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Deep learning empowered sensor fusion boosts infant movement classification. 深度学习的传感器融合增强了婴儿运动分类。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-14 DOI: 10.1038/s43856-024-00701-w
Tomas Kulvicius, Dajie Zhang, Luise Poustka, Sven Bölte, Lennart Jahn, Sarah Flügge, Marc Kraft, Markus Zweckstetter, Karin Nielsen-Saines, Florentin Wörgötter, Peter B Marschik

Background: To assess the integrity of the developing nervous system, the Prechtl general movement assessment (GMA) is recognized for its clinical value in diagnosing neurological impairments in early infancy. GMA has been increasingly augmented through machine learning approaches intending to scale-up its application, circumvent costs in the training of human assessors and further standardize classification of spontaneous motor patterns. Available deep learning tools, all of which are based on single sensor modalities, are however still considerably inferior to that of well-trained human assessors. These approaches are hardly comparable as all models are designed, trained and evaluated on proprietary/silo-data sets.

Methods: With this study we propose a sensor fusion approach for assessing fidgety movements (FMs). FMs were recorded from 51 typically developing participants. We compared three different sensor modalities (pressure, inertial, and visual sensors). Various combinations and two sensor fusion approaches (late and early fusion) for infant movement classification were tested to evaluate whether a multi-sensor system outperforms single modality assessments. Convolutional neural network (CNN) architectures were used to classify movement patterns.

Results: The performance of the three-sensor fusion (classification accuracy of 94.5%) is significantly higher than that of any single modality evaluated.

Conclusions: We show that the sensor fusion approach is a promising avenue for automated classification of infant motor patterns. The development of a robust sensor fusion system may significantly enhance AI-based early recognition of neurofunctions, ultimately facilitating automated early detection of neurodevelopmental conditions.

背景:为了评估发育中的神经系统的完整性,Prechtl一般运动评估(GMA)被认为在诊断早期婴儿神经损伤方面具有临床价值。通过机器学习方法,GMA已经得到了越来越多的增强,这些方法旨在扩大其应用范围,规避人类评估员培训的成本,并进一步标准化自发运动模式的分类。然而,现有的深度学习工具都是基于单一传感器模式的,与训练有素的人类评估人员相比,它们仍然相当逊色。这些方法几乎没有可比性,因为所有模型都是在专有/孤岛数据集上设计、训练和评估的。方法:在这项研究中,我们提出了一种传感器融合方法来评估烦躁运动(FMs)。记录了51名典型发展参与者的FMs。我们比较了三种不同的传感器模式(压力、惯性和视觉传感器)。对婴儿运动分类的各种组合和两种传感器融合方法(后期和早期融合)进行了测试,以评估多传感器系统是否优于单模态评估。使用卷积神经网络(CNN)架构对运动模式进行分类。结果:三传感器融合的分类准确率为94.5%,明显高于任何一种评估的单一模式。结论:我们表明,传感器融合方法是一个有前途的途径,自动分类婴儿运动模式。鲁棒传感器融合系统的发展可能会显著增强基于人工智能的神经功能早期识别,最终促进神经发育状况的自动化早期检测。
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引用次数: 0
Release of apoptosis inhibitor of macrophage (AIM) from pentameric IgM in serum predicts prognosis after hemodialysis initiation. 血清五聚体IgM中巨噬细胞凋亡抑制剂(AIM)的释放预测血液透析开始后的预后。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-11 DOI: 10.1038/s43856-025-00735-8
Keisuke Yasuda, Akemi Nishijima, Tomoko Inoue, Toshio Takagi, Kazunari Tanabe, Jun Minakuchi, Satoko Arai, Toru Miyazaki

Background: The optimal timing for initiating dialysis and prognostic markers in chronic kidney disease (CKD) patients are under debate, with mortality and cardiovascular risks varying among patients. This study investigates whether the apoptosis inhibitor of macrophage (AIM), which is mostly bound to pentameric IgM, could serve as an effective indicator.

Methods: We prospectively followed 423 patients at dialysis initiation and 563 at various CKD stages. AIM dissociation from IgM and other serum components were measured in their serum samples. In vitro treatment of IgM-AIM complexes with their serum was conducted to assess AIM release from IgM. Survival analysis determined the associations of each variable with mortality and cardiovascular risk, and a cutoff value was calculated and validated using cross-validation.

