎变异株传播速度快、传播范围广,农村和城市都发生了大规模感染,所有年龄组都易感染奥密克毒株。此外,退烧药和咳嗽药是最常用的两种药物,因为分别有51.3%和22.7%的患者发烧和咳嗽,10.3%的患者服用催眠药。此外,慢性病患者的比例较低(13.9%),而疫苗接种率(71.2%)相对较高。结论:根据方舱方舱医院的结果,我们发现大多数轻症和无症状病例不需要治疗,这表明居家隔离是正确和可行的。但奥密克戎变异株传播速度快、传播范围广,所有年龄组都易感染奥密克毒株;因此,防控意识不能放松。托管文件Manuscript.doc可在https://authorea.com/users/582337/articles/622449-theepidemiological-and-clinical-characteristic-of-covid-19-patients-admitted-to-a-fangcangshelter-hospital-in-beijing-before-the-change-of-china-s-prevention-and-control-policy
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引用次数: 0
PM2.5 air pollutant drives the initiate of lung adenocarcinoma PM2.5空气污染物引发肺腺癌
Pub Date : 2023-07-13 DOI: 10.1002/mef2.53
Yuhong Xu, Huiyan Luo

Recently, researchers from Cancer Research UK and The Francis Crick Institute published a paper entitled “Lung adenocarcinoma promotion by air pollutants” in Nature.1 The study focused on the impact of air pollutants, specifically PM2.5, on lung adenocarcinoma development. By analyzing human data and conducting subsequent animal experiments, the researchers found that air pollutants PM2.5 leads to an influx of macrophages into the lung and triggers the release of interleukin-1β. This, in turn, induces a progenitor-like cell state within estimated glomerular filtration rate (EGFR) mutant lung alveolar type II epithelial cells, fueling tumorigenesis, and potentially exacerbating pre-existing cancerous mutations in normal tissues.

While the association between smoking and lung cancer risk is well-established, attention has increasingly turned towards understanding the carcinogenic factors in never-smokers. As the eighth leading cause of cancer-related deaths in the United Kingdom, lung cancer in never-smokers (LCINS) is often an adenocarcinoma carrying the EGFR mutation.2 In an effort to identify significant factors influencing the development of lung cancer LCINS, the researchers analyzed environmental and epidemiological data from 32,957 cases of EGFR-driven lung cancer in the United Kingdom, Canada, South Korea, Taiwan, and China. The findings revealed a correlation between increased levels of PM2.5 and a higher incidence of lung cancer among the study participants. Later analysis of 407,509 individuals from the UK Biobank support these results, demonstrating significant increase in the projected incidence of lung cancer among those exposed to high levels of PM2.5. The researchers also conducted a 3-year follow-up study involving 228 Canadian lung cancer patients. The incidence of lung cancer was found to be significantly higher (73%) in those exposed to high levels of PM2.5 compared to those exposed to low levels (40%). Notably, this association was not observed in the Canadian cohort over a 20-year period, suggesting that 3 years of exposure to high levels of pollution may be sufficient to produce cancer.

Hill et al. further employed genetically engineered mice carrying EGFR mutations (EGFRL858R) associated with human cancer to functionally investigate whether PM2.5 exposure promoted the development of lung adenocarcinoma. The study revealed that mice were exposed to similar air pollution particles, resulting in a higher likelihood of developing lung tumors compared to control mice not exposed to pollution particles. The same experiments were performed on genetically engineered mice with Kras mutations, a common mutation in various lung tumors, yielding similar results. Through spatial analysis of clonal dynamics, the researchers discovered that PM2.5 promotes early tumorigenesis through two mechanisms: increasing the number of EGFR-mutated cells capable of forming tumors

