PMID- 33106757 OWN - NLM STAT- PubMed-not-MEDLINE VI - 18 TI - Probing infectious disease by single-cell RNA sequencing: Progresses and perspectives. PG - 2962-2971 CI - © 2020 The Author(s). LA - eng PT - Journal Article PT - Review PL - Netherlands TA - Comput Struct Biotechnol J JT - Computational and structural biotechnology journal JID - 101585369 IS - 2001-0370 (Print) LID - 10.1016/j.csbj.2020.10.016 [doi] FAU - Luo, Geyang AU - Luo G AD - Shanghai Public Health Clinical Center, Fudan University, Shanghai, China. AD - Shanghai Public Health Clinical Center and Key Laboratory of Medical Molecular Virology (MOE/NHC/CAMS), Shanghai Medical College and School of Basic Medical Sciences, Fudan University, Shanghai, China. FAU - Gao, Qian AU - Gao Q AD - Shanghai Public Health Clinical Center and Key Laboratory of Medical Molecular Virology (MOE/NHC/CAMS), Shanghai Medical College and School of Basic Medical Sciences, Fudan University, Shanghai, China. FAU - Zhang, Shuye AU - Zhang S AD - Shanghai Public Health Clinical Center, Fudan University, Shanghai, China. FAU - Yan, Bo AU - Yan B AD - Shanghai Public Health Clinical Center, Fudan University, Shanghai, China. IS - 2001-0370 (Linking) OTO - NOTNLM OT - 3C, Chromosome Conformation Capture OT - ACE2, Angiotensin-Converting Enzyme 2 OT - ARDS, acute respiratory distress syndrome OT - ATAC-seq, Assay for Transposase-Accessible Chromatin using sequencing OT - BCR, B cell receptor OT - CEL-seq, Cell Expression by Linear amplification and Sequencing OT - CLU, clusterin OT - COVID-19, corona virus disease 2019 OT - CRISPR, Clustered Regularly Interspaced Short Palindromic Repeats OT - CytoSeq, gene expression cytometry OT - DENV, dengue virus OT - FACS, fluorescence-activated cell sorting OT - GNLY, granulysin OT - GO analysis, Gene Ontology analysis OT - HIV, Human Immunodeficiency Virus OT - IAV, Influenza A virus OT - IGHV/HD/HJ/HC, Immune globulin heavy V/D/J/C/ region OT - IGLV/LJ/LC, Immune globulin light V/J/C/ region OT - ILC, Innate Lymphoid Cell OT - Infectious diseases OT - LIGER, Linked Inference of Genomics Experimental Relationships OT - MAGIC, Markov Affinity-based Graph Imputation of Cells OT - MARS-seq, Massively parallel single-cell RNA sequencing OT - MATCHER, Manifold Alignment To CHaracterize Experimental Relationships OT - MCMV, mouse cytomegalovirus OT - MERFISH, Multiplexed, Error Robust Fluorescent In Situ Hybridization OT - MLV, Moloney Murine Leukemia Virus OT - MOFA, Multi-Omics Factor Analysis OT - MOI, multiplicity of infection OT - PBMCs, peripheral blood mononuclear cells OT - PLAC8, placenta-associated 8 OT - SARS-CoV-2, severe acute respiratory syndrome coronavirus 2 OT - SAVER, Single-cell Analysis Via Expression Recovery OT - SPLit-seq, split pool ligation-based tranome sequencing OT - STARTRAC, Single T-cell Analysis by RNA sequencing and TCR TRACking OT - STRT-seq, Single-cell Tagged Reverse Transcription sequencing OT - Single-cell RNA sequencing OT - TCR, T cell receptor OT - TSLP, thymic stromal lymphopoietin OT - UMAP, Uniform Manifold Approximation and Projection OT - UMI, Unique Molecular Identifier OT - mcSCRB-seq, molecular crowding single-cell RNA barcoding and sequencing OT - pDCs, plasmacytoid dendritic cells OT - scRNA-seq, single cell RNA sequencing technology OT - sci-RNA-seq, single-cell combinatorial indexing RNA sequencing OT - seqFISH, sequential Fluorescent In Situ Hybridization OT - smart-seq, switching mechanism at 5′ end of the RNA transcript sequencing OT - t-SNE, t-Distributed stochastic neighbor embedding PMC - PMC7577221 LR - 20210303 DP - 2020 DEP - 20201021 AB - The increasing application of single-cell RNA sequencing (scRNA-seq) technology in life science and biomedical research has significantly increased our understanding of the cellular heterogeneities in immunology, oncology and developmental biology. This review will summarize the development of various scRNA-seq technologies; primarily discussing the application of scRNA-seq on infectious diseases, and exploring the current development, challenges, and potential applications of scRNA-seq technology in the future.