Results: AIM dissociation from IgM increases with CKD progression and correlates with the serum uremic state, as shown by enhanced AIM release from IgM in vitro with sera from patients starting dialysis, but not those at earlier CKD stages. Patients at dialysis initiation with high proportion of serum IgM-free AIM (fAIM%) show elevated uremic toxins and other toxic metabolites, higher mortality, and increased cardiovascular risk compared to those with low fAIM%. This prognostic association is not seen with other CKD biomarkers, such as eGFR, creatinine, or inositol-phosphate. We determined the fAIM% cutoff of 46.27%, which predicts mortality two years post-dialysis initiation.

Conclusions: These findings suggest that the serum fAIM% could function as a prognostic marker at dialysis initiation and may have potential as a criterion for determining dialysis timing.

背景:慢性肾脏疾病(CKD)患者开始透析的最佳时机和预后指标存在争议,患者的死亡率和心血管风险各不相同。巨噬细胞凋亡抑制剂(apoptosis inhibitor of macrophage, AIM)主要与五聚体IgM结合,本研究探讨其能否作为一种有效的指标。方法:我们对423例透析起始患者和563例不同CKD分期患者进行前瞻性随访。测定其血清样品中AIM与IgM及其他血清成分的分离程度。用IgM-AIM复合物的血清进行体外处理,以评估IgM对AIM的释放。生存分析确定了每个变量与死亡率和心血管风险的关联,并计算了截断值,并使用交叉验证进行了验证。结果:AIM与IgM的分离随着CKD的进展而增加,并与血清尿毒症状态相关,正如开始透析的患者血清中IgM的AIM释放增强所显示的那样,但在早期CKD阶段则没有。在透析开始时,血清中不含igm的AIM (fAIM%)比例高的患者与低fAIM%的患者相比,尿毒症毒素和其他有毒代谢物升高,死亡率更高,心血管风险增加。这种预后相关性在其他CKD生物标志物如eGFR、肌酐或肌醇-磷酸中未见。我们确定fAIM的临界值为46.27%,预测透析开始两年后的死亡率。结论:这些发现表明,血清饥饿率可以作为透析开始时的预后指标,并可能作为确定透析时机的标准。
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引用次数: 0
Longitudinal study of care needs and behavioural changes in people living with dementia using in-home assessment data. 利用家庭评估数据对痴呆症患者的护理需求和行为改变进行纵向研究。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-10 DOI: 10.1038/s43856-024-00724-3
Chloe Walsh, Alexander Capstick, Nan Fletcher-Lloyd, Jessica True, Ramin Nilforooshan, Payam Barnaghi

Background: People living with dementia often experience changes in independence and daily living, affecting their well-being and quality of life. Behavioural changes correlate with cognitive decline, functional impairment, caregiver distress, and care availability.

Methods: We use data from a 3-year prospective observational study of 141 people with dementia at home, using the Bristol Activities of Daily Living Scale, Neuropsychiatric Inventory and cognitive assessments, alongside self-reported and healthcare-related data.

Results: Here we show, psychiatric behavioural symptoms and difficulties in activities of daily living, fluctuate alongside cognitive decline. 677 activities of daily living and 632 psychiatric behaviour questionnaires are available at intervals of 3 months. Clustering shows three severity-based groups. Mild cognitive decline associates with higher caregiver anxiety, while the most severe group interacts more with community services, but less with hospitals.

Conclusions: We characterise behavioural symptoms and difficulties in activities of daily living in dementia, offering clinically relevant insights not commonly considered in current practice. We provide a holistic overview of participants' health during their progression of dementia.