近日,英国癌症研究所和弗朗西斯克里克研究所的研究人员在《nature》杂志上发表了一篇题为“空气污染物促进肺腺癌”的论文。该研究重点研究了空气污染物,特别是PM2.5对肺腺癌发展的影响。通过分析人体数据并进行随后的动物实验,研究人员发现,空气污染物PM2.5会导致巨噬细胞涌入肺部,并引发白细胞介素-1β的释放。反过来,这在估计的肾小球滤过率(EGFR)突变的肺泡II型上皮细胞中诱导祖细胞样细胞状态,促进肿瘤发生,并可能加剧正常组织中已有的癌突变。虽然吸烟和肺癌风险之间的关系已经确立,但人们的注意力越来越多地转向了解不吸烟者的致癌因素。作为英国癌症相关死亡的第八大原因,不吸烟者肺癌(LCINS)通常是一种携带EGFR突变的腺癌为了确定影响肺癌LCINS发展的重要因素,研究人员分析了来自英国、加拿大、韩国、台湾和中国的32957例egfr驱动的肺癌的环境和流行病学数据。研究结果揭示了PM2.5水平升高与研究参与者中肺癌发病率升高之间的相关性。随后对来自英国生物银行的407,509人的分析支持了这些结果,表明暴露于高水平PM2.5的人群中肺癌的预计发病率显著增加。研究人员还对228名加拿大肺癌患者进行了为期3年的随访研究。研究发现,PM2.5浓度高的人群肺癌发病率(73%)明显高于PM2.5浓度低的人群(40%)。值得注意的是,在20年的加拿大队列研究中没有观察到这种关联,这表明3年的高水平污染暴露可能足以产生癌症。Hill等人进一步利用携带与人类癌症相关的EGFR突变(EGFRL858R)的基因工程小鼠,从功能上研究PM2.5暴露是否会促进肺腺癌的发展。该研究显示,与未暴露于污染颗粒的对照组小鼠相比,暴露于类似空气污染颗粒的小鼠患肺肿瘤的可能性更高。同样的实验在有Kras突变的基因工程小鼠身上进行,得到了类似的结果。Kras突变是各种肺部肿瘤中常见的突变。通过克隆动力学的空间分析,研究人员发现PM2.5通过两种机制促进早期肿瘤发生:增加能够形成肿瘤的egfr突变细胞的数量,提高这些突变细胞在早期病变中的增殖速度。为了确定PM2.5是否会诱导DNA突变,研究人员对暴露于PM2.5或对照物质(磷酸盐缓冲盐水[PBS])的EGFRL858R小鼠的肿瘤进行了全基因组测序。结果表明,短期暴露于PM2.5并不会增强突变,由EGFR驱动的PM2.5诱导的肺肿瘤发生需要功能性免疫系统。吸入有毒颗粒会触发由巨噬细胞和肺上皮细胞介导的肺部局部反应。发现短暂暴露于PM2.5与暴露期后肺巨噬细胞浸润增加和持续相关。此外,为了研究PM2.5暴露对早期肿瘤发生的影响,研究人员在四种不同条件下(暴露于PM2.5或PBS的对照小鼠,以及暴露于PM2.5或PBS的EGFR突变小鼠)对肺上皮细胞进行了RNA-seq分析,结果显示,与对照组相比,PM2.5暴露组的IL-6-JAK-STAT途径、炎症反应和同种异体移植排斥途径上调。PM2.5暴露还导致参与巨噬细胞募集的基因上调,包括编码白细胞介素-1β (IL-1β)、GM-CSF、CCL6和NF-κB的基因以及上皮源性警报蛋白IL-33。基于先前的研究表明肺泡II型(AT2)上皮细胞可能是肺腺癌的一个来源,Nagano等人比较了博莱霉素处理小鼠肺的大量RNA-seq表达数据和单细胞RNA-seq数据集。分析表明,PM2.5暴露组的AT2祖细胞激活评分高于对照组。这表明,在EGFR突变和PM2.5暴露的情况下,AT2细胞经历转录重编程,转变为祖细胞状态。重要的是,这种作用仅在EGFRL858R AT2细胞中观察到,而在EGFR野生型AT2细胞中没有观察到。 此外,小鼠RNA-seq数据与人类临床交叉研究的比较显示,PM2.5暴露后,小鼠肺上皮中许多基因上调,而这些基因在人肺上皮中也上调。先前的研究表明,PM2.5暴露可以增加巨噬细胞炎症细胞因子的释放通过将EGFRL858R小鼠的AT2细胞与暴露于PM2.5或PBS的巨噬细胞共培养,研究人员观察到PM2.5暴露组中AT2细胞的类器官形成效率显著提高。这表明pm2.5诱导炎症的关键介质来自巨噬细胞。早期的报道强调了肺巨噬细胞中IL-1β对AT2祖细胞形成的要求通过结合现有数据,研究人员得出结论,当暴露于细颗粒物时,肺上皮细胞会将巨噬细胞招募到肺部。细颗粒物刺激巨噬细胞释放IL-1β,导致EGFRL858R AT2重编程为祖细胞状态,随后成为启动肺癌的种子(图1)。研究人员通过PM2.5暴露期间的IL-1β抗体治疗实验进一步验证了这些结论。为了初步了解个体中EGFR或Kras突变的患病率,研究人员分析了来自不同队列的监测数据。在295例健康肺组织样本中,发现54例(18%)携带egfr驱动突变。同样,在81个健康肺组织样本中,发现43个(53%)携带kras驱动突变。值得注意的是,554,500个健康肺细胞中只有一个被发现携带致癌的EGFR突变。此外,在年龄和突变数量之间观察到显著的相关性,而在非癌组织中,EGFR或Kras突变与吸烟状况或癌症诊断之间没有发现关联。本研究证实了健康组织中致癌突变的存在,并强调了正常细胞在增殖过程中发生的自发基因突变,在PM2.5等外界环境的影响下转化为恶性细胞并引发癌症的能力。而PM2.5是肺腺癌发展的可能危险因素之一,肺部免疫系统的影响可能是其发挥作用的关键。因此,旨在减少空气污染的公共卫生举措有可能有效减轻肺癌的负担。此外,这些发现对预防癌症也有影响,表明抗炎干预可能会预防这类癌症的发生。徐玉红:可视化(平等);写作-原稿(同等);写作—评审与编辑(同等)。罗惠妍:概念化(平等);获得资金(相等);监督(平等);写作—评审与编辑(同等)。两位作者都阅读并认可了这篇文章。作者声明无利益冲突。不适用。
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引用次数: 0
Computational study unravels inhibitory potential of epicatechin gallate against inflammatory and pyroptosis-associated mediators in COVID-19 计算研究揭示了表儿茶素没食子酸盐对COVID-19中炎症和焦下垂相关介质的抑制潜力
Pub Date : 2023-07-05 DOI: 10.1002/mef2.52
Prem Rajak, Abhratanu Ganguly

