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Multiplexed image analysis: what have we achieved and where are we headed? 多路图像分析：我们取得了什么成就，我们将走向何方？
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02539-5
Yuval Bussi, Leeat Keren
{"title":"Multiplexed image analysis: what have we achieved and where are we headed?","authors":"Yuval Bussi, Leeat Keren","doi":"10.1038/s41592-024-02539-5","DOIUrl":"10.1038/s41592-024-02539-5","url":null,"abstract":"Multiplexed tissue imaging has transformed tissue biology by revealing cellular diversity and interactions, but the analysis of its massive datasets remains a bottleneck. Here, we provide an overview of computational advancements, discuss current challenges and envision an AI-driven future in which integrated tools streamline analysis and visualization, unlocking the full potential of multiplexed imaging for breakthroughs in spatial biology.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2212-2215"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789395","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Adaptable CRISPR screening 适应性CRISPR筛选
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02544-8
Lei Tang
{"title":"Adaptable CRISPR screening","authors":"Lei Tang","doi":"10.1038/s41592-024-02544-8","DOIUrl":"10.1038/s41592-024-02544-8","url":null,"abstract":"CRISPR screens are untangling molecular mechanisms that drive biological processes with greater precision and detail.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2226-2226"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789398","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Understanding protein interaction dynamics 了解蛋白质相互作用动力学
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02545-7
Arunima Singh
{"title":"Understanding protein interaction dynamics","authors":"Arunima Singh","doi":"10.1038/s41592-024-02545-7","DOIUrl":"10.1038/s41592-024-02545-7","url":null,"abstract":"Experimental and computational studies are paving way for a deeper understanding of the dynamic nature of protein–protein interactions.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2226-2227"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789405","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Method of the Year 2024: spatial proteomics 2024年度最佳方法：空间蛋白质组学
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02565-3
{"title":"Method of the Year 2024: spatial proteomics","authors":"","doi":"10.1038/s41592-024-02565-3","DOIUrl":"10.1038/s41592-024-02565-3","url":null,"abstract":"Approaches for profiling the spatial proteome in tissues are the basis of atlas-scale projects that are delivering on their promise for understanding biological complexity in health and disease.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2195-2196"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.nature.com/articles/s41592-024-02565-3.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789392","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Atlases galore: where to next? 丰富的地图集：下一步该去哪里？
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02536-8
Vivien Marx
{"title":"Atlases galore: where to next?","authors":"Vivien Marx","doi":"10.1038/s41592-024-02536-8","DOIUrl":"10.1038/s41592-024-02536-8","url":null,"abstract":"Hundreds of researchers collaborate on maps of the human body and the subcellular realm. As they scout out their next mapping expeditions, they take stock of atlas-making.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2203-2208"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789394","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Revolutionizing cancer research with spatial proteomics and visual intelligence 利用空间蛋白质组学和视觉智能革新癌症研究
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02542-w
Daniela F. Quail, Logan A. Walsh
{"title":"Revolutionizing cancer research with spatial proteomics and visual intelligence","authors":"Daniela F. Quail, Logan A. Walsh","doi":"10.1038/s41592-024-02542-w","DOIUrl":"10.1038/s41592-024-02542-w","url":null,"abstract":"Spatial proteomics has transformed cancer research by providing unparalleled insights into the microenvironmental landscape of tumors. Here we discuss how these technologies have significantly advanced our understanding of cell–cell interactions, tissue organization and spatially coordinated mechanisms underlying antitumor immune responses, and will pave the way for emerging breakthroughs in cancer research.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2216-2219"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789379","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Mapping cell history and fates 绘制细胞历史和命运
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02547-5
Lin Tang
{"title":"Mapping cell history and fates","authors":"Lin Tang","doi":"10.1038/s41592-024-02547-5","DOIUrl":"10.1038/s41592-024-02547-5","url":null,"abstract":"New experimental and computational methods illuminate the history of cell differentiation and its molecular underpinnings.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2227-2228"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789381","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Integrative spatial protein profiling with multi-omics 多组学整合空间蛋白质分析
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02533-x
Rong Fan
{"title":"Integrative spatial protein profiling with multi-omics","authors":"Rong Fan","doi":"10.1038/s41592-024-02533-x","DOIUrl":"10.1038/s41592-024-02533-x","url":null,"abstract":"Spatial proteomics holds the potential to transform the study of proteins in situ in complex tissues, but it needs to be integrated with other layers of omics data to gain a holistic view of cellular function, heterogeneity and interactions, and the underlying mechanisms of these processes. I highlight current challenges and emerging opportunities for multi-omic spatial protein profiling to advance basic research and translational applications.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2223-2225"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789378","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Highly multiplexed imaging in the omics era: understanding tissue structures in health and disease 组学时代的高复用成像：理解健康和疾病中的组织结构
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02538-6
Bernd Bodenmiller
{"title":"Highly multiplexed imaging in the omics era: understanding tissue structures in health and disease","authors":"Bernd Bodenmiller","doi":"10.1038/s41592-024-02538-6","DOIUrl":"10.1038/s41592-024-02538-6","url":null,"abstract":"Spatial proteomics is advancing rapidly, transforming physiological and biomedical research by enabling the study of how multicellular structures and intercellular communication shape tissue function in health and disease. Through the analysis of large human tissue collections, spatial proteomics will reveal the complexities of human tissues and uncover multicellular modules that can serve as drug targets and diagnostics, paving the way for precision medicine and revolutionizing histopathology.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2209-2211"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789401","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A new understanding of tissue biology from MS-based proteomics at single-cell resolution 单细胞分辨率下基于ms的蛋白质组学对组织生物学的新认识
IF 36.1 1区 生物学
Nature Methods Pub Date : 2024-12-06 DOI: 10.1038/s41592-024-02541-x
Thierry M. Nordmann, Andreas Mund, Matthias Mann
{"title":"A new understanding of tissue biology from MS-based proteomics at single-cell resolution","authors":"Thierry M. Nordmann, Andreas Mund, Matthias Mann","doi":"10.1038/s41592-024-02541-x","DOIUrl":"10.1038/s41592-024-02541-x","url":null,"abstract":"Spatial mass spectrometry (MS)-proteomics is a rapidly evolving technology, particularly in the form of Deep Visual Proteomics (DVP), which allows the study of single cells directly in their native environment. We believe that this approach will reshape our understanding of tissue biology and redefine fundamental concepts in cell biology, tissue physiology and ultimately human health and disease.","PeriodicalId":18981,"journal":{"name":"Nature Methods","volume":"21 12","pages":"2220-2222"},"PeriodicalIF":36.1,"publicationDate":"2024-12-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142789382","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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