背景:痴呆症患者经常经历独立性和日常生活的变化,影响他们的幸福感和生活质量。行为改变与认知能力下降、功能障碍、照顾者痛苦和护理的可获得性有关。方法:我们使用的数据来自一项为期3年的前瞻性观察研究,共有141名痴呆症患者在家,使用布里斯托尔日常生活活动量表、神经精神量表和认知评估,以及自我报告和医疗保健相关数据。结果:在这里,我们表明,精神行为症状和日常生活活动困难,随认知能力下降而波动。每隔3个月提供677项日常生活活动和632份精神病学行为问卷。聚类显示了三个基于严重性的组。轻度认知能力下降与较高的照顾者焦虑有关,而最严重的群体与社区服务的互动更多,与医院的互动较少。结论:我们描述了痴呆症患者的行为症状和日常生活活动困难,提供了当前实践中通常未考虑的临床相关见解。我们提供了参与者的健康在他们的痴呆症进展的整体概述。
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引用次数: 0
Applying Normalisation Process Theory to a peer-delivered complex health intervention for people experiencing homelessness and problem substance use. 将正常化过程理论应用于对经历无家可归和问题物质使用的人的同伴交付的复杂健康干预。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-10 DOI: 10.1038/s43856-024-00721-6
Rebecca Foster, Hannah Carver, Catriona Matheson, Bernie Pauly, Jason Wallace, Graeme MacLennan, John Budd, Tessa Parkes

Background: The Supporting Harm Reduction through Peer Support (SHARPS) study involved designing and implementing a peer-delivered, harm reduction intervention for people experiencing homelessness and problem substance use. Normalisation Process Theory (NPT) provided a framework for the study.

Methods: Four Peer Navigators (individuals with personal experience of problem substance use and/or homelessness) were recruited and hosted in six third sector (not-for-profit) homelessness services in Scotland and England (United Kingdom). Each worked with participants to provide practical and emotional support, with the aim of reducing harms, and improving well-being, social functioning and quality of life. NPT guided the development of the intervention and, the process evaluation, which assessed the acceptability and feasibility of the intervention for this cohort who experience distinct, and often unmet, health challenges. While mixed-methods data collection was undertaken, this paper draws only on the qualitative data.

Results: The study found that, overall, the intervention is feasible, and acceptable to, the intervention participants, the Peer Navigators and staff in host settings. Some challenges were encountered but these were outweighed by benefits. NPT is particularly useful in encouraging our team to focus on the relationship between different aspects of the intervention and context(s) and identify ways of maximising 'fit'.

Conclusions: To our knowledge, this is the first application of NPT to this cohort, and specifically by non-clinicians (peers) in non-healthcare settings (homelessness services). Our application of NPT helped us to identify ways in which the intervention could be enhanced, with the key aim of improving the health/well-being of this underserved group.

背景:通过同伴支持支持减少伤害(SHARPS)研究涉及为无家可归和问题物质使用的人设计和实施同伴交付的减少伤害干预。正常化过程理论(NPT)为研究提供了一个框架。方法:在苏格兰和英格兰(联合王国)的六个第三部门(非营利)无家可归服务机构招募了四名同伴导航员(个人有问题物质使用和/或无家可归的经历)。每个人都与参与者一起工作,提供实际和情感上的支持,目的是减少伤害,改善幸福感,社会功能和生活质量。《不扩散条约》指导了干预措施的制定和过程评价,评估了这一群体的可接受性和干预措施的可行性,他们面临着独特的、往往未得到满足的健康挑战。虽然采用混合方法收集数据,但本文仅利用定性数据。结果:研究发现,总体而言,干预是可行的,并且被干预参与者,同伴导航员和主机设置中的工作人员所接受。我们遇到了一些挑战,但这些挑战都被好处所抵消。NPT在鼓励我们的团队关注修井不同方面与环境之间的关系,并确定最大化“契合度”的方法方面尤其有用。结论:据我们所知,这是NPT首次应用于该队列,特别是非医疗机构(无家可归者服务)的非临床医生(同行)。我们对《不扩散条约》的适用帮助我们确定了可以加强干预的方式,其主要目标是改善这一服务不足群体的健康/福祉。
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引用次数: 0
Consuming a modified Mediterranean ketogenic diet reverses the peripheral lipid signature of Alzheimer's disease in humans. 食用改良的地中海生酮饮食可逆转人类阿尔茨海默病的外周脂质特征。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-09 DOI: 10.1038/s43856-024-00682-w
Bryan J Neth, Kevin Huynh, Corey Giles, Tingting Wang, Natalie A Mellett, Thy Duong, Colette Blach, Leyla Schimmel, Thomas C Register, Kaj Blennow, Henrik Zetterberg, Richa Batra, Annalise Schweickart, Amanda Hazel Dilmore, Cameron Martino, Matthias Arnold, Jan Krumsiek, Xianlin Han, Pieter C Dorrestein, Rob Knight, Peter J Meikle, Suzanne Craft, Rima Kaddurah-Daouk

Background: Alzheimer's disease (AD) is a major neurodegenerative disorder with significant environmental factors, including diet and lifestyle, influencing its onset and progression. Although previous studies have suggested that certain diets may reduce the incidence of AD, the underlying mechanisms remain unclear.