Coronavirus disease-19 (COVID-19) is the global health emergency caused by SARS-CoV-2. Upon infection, antigenic determinants of the virus trigger massive production of proinflammatory/pyroptosis-associated proteins, resulting in cytokine storm, tissue damage, and multiorgan failure. Therefore, these proinflammatory/pyroptosis-associated mediators are promising therapeutic targets to combat COVID-19. Epicatechin gallate (ECG) is a polyphenol found in green tea. It has antioxidative and anti-inflammatory properties. Hence, in the present study, ECG was selected to explore its binding potential for inflammatory mediators such as interleukins, interferon-γ (IFNγ), and tumor necrosis factor-α (TNF-α), along with their native receptors. In addition, the interacting potential of ECG with pyroptosis-associated proteins, viz. caspases and BAX has also been investigated. Molecular docking analysis has revealed that ECG interacts with interleukins, IFNγ, TNF-α, cytokine receptors, caspase-1/4/11, and BAX with significant binding affinity. Several amino acid residues of these mediators were blocked by ECG through stable hydrogen bonds and hydrophobic contacts. ECG interacted with caspase-11, BAX, and TNF-R1 with better binding affinities. Therefore, the present in silico study indicates that ECG could be a potential drug to subvert cytokine storm and pyroptosis during COVID-19.

冠状病毒病-19 (COVID-19)是由SARS-CoV-2引起的全球突发卫生事件。感染后,病毒的抗原决定因子会引发促炎/热死相关蛋白的大量产生,导致细胞因子风暴、组织损伤和多器官衰竭。因此,这些促炎/焦热相关介质是对抗COVID-19的有希望的治疗靶点。表儿茶素没食子酸酯(ECG)是绿茶中的一种多酚。它具有抗氧化和抗炎的特性。因此,在本研究中,我们选择ECG来探索其与炎症介质如白细胞介素、干扰素-γ (IFNγ)和肿瘤坏死因子-α (TNF-α)及其天然受体的结合潜力。此外,ECG与焦热相关蛋白(即caspases和BAX)的相互作用电位也被研究。分子对接分析显示,ECG与白细胞介素、IFNγ、TNF-α、细胞因子受体、caspase-1/4/11和BAX具有显著的结合亲和力。这些介质的几个氨基酸残基通过稳定的氢键和疏水接触被ECG阻断。ECG与caspase-11、BAX和TNF-R1相互作用,结合亲和力较好。因此,目前的计算机研究表明,ECG可能是一种潜在的药物,可以破坏COVID-19期间的细胞因子风暴和焦亡。
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引用次数: 3
Using ChatGPT in a clinical setting: A case report 在临床环境中使用ChatGPT:一个病例报告
Pub Date : 2023-06-21 DOI: 10.1002/mef2.51
Yongqin Ye, Shuvam Sarkar, Anand Bhaskar, Brian Tomlinson, Olivia Monteiro

Large language models (LLMs) are rapidly becoming an important foundation model that has infiltrated our daily lives in many ways. The release of GPT-3 and GPT-4, a LLM that is capable of natural language processing (NLP) that has been trained on terabytes of text data through transfer learning to apply knowledge gained from a previous task to solve a different but related problem, immediately captured the attention of the medical field to investigate how LLMs can be used to process and interpret electronic health records and to streamline clinical writing.1 NLP models have traditionally been used mainly as diagnostic aids in healthcare. Its use generally requires supervised learning on manually labeled and training datasets with a huge involvement of time from healthcare professionals.2 NLP models often lack precision, accuracy and mostly only accessible by the developers. Recent LLMs with their transformer and reinforcement learning with human feedback, have enabled better precision in text generation. The advancement of GPT-3 (Generative Pre-Trained Transformer, commonly known as ChatGPT) demonstrated that LLMs can rapidly adapt to new tasks resulting in better generalization. Also, ChatGPT has a simple interface, which has enabled broad adoption and use. Having such a versatile and user-friendly tool at our fingertips means that we can adapt to use LLMs for basic tasks such as generating clinical reports, providing clinical support, or to synthesize patient data from multiple sources.

We have used this case report as an opportunity to demonstrate the practicality of ChatGPT in basic writing tasks in a clinical context. This case report is obtained from two teaching videos uploaded by TTMedcastTraining Texas Tech University on YouTube. The two videos are of a patient called Jonathan who presented with bilateral knee pain with a history of sickle cell disease. One video is the bedside presentation of the patient by a medical intern, another is a group discussion of treatment plans for this patient. Since GPT-3 can only deal with text input, we have downloaded the transcript from each video. The transcripts sometimes contain people talking at the same time, filler words, mispronounced words, or incomplete sentences. Unaltered transcripts were submitted to ChatGPT separately for interpretation.

