Single-cell omics: experimental workflow, data analyses and applications  

作　　者：Fengying Sun Haoyan Li Dongqing Sun Shaliu Fu Lei Gu Xin Shao Qinqin Wang Xin Dong Bin Duan Feiyang Xing Jun Wu Minmin Xiao Fangqing Zhao Jing-Dong J.Han Qi Liu Xiaohui Fan Chen Li Chenfei Wang Tieliu Shi 

机构地区：[1]Department of Clinical Laboratory,the Affiliated Wuhu Hospital of East China Normal University(The Second People’s Hospital of Wuhu City),Wuhu 241000,China [2]Pharmaceutical Informatics Institute,College of Pharmaceutical Sciences,Zhejiang University,Hangzhou 310058,China [3]Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration(Tongji University),Ministry of Education,Orthopaedic Department,Tongji Hospital,Bioinformatics Department,School of Life Sciences and Technology,Tongji University,Shanghai 200082,China [4]Frontier Science Center for Stem Cells,School of Life Sciences and Technology,Tongji University,Shanghai 200092,China [5]Translational Medical Center for Stem Cell Therapy and Institute for Regenerative Medicine,Shanghai East Hospital,Bioinformatics Department,School of Life Sciences and Technology,Tongji University,Shanghai 200082,China [6]Research Institute of Intelligent Computing,Zhejiang Lab,Hangzhou 311121,China [7]Shanghai Research Institute for Intelligent Autonomous Systems,Shanghai 201210,China [8]Center for Single-cell Omics,School of Public Health,Shanghai Jiao Tong University School of Medicine,Shanghai 200025,China [9]National Key Laboratory of Chinese Medicine Modernization,Innovation Center of Yangtze River Delta,Zhejiang University,Jiaxing 314103,China [10]Center for Bioinformatics and Computational Biology,Shanghai Key Laboratory of Regulatory Biology,the Institute of Biomedical Sciences and School of Life Sciences,East China Normal University,Shanghai 200241,China [11]Beijing Institutes of Life Science,Chinese Academy of Sciences,Beijing 100101,China [12]Peking-Tsinghua Center for Life Sciences,Academy for Advanced Interdisciplinary Studies,Center for Quantitative Biology(CQB),Peking University,Beijing 100871,China [13]Zhejiang Key Laboratory of Precision Diagnosis and Therapy for Major Gynecological Diseases,Women’s Hospital,Zhejiang University School of Medicine,Hangzhou 310006,China [14]Key Laboratory of Advanced Theory and Application in Statistics and Data S

出　　处：《Science China(Life Sciences)》2025年第1期5-102,共98页中国科学(生命科学英文版)

基　　金：supported by the National Natural Science Foundation of China(32130020,32025009,82030099,30700397,31970638,61572361,81973701,U23A20513,32222026,82373446);the National Key Research and Development Program of China(2021YFF1201200,2021YFF1200900,2022YFA1106000);the Shanghai Municipal Science and Technology Major Project(2017SHZDZX01);the Fundamental Research Funds for the Central Universities(20002150110,22120230292);Beihang University&Capital Medical University Plan(BHME-201904);the Special Fund of the Pediatric Medical Coordinated Development Center of Beijing Hospitals Authority(XTCX201809);the Cooperative Research Fund of the Affiliated Wuhu Hospital of East China Normal University(40500-20104-222400);the Fundamental Research Funds for the Central Universities(226-2024-00001);the Shanghai Municipal Science and Technology Commission“Science and Technology Innovation Action Plan”technical standard project(21DZ2201700);the Shanghai Municipal Science and Technology Commission“Science and Technology Innovation Action Plan”natural science foundation project(23ZR1435800);the Shanghai Natural Science Foundation Program(17ZR1449400);the Shanghai Artificial Intelligence Technology Standard Project(19DZ2200900);the Open Research Fund of Key Laboratory of Advanced Theory and Application in Statistics and Data Science-MOE,ECNU,Key Laboratory of MEA,Ministry of Education,ECNU.

摘　　要：Cells are the fundamental units of biological systems and exhibit unique development trajectories and molecular features.Our exploration of how the genomes orchestrate the formation and maintenance of each cell,and control the cellular phenotypes of various organismsis,is both captivating and intricate.Since the inception of the first single-cell RNA technology,technologies related to single-cell sequencing have experienced rapid advancements in recent years.These technologies have expanded horizontally to include single-cell genome,epigenome,proteome,and metabolome,while vertically,they have progressed to integrate multiple omics data and incorporate additional information such as spatial scRNA-seq and CRISPR screening.Single-cell omics represent a groundbreaking advancement in the biomedical field,offering profound insights into the understanding of complex diseases,including cancers.Here,we comprehensively summarize recent advances in single-cell omics technologies,with a specific focus on the methodology section.This overview aims to guide researchers in selecting appropriate methods for single-cell sequencing and related data analysis.

关 键 词：single-cell sequencing genome EPIGENOME PROTEOMICS metabolomics multimodal spatial transcriptomics CRISPR screening 

分 类 号：Q811.4[生物学—生物工程]