Method: In this post-hoc analysis of a randomized crossover study of 20 elderly adults, we investigated the effects of a modified Mediterranean ketogenic diet (MMKD) on the plasma lipidome in the context of AD biomarkers, analyzing 784 lipid species across 47 classes using a targeted lipidomics platform.

Results: Here we identified substantial changes in response to MMKD intervention, aside from metabolic changes associated with a ketogenic diet, we identified a a global elevation across all plasmanyl and plasmenyl ether lipid species, with many changes linked to clinical and biochemical markers of AD. We further validated our findings by leveraging our prior clinical studies into lipid related changeswith AD (n = 1912), and found that the lipidomic signature with MMKD was inversely associated with the lipidomic signature of prevalent and incident AD.

Conclusions: Intervention with a MMKD was able to alter the plasma lipidome in ways that contrast with AD-associated patterns. Given its low risk and cost, MMKD could be a promising approach for prevention or early symptomatic treatment of AD.

背景:阿尔茨海默病(AD)是一种主要的神经退行性疾病,饮食和生活方式等环境因素对其发病和进展有重要影响。尽管先前的研究表明,某些饮食可能会降低AD的发病率,但其潜在机制尚不清楚。方法:在这项随机交叉研究的20名老年人的事后分析中,我们研究了改良的地中海生酮饮食(MMKD)对AD生物标志物背景下血浆脂质组的影响,使用靶向脂质组学平台分析了47类784种脂质。结果:在这里,我们发现了对MMKD干预的实质性变化,除了与生酮饮食相关的代谢变化外,我们还发现了所有浆蛋白基和浆蛋白基醚类脂质的全球升高,其中许多变化与AD的临床和生化标志物有关。我们进一步验证了我们的发现,利用我们之前的临床研究脂质与AD相关的变化(n = 1912),发现MMKD的脂质组学特征与流行和偶发AD的脂质组学特征呈负相关。结论:MMKD干预能够以与ad相关模式相反的方式改变血浆脂质组。由于其低风险和低成本,MMKD可能是一种有希望的预防或早期对症治疗AD的方法。
{"title":"Consuming a modified Mediterranean ketogenic diet reverses the peripheral lipid signature of Alzheimer's disease in humans.","authors":"Bryan J Neth, Kevin Huynh, Corey Giles, Tingting Wang, Natalie A Mellett, Thy Duong, Colette Blach, Leyla Schimmel, Thomas C Register, Kaj Blennow, Henrik Zetterberg, Richa Batra, Annalise Schweickart, Amanda Hazel Dilmore, Cameron Martino, Matthias Arnold, Jan Krumsiek, Xianlin Han, Pieter C Dorrestein, Rob Knight, Peter J Meikle, Suzanne Craft, Rima Kaddurah-Daouk","doi":"10.1038/s43856-024-00682-w","DOIUrl":"10.1038/s43856-024-00682-w","url":null,"abstract":"<p><strong>Background: </strong>Alzheimer's disease (AD) is a major neurodegenerative disorder with significant environmental factors, including diet and lifestyle, influencing its onset and progression. Although previous studies have suggested that certain diets may reduce the incidence of AD, the underlying mechanisms remain unclear.</p><p><strong>Method: </strong>In this post-hoc analysis of a randomized crossover study of 20 elderly adults, we investigated the effects of a modified Mediterranean ketogenic diet (MMKD) on the plasma lipidome in the context of AD biomarkers, analyzing 784 lipid species across 47 classes using a targeted lipidomics platform.</p><p><strong>Results: </strong>Here we identified substantial changes in response to MMKD intervention, aside from metabolic changes associated with a ketogenic diet, we identified a a global elevation across all plasmanyl and plasmenyl ether lipid species, with many changes linked to clinical and biochemical markers of AD. We further validated our findings by leveraging our prior clinical studies into lipid related changeswith AD (n = 1912), and found that the lipidomic signature with MMKD was inversely associated with the lipidomic signature of prevalent and incident AD.</p><p><strong>Conclusions: </strong>Intervention with a MMKD was able to alter the plasma lipidome in ways that contrast with AD-associated patterns. Given its low risk and cost, MMKD could be a promising approach for prevention or early symptomatic treatment of AD.</p>","PeriodicalId":72646,"journal":{"name":"Communications medicine","volume":"5 1","pages":"11"},"PeriodicalIF":5.4,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11711287/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142959295","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: 0
Bone marrow transplantation reverses metabolic alterations in multiple sulfatase deficiency: a case series. 骨髓移植逆转多重磺胺酶缺乏症的代谢改变:一个病例系列。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-09 DOI: 10.1038/s43856-024-00703-8
Nishitha R Pillai, Ning Liu, Xiyuan Li, Xiqi Li, Rebecca Ahrens-Nicklas, Laura Adang, Julie B Eisengart, Grace Bronken, Ashish Gupta, Troy C Lund, Chester B Whitley, Sarah H Elsea, Paul J Orchard