The workflow of using ChatGPT to generate the case report is summarized in Figure 1. We fed the transcript of Video 1 into ChatGPT and asked it to write a case report from it (Case Report 1). Then, we used the transcript of Video 2 to create Case Report 2. ChatGPT was asked to combine the two reports without summarizing and offer a diagnosis and a treatment plan. We also asked ChatGPT to write the final case report in the style for the New England Journal of Medicine. This process took around 1.5 h, including time the authors spent watching the videos. The full case report is found in Supportin

大型语言模型(llm)正迅速成为一种重要的基础模型,并以多种方式渗透到我们的日常生活中。GPT-3和GPT-4是一个能够进行自然语言处理(NLP)的法学硕士,通过迁移学习对tb级文本数据进行训练,以应用从以前的任务中获得的知识来解决不同但相关的问题,立即引起了医学领域的注意,研究如何使用法学硕士来处理和解释电子健康记录并简化临床写作传统上,NLP模型主要用于医疗保健的诊断辅助。它的使用通常需要在人工标记和训练数据集上进行监督学习,这需要医疗保健专业人员投入大量时间NLP模型通常缺乏精度和准确性,而且大多只有开发人员才能访问。最近的法学硕士与他们的变压器和强化学习与人类的反馈,使更好的精度在文本生成。GPT-3(生成预训练变压器,通常称为ChatGPT)的进步表明,llm可以快速适应新任务,从而获得更好的泛化。此外,ChatGPT具有简单的界面,这使得广泛采用和使用成为可能。拥有这样一个多功能和用户友好的工具在我们的指尖意味着我们可以适应使用法学硕士的基本任务,如生成临床报告,提供临床支持,或从多个来源合成患者数据。我们用这个病例报告作为一个机会来展示ChatGPT在临床环境中基本写作任务中的实用性。本病例报告来源于德克萨斯理工大学TTMedcastTraining在YouTube上上传的两个教学视频。这两个视频是一个叫Jonathan的病人的,他表现出双侧膝盖疼痛,有镰状细胞病的病史。一段视频是一位实习医生对病人的床边介绍,另一段视频是对病人治疗方案的小组讨论。由于GPT-3只能处理文本输入,所以我们下载了每个视频的transcript。抄本有时会包含同时说话的人、填充词、发音错误的词或不完整的句子。未修改的文本分别提交给ChatGPT进行翻译。图1总结了使用ChatGPT生成案例报告的工作流程。我们将视频1的抄本输入到ChatGPT中,并要求它据此撰写一篇案例报告(case report 1)。然后,我们使用视频2的抄本创建case report 2。ChatGPT被要求将两份报告结合起来,而不进行总结,并提供诊断和治疗计划。我们还要求ChatGPT以新英格兰医学杂志的风格撰写最终病例报告。这个过程花了大约1.5个小时,包括作者观看视频的时间。完整的案例报告可在辅助信息,ChatGPT的案例报告中找到。第一作者是一名儿科外科主治医生,他也被要求研究这些视频,并根据这两个视频撰写病例报告。由于工作量大,工作时间多变,他尝试了几次,总共花了大约4个小时才完成。该报告可在辅助信息,医生病例报告中找到。他也被问及是否同意ChatGPT提供的诊断和治疗方案。在仔细研究了镰状细胞病及其表现后,第一作者同意镰状细胞病的诊断和治疗方案。为了比较写作质量,我们要求三位医生根据修改版本的乔安娜布里格斯研究所病例报告关键评估清单对两份病例报告进行评分。3三位医生对ChatGPT和医生报告分别给出了5.7/8和6/8的相似分数。关于ChatGPT的报告,最常见的评论是缺乏患者的既往病史,而这些信息在医生的报告中更为明显。详细评论见支持信息。这项研究是一个很好的例子,说明了当临床医生记录他们的病例以供以后撰写时,ChatGPT如何有效地用于在临床环境中执行简单的写作任务,以及使用ChatGPT综合来自多个来源的数据并提供医疗支持是多么容易。然而,在ChatGPT可以在日常实践中使用之前,需要提出几个要点。ChatGPT需要非常详细和特定的信息来编写最终的案例报告(详细说明提示和生成的单独案例报告的聊天历史记录可在补充材料中获得)。尽管第一个报告并不完美,但是可以通过请求ChatGPT加入其他信息来改进报告。通过实践,用户将熟悉能够产生所需产出的快速策略。在这个案例报告中,我们的提示是清晰而简单的。
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引用次数: 1
Biomarkers of ageing: Current state-of-art, challenges, and opportunities 衰老的生物标志物:现状、挑战和机遇
Pub Date : 2023-06-18 DOI: 10.1002/mef2.50
Ruiye Chen, Yueye Wang, Shiran Zhang, Gabriella Bulloch, Junyao Zhang, Huan Liao, Xianwen Shang, Malcolm Clark, Qingsheng Peng, Zongyuan Ge, Ching-Yu Cheng, Yuanxu Gao, Mingguang He, Zhuoting Zhu

Given the unprecedented phenomenon of population ageing, studies have increasing captured the heterogeneity within the ageing process. In this context, the concept of “biological age” has been introduced as an integrated measure reflecting the individualized ageing pace. Identifying reliable and robust biomarkers of age is critical for the accurate risk stratification of individuals and exploration into antiageing interventions. Numerous potential biomarkers of ageing have been proposed, spanning from molecular changes and imaging characteristics to clinical phenotypes. In this review, we will start off with a discussion of the development of ageing biomarkers, then we will provide a comprehensive summary of currently identified ageing biomarkers in humans, discuss the rationale behind each biomarker and highlight their accuracy and clinical value with a contemporary perspective. Additionally, we will discuss the challenges, potential applications, and future opportunities in this field. While research on ageing biomarkers has led to significant progress and applications, further investigations are still necessary. We anticipate that future breakthroughs in this field will involve exploring potential mechanisms, developing biomarkers by combining various data sources or employing new technologies, and validating the clinical value of existing and emerging biomarkers through comprehensive collaboration and longitudinal studies.

