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Progress in research on tumor microenvironment-based spatial omics technologies

肿瘤学研究(英文) 2023年第6期31卷 877-885页

作者： FANGMEI XIE NAITE XI ZEPING HAN WENFENG LUO JIAN SHEN JINGGENG LUO XINGKUI TANG TING PANG YUBING LV JIABING LIANG LIYIN LIAO HAOYU ZHANG YONG JIANG YUGUANG LI JINHUA HE Central Laboratory Panyu Central Hospital of GuangzhouGuangzhouChina Department of General Surgery Panyu Central Hospital of GuangzhouGuangzhouChina Administrating Office He Xian Memorial HospitalSouthern Medical UniversityGuangzhouChina

spatial omics technology integrates the concept of space into omics research and retains the spatial information of tissues or organs while obtaining molecular *** is characterized by the ability to visualize changes in molecular information and yields intuitive and vivid visual *** omics technologies include spatial transcriptomics,spatial proteomics,spatial metabolomics,and other technologies,the most widely used of which are spatial transcriptomics and spatial *** tumor microenvironment refers to the surrounding microenvironment in which tumor cells exist,including the surrounding blood vessels,immune cells,fibroblasts,bone marrow-derived inflammatory cells,various signaling molecules,and extracellular matrix.A key issue in modern tumor biology is the application of spatial omics to the study of the tumor microenvironment,which can reveal problems that conventional research techniques cannot,potentially leading to the development of novel therapeutic agents for *** paper summarizes the progress of research on spatial transcriptomics and spatial proteomics technologies for characterizing the tumor immune microenvironment.

关键词： spatial omics spatial transcriptomics spatial proteomics Tumor microenvironment

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An overview of multiomics:a powerful tool applied in cancer molecular subtyping for cancer therapy

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Malignancy Spectrum 2024年第1期1卷 15-29页

作者： Yazhu Zou Zitong Zhao Yongmei Song State Key Laboratory of Molecular Oncology National Cancer Center/National Clinical Research Center for Cancer/Cancer HospitalChinese Academy of Medical Sciences and Peking Union Medical CollegeBeijingChina

During the process of carcinogenesis and tumor progression,various molecular alternations occur in different omics *** recent years,multiomics approaches including genomics,epigenetics,transcriptomics,proteomics,metabolomics,single-cell omics,and spatial omics have been applied in mapping diverse omics profiles of *** development of high-throughput technologies such as sequencing and mass spectrometry has revealed different omics levels of tumor cells or tissues *** focusing on a single omics level results in a lack of accuracy,joining multiple omics approaches together undoubtedly benefits accurate molecular subtyping and precision medicine for cancer *** the deepening of tumor research in recent years,taking pathological classification as the only criterion of diagnosis and predicting prognosis and treatment response is found to be not accurate ***,identifying precise molecular subtypes by exploring the molecular alternations during tumor occurrence and development is of vital *** review provides an overview of the advanced technologies and recent progress in multiomics applied in cancer molecular subtyping and detailedly explains the application of multiomics in identifying cancer driver genes and metastasis-related genes,exploring tumor microenvironment,and selecting liquid biopsy biomarkers and potential therapeutic targets.

关键词： multiomics cancer molecular subtyping cancer therapy single-cell omics spatial omics

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Detection and quantitative analysis of tumor-associated tertiary lymphoid structures

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Journal of Zhejiang University-Science B(Biomedicine & Biotechnology) 2023年第9期24卷 779-795页

作者： Man YANG Yurou CHE Kezhen LI Zengyi FANG Simin LI Mei WANG Yiyao ZHANG Zhu XU Liping LUO Chuan WU Xin LAI Weidong WANG Department of Radiation Oncology Radiation Oncology Key Laboratory of Sichuan ProvinceSichuan Clinical Research Center for CancerSichuan Cancer Hospital&InstituteAffiliated Cancer Hospital of University of Electronic Science and Technology of ChinaChengdu610000China School of Medicine University of Electronic Science and Technology of ChinaChengdu610000China Department of Oncology School of Clinical MedicineSouthwest Medical UniversityLuzhou646000China

Tumor-associated tertiary lymphoid structures(TLSs)are ectopic lymphoid formations within tumor tissue,with mainly B and T cell populations forming the organic *** presence of TLSs in tumors has been strongly associated with patient responsiveness to immunotherapy regimens and improving tumor *** have been motivated to actively explore TLSs due to their bright clinical application *** studies have attempted to decipher TLSs regarding their formation mechanism,structural composition,induction generation,predictive markers,and clinical ***,the scientific approaches to qualitative and quantitative descriptions are crucial for TLS *** terms of detection,hematoxylin and eosin(H&E),multiplex immunohistochemistry(mIHC),multiplex immunofluorescence(mIF),and 12-chemokine gene signature have been the top approved ***,no standard methods exist for the quantitative analysis of TLSs,such as absolute TLS count,analysis of TLS constituent cells,structural features,TLS spatial location,density,and *** study reviews the latest research progress on TLS detection and quantification,proposes new directions for TLS assessment,and addresses issues for the quantitative application of TLSs in the clinic.

关键词： Tertiary lymphoid structure Tumor microenvironment Chemokine signature spatial omics Artificial intelligence Radiomics

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Laser capture microdissection for biomedical research: towards high-throughput, multi-omics, and single-cell resolution

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Journal of Genetics and Genomics 2023年第9期50卷 641-651页

作者： Wenbo Guo Yining Hu Jingyang Qian Lidan Zhu Junyun Cheng Jie Liao Xiaohui Fan Pharmaceutical Informatics Institute College of Pharmaceutical SciencesZhejiang UniversityHangzhouZhejiang 310058China National Key Laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River DeltaZhejiang UniversityJiaxingZhejiang 314100China

spatial omics technologies have become powerful methods to provide valuable insights into cells and tissues within a complex context,significantly enhancing our understanding of the intricate and multifaceted biological *** an increasing focus on spatial heterogeneity,there is a growing need for unbiased,spatially resolved omics *** capture microdissection(LCM)is a cutting-edge method for acquiring spatial information that can quickly collect regions of interest(ROIs)from heterogeneous tissues,with resolutions ranging from single cells to cell ***,LCM has been widely used for studying the cellular and molecular mechanisms of *** review focuses on the differences among four types of commonly used LCM technologies and their applications in omics and disease *** attributes of application cases are also highlighted,such as throughput and spatial *** addition,we comprehensively discuss the existing challenges and the great potential of LCM in biomedical research,disease diagnosis,and targeted therapy from the perspective of high-throughput,multi-omics,and single-cell resolution.

关键词： Laser capture microdissection spatial omics Single-cell resolution Multiplexed barcoding Disease microenvironment

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