Background: Multiple sulfatase deficiency (MSD) is an exceptionally rare neurodegenerative disorder due to the absence or deficiency of 17 known cellular sulfatases. The activation of all these cellular sulfatases is dependent on the presence of the formylglycine-generating enzyme, which is encoded by the SUMF1 gene. Disease-causing homozygous or compound heterozygous variants in SUMF1 result in MSD. Other than symptomatic treatment, no curative therapy exists as of yet for MSD. Eight out of these 17 sulfatases are primarily localized in the lysosome.

Methods: Two siblings with attenuated MSD underwent hematopoietic cell transplantation (HCT), evaluating the possibility of lysosomal enzymatic cross-correction from the donor cells.

Results: There is evidence of correction of currently available biomarkers within 3 months post-HCT. Untargeted metabolomics also shows continued correction of multiple biochemical abnormalities in the post-HCT period. Furthermore, this article also presents the neuropsychological outcomes of these children as well as the results of untargeted metabolomics analysis in this condition.

Conclusions: These data suggest biochemical benefits post-transplant along with slowing of disease progression. Long-term follow-up is necessary to fully evaluate the therapeutic benefit of HCT in MSD.

背景:多发性硫酸酯酶缺乏症(MSD)是一种罕见的神经退行性疾病,由于17种已知的细胞硫酸酯酶缺失或缺乏。所有这些细胞硫酸酯酶的激活都依赖于由SUMF1基因编码的甲酰基甘氨酸生成酶的存在。致病的SUMF1纯合子或复合杂合子变异导致MSD。除了对症治疗外,目前还没有针对默沙症的有效治疗方法。这17种磺化酶中有8种主要定位于溶酶体。方法:两名患有减毒MSD的兄弟姐妹接受了造血细胞移植(HCT),评估供体细胞溶酶体酶交叉校正的可能性。结果:有证据表明,hct后3个月内现有的生物标志物得到了纠正。非靶向代谢组学也显示在hct后持续纠正多种生化异常。此外,本文还介绍了这些儿童的神经心理结果以及这种情况下的非靶向代谢组学分析结果。结论:这些数据表明移植后的生化益处伴随着疾病进展的减缓。为了充分评价HCT治疗MSD的疗效,有必要进行长期随访。
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引用次数: 0
Rehabilitation of human hearing with a totally implantable cochlear implant: a feasibility study. 用完全植入式人工耳蜗恢复人类听力的可行性研究。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-08 DOI: 10.1038/s43856-024-00719-0
Philippe Pierre Lefebvre, Joachim Müller, Gerhard Mark, Florian Schwarze, Ingeborg Hochmair

Background: Cochlear implants (CIs) are neuroprosthetic devices which restore hearing in severe-to-profound hearing loss through electrical stimulation of the auditory nerve. Current CIs use an externally worn audio processor. A long-term goal in the field has been to develop a device in which all components are contained within a single implant. Here, we present initial clinical results with the totally implantable cochlear implant (TICI). The primary objective of this study was to assess the safety of the device in adults who suffer from bilateral severe-to-profound sensorineural hearing loss.