鉴于人口老龄化现象前所未有,研究越来越多地捕捉到老龄化过程中的异质性。在这种背景下,“生物年龄”的概念被引入,作为反映个性化老龄化速度的综合措施。确定可靠和强大的年龄生物标志物对于准确的个体风险分层和探索抗衰老干预措施至关重要。已经提出了许多潜在的衰老生物标志物,从分子变化和成像特征到临床表型。在这篇综述中,我们将首先讨论衰老生物标志物的发展,然后我们将提供一个全面的总结目前发现的人类衰老生物标志物,讨论每个生物标志物背后的原理,并从当代的角度强调它们的准确性和临床价值。此外,我们将讨论该领域的挑战、潜在应用和未来机遇。虽然衰老生物标志物的研究已经取得了重大进展和应用,但仍需要进一步的研究。我们预计未来该领域的突破将包括探索潜在的机制,通过结合各种数据源或采用新技术开发生物标志物,以及通过综合合作和纵向研究验证现有和新兴生物标志物的临床价值。
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引用次数: 4
Exploration of the link between COVID-19 and alcoholic hepatitis from the perspective of bioinformatics and systems biology 从生物信息学和系统生物学角度探讨新冠肺炎与酒精性肝炎的关系
Pub Date : 2023-06-05 DOI: 10.1002/mef2.42
Tengda Huang, Bingxuan Yu, Xinyi Zhou, Hongyuan Pan, Ao Du, Jincheng Bai, Xiaoquan Li, Nan Jiang, Jinyi He, Kefei Yuan, Zhen Wang

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been suggested to purpose threats to health of mankind. Alcoholic hepatitis (AH) is a life-threatening acute and chronic liver failure that takes place in sufferers who drink excessively. During the epidemic, AH has an increasing incidence of severe illness and mortality. The intrinsic relationship of molecular pathogenesis, as well as common therapeutic strategies for two diseases are still poorly understood. The transcriptome of the COVID-19 and AH has been compared to obtain the altered genes and hub genes were screened out through protein–protein interaction (PPI) network analysis. Via gene ontology (GO), pathway enrichment, and transcription regulator analysis, a deeper appreciation of the interplay mechanism between hub genes were established. Finally, gene-disease and gene–drug analysis were displayed to instruct the clinical treatments. With 181 common differentially expressed genes (DEGs) of AH and COVID-19 were obtained, 10 hub genes were captured. Follow-up studies located that these 10 genes typically mediated the diseases occurrence by regulating the activities of the immune system. Other results suggest that the common pathways of the two ailments are enriched in regulating the function of immune cells and release of immune molecules. The top 10 drug candidates have been chosen primarily, some of which have been proved effective in treating AH sufferers infected with COVID-19. This study reveals the common pathogenesis of COVID-19 and AH and assist to discover necessary therapeutic targets to combat the ongoing pandemic induced via SARS-CoV-2 infection and acquire promising remedy strategies for the two diseases.

严重急性呼吸系统综合征冠状病毒2型已被认为是对人类健康的威胁。酒精性肝炎(AH)是一种危及生命的急性和慢性肝衰竭,发生在过度饮酒的患者身上。在疫情期间,AH的重症发病率和死亡率不断上升。分子发病机制的内在关系以及这两种疾病的常见治疗策略仍知之甚少。对新冠肺炎和AH的转录组进行了比较,以获得改变的基因,并通过蛋白质-蛋白质相互作用(PPI)网络分析筛选出枢纽基因。通过基因本体论(GO)、通路富集和转录调节因子分析,对中枢基因之间的相互作用机制建立了更深入的认识。最后,展示了基因疾病和基因药物分析,以指导临床治疗。获得了181个AH和新冠肺炎常见差异表达基因(DEGs),捕获了10个枢纽基因。后续研究发现,这10个基因通常通过调节免疫系统的活性来介导疾病的发生。其他结果表明,这两种疾病的共同途径在调节免疫细胞的功能和免疫分子的释放方面很丰富。主要选择了前10名候选药物,其中一些药物已被证明对治疗感染新冠肺炎的AH患者有效。这项研究揭示了新冠肺炎和AH的常见发病机制,并有助于发现必要的治疗靶点,以对抗由SARS-CoV-2感染引发的持续大流行,并获得这两种疾病的有前景的治疗策略。
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引用次数: 0
The inevitable transformation of medicine and research by large language models: The possibilities and pitfalls 医学与大语言模型研究的必然转变:可能性与陷阱
Pub Date : 2023-05-29 DOI: 10.1002/mef2.49
Yuanxu Gao, Daniel T. Baptista-Hon, Kang Zhang

Large language models (LLMs) often refer to artificial intelligence models that consist of extensive parameters and have the ability to understand and generate human-like language. They are typically developed in a self-supervised learning manner and are trained on large quantities of unlabeled text to learn patterns in language. LLMs were initially used in natural language processing (NLP), but they have since been extended to a variety of tasks like processing biological sequences and combining text with other modalities of data. LLMs have the potential to revolutionize the way we approach scientific research and medicine. For example, by leveraging their ability to understand and interpret vast quantities of text data, LLMs can provide insights and make predictions that would otherwise be impossible.

In the medical domain, LLMs can be used to analyze immense electronic health records and improve communication between healthcare professionals and patients. For example, LLMs can be used to automate triage, medical coding, and clinical documentation, which can help to improve the accuracy and efficiency of these processes. They can also be used to improve NLP in medical chatbots and virtual assistants, allowing patients to interact with healthcare services more efficiently and effectively. They can also be used to process medical records and patient data, enabling better diagnoses and more personalized treatments. They can also be used to analyze clinical trial data and identify trends that could lead to better outcomes. Finally, LLMs can also be used to answer medical questions and provide guidance to healthcare professionals, which can help to improve the quality of care. In the accompanying Review, Zheng et al.1 undertake a major effort to write a comprehensive review of this exciting and highly evolving field.

In research, LLMs can be used to search through diverse large datasets and identify patterns that would otherwise be difficult to detect. They can also be used to generate and test hypotheses and to summarize and analyze research papers. It is clear that LLMs will be transforming the way we communicate about medicine and research, and have the potential to revolutionize the field of healthcare.

The current state-of-the-art LLM is Generative Pre-trained Transformer 4 (GPT-4), developed by OpenAI, about which Technical details have not been made public yet.2 Based on publicly available information, the number of parameters is comparable to its previous generation, GPT-3, which consists of 175 billion parameters. GPT-4 is a generative model, meaning it can generate human-like language and even create original content. Other notable LLMs include GPT-3, Bidirectional Encoder Representations from Transformers, and Text-to-Text Transfer Transformers, each with its unique strengths and capabilities. However, one example of an LLM developed specifically for the medical domain i

大型语言模型(llm)通常是指由大量参数组成的人工智能模型,具有理解和生成类人语言的能力。它们通常以自我监督的学习方式发展,并在大量未标记的文本上进行训练,以学习语言模式。llm最初用于自然语言处理(NLP),但它们已经扩展到各种任务,如处理生物序列和将文本与其他形式的数据相结合。法学硕士有可能彻底改变我们从事科学研究和医学的方式。例如,通过利用他们理解和解释大量文本数据的能力,法学硕士可以提供洞察力并做出预测,否则这是不可能的。在医学领域,法学硕士可以用来分析大量的电子健康记录,并改善医疗保健专业人员和患者之间的沟通。例如,llm可用于自动分类、医疗编码和临床文档,这有助于提高这些过程的准确性和效率。它们还可以用于改进医疗聊天机器人和虚拟助手中的NLP,使患者能够更高效地与医疗服务进行互动。它们还可以用于处理医疗记录和患者数据,从而实现更好的诊断和更个性化的治疗。它们还可以用于分析临床试验数据,并确定可能导致更好结果的趋势。最后,法学硕士还可以用来回答医学问题,并为医疗保健专业人员提供指导,这有助于提高护理质量。在随附的综述中,郑等人1承担了主要的工作,对这一令人兴奋和高度发展的领域进行了全面的综述。在研究中,法学硕士可用于搜索不同的大型数据集,并识别难以检测的模式。它们也可以用来产生和检验假设,总结和分析研究论文。很明显,法学硕士将改变我们关于医学和研究的交流方式,并有可能彻底改变医疗保健领域。目前最先进的LLM是由OpenAI开发的生成预训练变压器4 (GPT-4),有关其技术细节尚未公开根据公开信息,参数的数量与上一代GPT-3相当,后者由1750亿个参数组成。GPT-4是一个生成模型,这意味着它可以生成类似人类的语言,甚至可以创建原创内容。其他著名的llm包括GPT-3,双向编码器表示从变压器,和文本到文本传输变压器,每一个都有其独特的优势和能力。然而,专门为医疗领域开发的法学硕士的一个例子是GatorTron,它可以处理和解释电子健康记录。GatorTron是由佛罗里达大学的一组研究人员开发的。该模型在900亿字的文本上进行训练,其中包括820亿字的未识别临床文本。GatorTron在临床概念提取、医学关系提取、语义文本相似度、自然语言推理、医学问答等5个临床NLP任务上均取得了较好的表现。此外,结果表明,扩大参数数量和训练数据的大小可以显著提高这些临床NLP任务的性能。GatorTron准确处理非结构化临床文本的能力可以增强医疗人工智能系统并改善医疗服务。GatorTron是llm为特定领域或行业量身定制的潜力的一个例子,允许在专业领域进行更准确和有效的语言处理。尽管法学硕士在医学和研究方面有许多潜在的好处,但也存在风险和担忧。法学硕士可能被利用来传播虚假信息或操纵公众舆论,例如在全球卫生危机期间。法学硕士也从根本上接受了所有可用信息或数据的培训,包括不准确和偏差。这些不准确和偏差可以反映在幻觉的输出中,幻觉指的是生成文本中的错误,这些错误在语义或语法上是合理的,但实际上是不正确或荒谬的。法学硕士也存在隐私问题,因为他们可能会访问和处理敏感的个人数据。最终很难让法学硕士对他们的产出负责。因此,责任最终取决于用户。人类对法学硕士产出的监督和治理,特别是在医学和研究方面,是至关重要的。 通过临床试验,在医疗保健领域实施法学硕士必须遵守与任何其他新干预措施相同的严格性和标准,以证明法学硕士的应用至少不逊于目前的方法。最终,在医学和研究中使用法学硕士需要所有利益相关者共同承担责任,包括研究人员、技术公司、监管机构和整个社会。法学硕士的力量和潜力意味着它将继续存在,它的广泛实施是不可避免的。对其潜力的认识和合乎道德的实施对于确保负责任地使用它们并造福所有人至关重要。高元旭、Daniel T. Baptista-Hon和张康撰写了手稿。所有作者都阅读并批准了最终稿件。作者声明无利益冲突。
{"title":"The inevitable transformation of medicine and research by large language models: The possibilities and pitfalls","authors":"Yuanxu Gao,&nbsp;Daniel T. Baptista-Hon,&nbsp;Kang Zhang","doi":"10.1002/mef2.49","DOIUrl":"10.1002/mef2.49","url":null,"abstract":"<p>Large language models (LLMs) often refer to artificial intelligence models that consist of extensive parameters and have the ability to understand and generate human-like language. They are typically developed in a self-supervised learning manner and are trained on large quantities of unlabeled text to learn patterns in language. LLMs were initially used in natural language processing (NLP), but they have since been extended to a variety of tasks like processing biological sequences and combining text with other modalities of data. LLMs have the potential to revolutionize the way we approach scientific research and medicine. For example, by leveraging their ability to understand and interpret vast quantities of text data, LLMs can provide insights and make predictions that would otherwise be impossible.</p><p>In the medical domain, LLMs can be used to analyze immense electronic health records and improve communication between healthcare professionals and patients. For example, LLMs can be used to automate triage, medical coding, and clinical documentation, which can help to improve the accuracy and efficiency of these processes. They can also be used to improve NLP in medical chatbots and virtual assistants, allowing patients to interact with healthcare services more efficiently and effectively. They can also be used to process medical records and patient data, enabling better diagnoses and more personalized treatments. They can also be used to analyze clinical trial data and identify trends that could lead to better outcomes. Finally, LLMs can also be used to answer medical questions and provide guidance to healthcare professionals, which can help to improve the quality of care. In the accompanying Review, Zheng et al.<span><sup>1</sup></span> undertake a major effort to write a comprehensive review of this exciting and highly evolving field.</p><p>In research, LLMs can be used to search through diverse large datasets and identify patterns that would otherwise be difficult to detect. They can also be used to generate and test hypotheses and to summarize and analyze research papers. It is clear that LLMs will be transforming the way we communicate about medicine and research, and have the potential to revolutionize the field of healthcare.</p><p>The current state-of-the-art LLM is Generative Pre-trained Transformer 4 (GPT-4), developed by OpenAI, about which Technical details have not been made public yet.<span><sup>2</sup></span> Based on publicly available information, the number of parameters is comparable to its previous generation, GPT-3, which consists of 175 billion parameters. GPT-4 is a generative model, meaning it can generate human-like language and even create original content. Other notable LLMs include GPT-3, Bidirectional Encoder Representations from Transformers, and Text-to-Text Transfer Transformers, each with its unique strengths and capabilities. However, one example of an LLM developed specifically for the medical domain i","PeriodicalId":74135,"journal":{"name":"MedComm - Future medicine","volume":"2 2","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/mef2.49","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47689815","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Accelerating the integration of ChatGPT and other large-scale AI models into biomedical research and healthcare 加快ChatGPT和其他大规模人工智能模型在生物医学研究和医疗保健领域的整合
Pub Date : 2023-05-17 DOI: 10.1002/mef2.43
Ding-Qiao Wang, Long-Yu Feng, Jin-Guo Ye, Jin-Gen Zou, Ying-Feng Zheng