Methods: This study used a design with non-randomized single group assignment (trial registration: NCT04571333). Six implantations took place beginning in September 2020. Data collection took place at the two participating CI centers. Adverse events (the primary outcome), speech perception, patient reported outcomes, and device usage statistics were collected over the subsequent 52 weeks. A within-subjects comparison was used in which each participant was evaluated both with the TICI and with an external SONNET audio processor.

Results: One anticipated serious adverse device effect (ASADE) occurred. After treatment the event resolved without sequelae. No unanticipated serious adverse device effects (USADE) occurred. Speech perception in quiet and in noise scores were comparable between the TICI and the SONNET audio processor. Scores on the validated patient reported outcome instruments HUI3, SSQ-12, and HISQUI-19 all increased over the duration of the study. User satisfaction scores as reported in their daily diary also increased over the duration of the study. Based on device usage metrics, all but one user used the TICI without an external processor the majority of the time.

Conclusions: The primary outcome of assessing the safety of the device was achieved. The TICI provides high levels of hearing performance, comparable to those of a conventional CI. The development of the TICI expands the range of options for treatment of hearing loss.

背景:人工耳蜗是一种神经修复装置,通过电刺激听神经来恢复重度至重度听力损失患者的听力。目前的ci使用外接式音频处理器。该领域的长期目标是开发一种设备,其中所有组件都包含在单个植入物中。在这里,我们介绍了完全植入式人工耳蜗(TICI)的初步临床结果。本研究的主要目的是评估该装置在患有双侧重度到深度感音神经性听力损失的成年人中的安全性。方法:本研究采用非随机单组设计(试验注册号:NCT04571333)。从2020年9月开始,进行了六次植入。数据收集在两个参与的CI中心进行。在随后的52周内收集不良事件(主要结局)、语音感知、患者报告的结局和设备使用统计数据。使用受试者内部比较,其中每个参与者都使用TICI和外部SONNET音频处理器进行评估。结果:发生1例预期严重器械不良反应(ASADE)。治疗后,症状消失,无后遗症。未发生意外的严重器械不良反应(USADE)。TICI和SONNET音频处理器在安静和噪音方面的语音感知得分相当。在研究期间,经过验证的患者报告结果工具HUI3、SSQ-12和hiski -19的评分均有所增加。在研究期间,用户在日常日记中报告的满意度得分也有所增加。根据设备使用指标,除了一个用户之外,大多数时间都在使用没有外部处理器的TICI。结论:达到了评估该装置安全性的主要结果。TICI提供了高水平的听力表现,可与传统CI相媲美。TICI的发展扩大了治疗听力损失的选择范围。
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引用次数: 0
Gene signatures derived from transcriptomic-causal networks stratify colorectal cancer patients for effective targeted therapy. 来自转录组因果网络的基因特征为结直肠癌患者分层提供有效的靶向治疗。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-08 DOI: 10.1038/s43856-024-00728-z
Akram Yazdani, Heinz-Josef Lenz, Gianluigi Pillonetto, Raul Mendez-Giraldez, Azam Yazdani, Hanna Sanoff, Reza Hadi, Esmat Samiei, Alan P Venook, Mark J Ratain, Naim Rashid, Benjamin G Vincent, Xueping Qu, Yujia Wen, Michael Kosorok, William F Symmans, John Paul Y C Shen, Michael S Lee, Scott Kopetz, Andrew B Nixon, Monica M Bertagnolli, Charles M Perou, Federico Innocenti

Background: Gene signatures derived from transcriptomic-causal networks offer potential for tailoring clinical care in cancer treatment by identifying predictive and prognostic biomarkers. This study aimed to uncover such signatures in metastatic colorectal cancer (CRC) patients to aid treatment decisions.

Methods: We constructed transcriptomic-causal networks and integrated gene interconnectivity into overall survival (OS) analysis to control for confounding genes. This integrative approach involved germline genotype and tumor RNA-seq data from 1165 metastatic CRC patients. The patients were enrolled in a randomized clinical trial receiving either cetuximab or bevacizumab in combination with chemotherapy. An external cohort of paired CRC normal and tumor samples, along with protein-protein interaction databases, was used for replication.