Large-scale artificial intelligence (AI) models such as ChatGPT have the potential to improve performance on many benchmarks and real-world tasks. However, it is difficult to develop and maintain these models because of their complexity and resource requirements. As a result, they are still inaccessible to healthcare industries and clinicians. This situation might soon be changed because of advancements in graphics processing unit (GPU) programming and parallel computing. More importantly, leveraging existing large-scale AIs such as GPT-4 and Med-PaLM and integrating them into multiagent models (e.g., Visual-ChatGPT) will facilitate real-world implementations. This review aims to raise awareness of the potential applications of these models in healthcare. We provide a general overview of several advanced large-scale AI models, including language models, vision-language models, graph learning models, language-conditioned multiagent models, and multimodal embodied models. We discuss their potential medical applications in addition to the challenges and future directions. Importantly, we stress the need to align these models with human values and goals, such as using reinforcement learning from human feedback, to ensure that they provide accurate and personalized insights that support human decision-making and improve healthcare outcomes.

ChatGPT等大规模人工智能(AI)模型有可能提高许多基准测试和现实世界任务的性能。然而,由于这些模型的复杂性和资源需求,很难开发和维护它们。因此,医疗保健行业和临床医生仍然无法获得这些数据。由于图形处理单元(GPU)编程和并行计算的进步,这种情况可能很快就会改变。更重要的是,利用现有的大规模人工智能,如GPT-4和Med-PaLM,并将它们集成到多智能体模型(例如,Visual-ChatGPT)中,将促进现实世界的实现。这篇综述旨在提高对这些模型在医疗保健中的潜在应用的认识。我们提供了几个先进的大规模人工智能模型的总体概述,包括语言模型、视觉语言模型、图学习模型、语言条件多智能体模型和多模态体现模型。除了面临的挑战和未来的方向外,我们还讨论了它们的潜在医疗应用。重要的是,我们强调需要使这些模型与人类的价值观和目标保持一致,例如使用基于人类反馈的强化学习,以确保它们提供准确和个性化的见解,从而支持人类的决策并改善医疗保健结果。
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引用次数: 15
The distribution pattern of corneal volume in Chinese myopic patients from multiple centers 多中心中国近视患者角膜体积分布规律分析
Pub Date : 2023-05-07 DOI: 10.1002/mef2.44
Changting Tang, Linyuan Qin, Wei Wang, Suqing Lu, Yinan Li, Ying Fang, Honghua Yu, Yijun Hu