Results: We identify promising predictive and prognostic gene signatures from pre-treatment gene expression profiles. Our study discerns sets of genes, each forming a signature that collectively contribute to define patient subgroups with different prognosis and response to the therapies. Using an external cohort, we show that the genes influencing OS within the signatures, such as FANCI and PRC1, are upregulated in CRC tumor vs. normal tissue. These signatures are highly associated with immune features, including macrophages, cytotoxicity, and wound healing. Furthermore, the corresponding proteins encoded by the genes within the signatures interact with each other and are functionally related.

Conclusions: This study underscores the utility of gene signatures derived from transcriptomic-causal networks in patient stratification for effective therapies. The interpretability of the findings, supported by replication, highlights the potential of these signatures to identify patients likely to benefit from cetuximab or bevacizumab.

背景:来自转录组因果网络的基因特征通过识别预测性和预后生物标志物,为癌症治疗的临床护理提供了潜力。本研究旨在揭示转移性结直肠癌(CRC)患者的这些特征,以帮助治疗决策。方法:我们构建转录组因果网络,并将基因互联性整合到总生存(OS)分析中,以控制混杂基因。该综合方法涉及来自1165例转移性结直肠癌患者的种系基因型和肿瘤RNA-seq数据。患者被纳入一项随机临床试验,接受西妥昔单抗或贝伐单抗联合化疗。使用配对的CRC正常和肿瘤样本的外部队列,以及蛋白质-蛋白质相互作用数据库进行复制。结果:我们从治疗前基因表达谱中确定了有希望的预测和预后基因特征。我们的研究发现了一组基因,每组基因都形成了一个特征,共同有助于定义具有不同预后和对治疗反应的患者亚组。通过外部队列研究,我们发现影响OS的基因,如FANCI和PRC1,在CRC肿瘤中与正常组织相比表达上调。这些特征与免疫特征高度相关,包括巨噬细胞、细胞毒性和伤口愈合。此外,签名内基因编码的相应蛋白质相互作用,并在功能上相关。结论:这项研究强调了来自转录组因果网络的基因特征在患者分层中有效治疗的效用。这些发现的可解释性,以及重复性的支持,突出了这些特征在识别可能受益于西妥昔单抗或贝伐单抗的患者方面的潜力。
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引用次数: 0
Genetically engineered pig heart transplantation in non-human primates. 非人类灵长类动物的基因工程猪心脏移植。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-07 DOI: 10.1038/s43856-025-00731-y
Avneesh K Singh, Corbin E Goerlich, Tianshu Zhang, Billeta Lewis, Alena Hershfeld, Gheorghe Braileanu, Kasinath Kurvi, Kathryn Rice, Faith Sentz, Sarah Mudd, Patrick Odonkor, Erik Strauss, Brittney Williams, Allen Burke, Anuj Gupta, Cinthia B Drachenberg, David Ayares, Bartley P Griffith, Muhammad M Mohiuddin

Background: Improvement in gene modifications of donor pigs has led to the prevention of early cardiac xenograft rejection and significantly prolonged cardiac xenograft survival in both heterotopic and orthotopic preclinical non-human primate (NHP) models. This progress formed the basis for FDA approval for compassionate use transplants in two patients.

Methods: Based on our earlier report of 9-month survival of seven gene-edited (7-GE) hearts transplanted (life-supporting orthotopic) in baboons, we transplanted 10 gene-edited pig hearts into baboons (n = 4) using non-ischemic continuous perfusion preservation (NICP) and immunosuppression regimen based on co-stimulation blockade by anti-CD40 monoclonal antibody. This pivotal study expands on the 7-GE backbone, with 3 additional gene edits, using 10-GE pigs as donors to baboon recipients.

Results: 10 GE cardiac xenografts provide life-supporting function up to 225 days (mean 128 ± 36 days) in a non-human primate model. Undetectable or latent porcine cytomegalovirus (PCMV) does not influence cardiac xenograft survival in this study but still needs more exploration with a larger cohort. Xenograft histology demonstrates adipose (Fat) deposition (n = 1), chronic vasculopathy (n = 1), micro and macro thrombosis, and acute cellular rejection (n = 1).

Conclusions: These data demonstrate that 10 GE cardiac xenografts have variable cardiac xenograft survival in NHP due to perhaps presence of 4th antigen and require further study. However, these 10GE organs may be suitable for clinical cardiac xenotransplantation and have already been utilized in two human cases.

背景:在异位和正位临床前非人灵长类动物(NHP)模型中,供体猪基因修饰的改进导致了早期异种心脏移植排斥反应的预防,并显着延长了异种心脏移植存活时间。这一进展为FDA批准两名患者的同情用途移植奠定了基础。方法:基于我们之前报道的7个基因编辑(7-GE)心脏移植(维持生命的原位移植)在狒狒体内存活9个月的结果,我们采用非缺血连续灌注保存(NICP)和基于抗cd40单克隆抗体共刺激阻断的免疫抑制方案,将10个基因编辑的猪心脏移植到狒狒体内(n = 4)。这项关键的研究扩展了7-GE的骨干,增加了3个基因编辑,使用10-GE猪作为狒狒受体的供体。结果:10 GE异种心脏移植在非人灵长类动物模型中提供长达225天(平均128±36天)的生命维持功能。在这项研究中,未检测到或潜伏的猪巨细胞病毒(PCMV)不影响异种心脏移植的生存,但仍需要更大的队列进行更多的探索。异种移植物组织学表现为脂肪沉积(n = 1),慢性血管病变(n = 1),微观和宏观血栓形成,急性细胞排斥反应(n = 1)。结论:这些数据表明,由于可能存在第4抗原,10ge异种心脏移植在NHP中具有可变的异种心脏移植存活率,需要进一步研究。然而,这些10GE器官可能适用于临床心脏异种移植,并已在两例人类病例中得到应用。
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引用次数: 0
Bias in mobility datasets drives divergence in modeled outbreak dynamics. 流动性数据集的偏差导致暴发动力学模型出现分歧。
IF 5.4 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2025-01-07 DOI: 10.1038/s43856-024-00714-5
Taylor Chin, Michael A Johansson, Anir Chowdhury, Shayan Chowdhury, Kawsar Hosan, Md Tanvir Quader, Caroline O Buckee, Ayesha S Mahmud

Background: Digital data sources such as mobile phone call detail records (CDRs) are increasingly being used to estimate population mobility fluxes and to predict the spatiotemporal dynamics of infectious disease outbreaks. Differences in mobile phone operators' geographic coverage, however, may result in biased mobility estimates.

Methods: We leverage a unique dataset consisting of CDRs from three mobile phone operators in Bangladesh and digital trace data from Meta's Data for Good program to compare mobility patterns across these sources. We use a metapopulation model to compare the sources' effects on simulated outbreak trajectories, and compare results with a benchmark model with data from all three operators, representing around 100 million subscribers across the country.

Results: We show that mobility sources can vary significantly in their coverage of travel routes and geographic mobility patterns. Differences in projected outbreak dynamics are more pronounced at finer spatial scales, especially if the outbreak is seeded in smaller and/or geographically isolated regions. In some instances, a simple diffusion (gravity) model was better able to capture the timing and spatial spread of the outbreak compared to the sparser mobility sources.

Conclusions: Our results highlight the potential biases in predicted outbreak dynamics from a metapopulation model parameterized with non-population representative data, and the limits to the generalizability of models built on these types of novel human behavioral data.

背景:移动电话通话详细记录(cdr)等数字数据源正越来越多地用于估计人口流动通量和预测传染病暴发的时空动态。然而,移动电话运营商地理覆盖范围的差异可能会导致移动估计的偏差。方法:我们利用一个独特的数据集,该数据集由孟加拉国三家移动电话运营商的话单组成,并利用Meta的“数据为好”项目的数字跟踪数据来比较这些来源的移动模式。我们使用一个元人口模型来比较传染源对模拟爆发轨迹的影响,并将结果与包含所有三家运营商数据的基准模型进行比较,这些运营商代表了全国约1亿用户。结果:我们发现流动来源在其旅行路线和地理流动模式的覆盖范围上存在显著差异。预测的疫情动态差异在更小的空间尺度上更为明显,特别是在较小和/或地理上孤立的地区爆发疫情时。在某些情况下,与更稀疏的流动源相比,简单的扩散(重力)模型能够更好地捕捉爆发的时间和空间传播。结论:我们的研究结果强调了用非种群代表性数据参数化的元种群模型预测疫情动态的潜在偏差,以及基于这些新型人类行为数据建立的模型的推广局限性。
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引用次数: 0
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Communications medicine
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