Corneal volume (CV) is a useful index for detecting forme fruste keratoconus from normal corneas. It can be used to evaluate the whole cornea, since it can measure corneal areas up to 10 mm in diameter. Thus, CV has become the clinicians' interest as a diagnostic tool of corneal ectatic disease and a measure of corneal integrity to determine suitability for refractive surgery. We conducted a cross-sectional study including 7893 myopic patients from five ophthalmic centers to investigate the distribution pattern of CV. Our study showed that distribution of CV-3, CV-5, and CV-7 mm were slightly positively skewed and the 2.5th to 97.5th percentiles were 3.6–4.4, 10.4–12.8, 22.5–27.5 mm3, respectively. Central corneal thickness (CCT) was significantly correlated with CV in all measurement regions. The correlation between CV and CCT showed an inconsistent trend with the increase of age. The correlation coefficient between CV and CCT did not change significantly with the increase of myopia degree in low to moderate myopia, but fluctuated significantly in high myopia (less than −6.0 diopters). According to our results, corneal volume follows a slightly positively skewed distribution pattern in myopic Chinese patients. The information is useful for screening refractive surgery candidates and assessing the risk of corneal refractive surgery.

角膜体积(CV)是一项有效的指标,可以从正常角膜中检测出结痂性圆锥角膜。它可以用来评估整个角膜,因为它可以测量直径达10毫米的角膜区域。因此,CV已成为临床医生的兴趣,作为角膜膨胀性疾病的诊断工具和角膜完整性的衡量标准,以确定是否适合屈光手术。我们对来自5个眼科中心的7893名近视患者进行了横断面研究,以调查CV的分布模式。我们的研究表明,CV-3、CV-5和CV-7 mm的分布呈轻微正偏,第2.5 ~ 97.5百分位分别为3.6 ~ 4.4、10.4 ~ 12.8、22.5 ~ 27.5 mm3。在所有测量区域,角膜中央厚度(CCT)与CV显著相关。CV与CCT的相关性随年龄的增长呈现不一致的趋势。低中度近视CV与CCT的相关系数随近视度数的增加无显著变化,而高度近视(小于- 6.0屈光度)CV与CCT的相关系数有显著波动。根据我们的研究结果,中国近视患者的角膜体积遵循轻微正偏的分布模式。这些信息对筛选屈光手术候选人和评估角膜屈光手术的风险是有用的。
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引用次数: 0
A multiparameter radiomic model for accurate prognostic prediction of glioma 用于胶质瘤准确预后预测的多参数放射学模型
Pub Date : 2023-04-24 DOI: 10.1002/mef2.41
Yan Li, Li Bao, Caiwei Yang, Zhenglong Deng, Xin Zhang, Pin Xu, Xiaorui Su, Fanxin Zeng, Mir Q. U. Mehrabi, Qiang Yue, Bin Song, Qiyong Gong, Su Lui, Min Wu

An accurate prediction of prognosis is important for clinical treatments of glioma. In this study, a multiparameter radiomic model is proposed for accurate prognostic prediction of glioma. Three kinds of region of interest were extracted from preoperative postcontrast T1-weighted images and T2 fluid-attenuated inversion recovery images acquired from 140 glioma patients. Radiomics score (Radscore) was calculated and the conventional image features and clinical molecular characteristics that may be related to progression-free survival (PFS) were evaluated. Five uniparameter and various combinations of biparameter and multiparameter models based on above characteristics were built. The performance of these models was evaluated by concordance index (C index), and the nomogram of the multiparameter radiomic model was constructed. The results show that the proposed multiparameter radiomic model has a better prediction performance than other models. In the training and validation sets, the calibration curves of the multiparameter radiomic model for the 1-, 2-, and 3-year PFS probability demonstrate a high consistence between predictions and observations. In conclusion, this study demonstrates that the multiparameter radiomic model based on Radscore, conventional image features and clinical molecular characteristics can improve the prediction accuracy of glioma prognosis, which could be informative for individualized treatments.

准确预测胶质瘤的预后对临床治疗具有重要意义。在这项研究中,提出了一个多参数放射学模型,以准确预测胶质瘤的预后。从140例胶质瘤患者术前对比t1加权图像和T2液体衰减反演恢复图像中提取3种感兴趣的区域。计算放射组学评分(Radscore),并评估可能与无进展生存期(PFS)相关的常规图像特征和临床分子特征。基于上述特点,建立了5个单参数模型和多种双参数、多参数组合模型。采用一致性指数(C指数)对模型的性能进行了评价,并构建了多参数放射学模型的模态图。结果表明,所提出的多参数放射学模型具有较好的预测性能。在训练集和验证集中,多参数辐射模型对1年、2年和3年PFS概率的校准曲线在预测和观测之间表现出较高的一致性。综上所述,本研究表明基于Radscore、常规影像特征和临床分子特征的多参数放射学模型可以提高胶质瘤预后预测的准确性,为个性化治疗提供信息。
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引用次数: 0
期刊
MedComm - Future medicine
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