| 1 |
Wang S , Sun ST , Zhang XY , Ding HR , Yuan Y , He JJ , Wang MS , Yang B , Li YB . The evolution of single-cell RNA sequencing technology and application: progress and perspectives. Int J Mol Sci, 2023, 24: 2943.
doi: 10.3390/ijms24032943
|
| 2 |
Huang K , Xu Y , Feng T , Lan H , Ling F , Xiang H , Liu Q . The advancement and application of the single-cell transcriptome in biological and medical research. Biology (Basel), 2024, 13: 451.
|
| 3 |
Tang F , Barbacioru C , Wang Y , Nordman E , Lee C , Xu N , Wang X , Bodeau J , Tuch BB , Siddiqui A , Lao K , Surani MA . mRNA-Seq whole-transcriptome analysis of a single cell. Nat Methods, 2009, 6: 377- 382.
doi: 10.1038/nmeth.1315
|
| 4 |
Islam S , Kjällquist U , Moliner A , Zajac P , Fan JB , Lönnerberg P , Linnarsson S . Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq. Genome Res, 2011, 21: 1160- 1167.
doi: 10.1101/gr.110882.110
|
| 5 |
Molla Desta G , Birhanu AG . Advancements in single-cell RNA sequencing and spatial transcriptomics: transforming biomedical research. Acta Biochim Pol, 2025, 72: 13922.
doi: 10.3389/abp.2025.13922
|
| 6 |
Macosko EZ , Basu A , Satija R , Nemesh J , Shekhar K , Goldman M , Tirosh I , Bialas AR , Kamitaki N , Martersteck EM , Trombetta JJ , Weitz DA , Sanes JR , Shalek AK , Regev A , McCarroll SA . Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets. Cell, 2015, 161: 1202- 1214.
doi: 10.1016/j.cell.2015.05.002
|
| 7 |
Klein AM , Mazutis L , Akartuna I , Tallapragada N , Veres A , Li V , Peshkin L , Weitz DA , Kirschner MW . Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells. Cell, 2015, 161: 1187- 1201.
doi: 10.1016/j.cell.2015.04.044
|
| 8 |
Zheng GX , Terry JM , Belgrader P , Ryvkin P , Bent ZW , Wilson R , Ziraldo SB , Wheeler TD , McDermott GP , Zhu J , Gregory MT , Shuga J , Montesclaros L , Underwood JG , Masquelier DA , Nishimura SY , Schnall-Levin M , Wyatt PW , Hindson CM , Bharadwaj R , Wong A , Ness KD , Beppu LW , Deeg HJ , McFarland C , Loeb KR , Valente WJ , Ericson NG , Stevens EA , Radich JP , Mikkelsen TS , Hindson BJ , Bielas JH . Massively parallel digital transcriptional profiling of single cells. Nat Commun, 2017, 8: 14049.
doi: 10.1038/ncomms14049
|
| 9 |
Su G , Qin X , Enninful A , Bai Z , Deng Y , Liu Y , Fan R . Spatial multi-omics sequencing for fixed tissue via DBiT-seq. STAR Protoc, 2021, 2: 100532.
doi: 10.1016/j.xpro.2021.100532
|
| 10 |
Liao Y , Liu Z , Zhang Y , Lu P , Wen L , Tang F . High-throughput and high-sensitivity full-length single-cell RNA-seq analysis on third-generation sequencing platform. Cell Discov, 2023, 9: 5.
|
| 11 |
Fan X , Tang D , Liao Y , Li P , Zhang Y , Wang M , Liang F , Wang X , Gao Y , Wen L , Wang D , Wang Y , Tang F . Single-cell RNA-seq analysis of mouse preimplantation embryos by third-generation sequencing. PLoS Biol, 2020, 18: e3001017.
doi: 10.1371/journal.pbio.3001017
|
| 12 |
Hagemann-Jensen M , Ziegenhain C , Chen P , Ramsköld D , Hendriks GJ , Larsson AJM , Faridani OR , Sandberg R . Single-cell RNA counting at allele and isoform resolution using Smart-seq3. Nat Biotechnol, 2020, 38: 708- 714.
doi: 10.1038/s41587-020-0497-0
|
| 13 |
Jovic D , Liang X , Zeng H , Lin L , Xu F , Luo Y . Single-cell RNA sequencing technologies and applications: a brief overview. Clin Transl Med, 2022, 12: e694.
doi: 10.1002/ctm2.694
|
| 14 |
Hao Y , Hao S , Andersen-Nissen E , Mauck WM 3rd , Zheng S , Butler A , Lee MJ , Wilk AJ , Darby C , Zager M , Hoffman P , Stoeckius M , Papalexi E , Mimitou EP , Jain J , Srivastava A , Stuart T , Fleming LM , Yeung B , Rogers AJ , McElrath JM , Blish CA , Gottardo R , Smibert P , Satija R . Integrated analysis of multimodal single-cell data. Cell, 2021, 184: 3573- 3587.
doi: 10.1016/j.cell.2021.04.048
|
| 15 |
Huang X , Liu R , Yang S , Chen X , Li H . scAnnoX: an R package integrating multiple public tools for single-cell annotation. PeerJ, 2024, 12: e17184.
doi: 10.7717/peerj.17184
|
| 16 |
Xie Y , Chen H , Chellamuthu VR , Lajam ABM , Albani S , Low AHL , Petretto E , Behmoaras J . Comparative analysis of single-cell RNA sequencing methods with and without sample multiplexing. Int J Mol Sci, 2024, 25: 3828.
doi: 10.3390/ijms25073828
|
| 17 |
Misevic G . Single-cell omics analyses with single molecular detection: challenges and perspectives. J Biomed Res, 2021, 35: 264- 276.
doi: 10.7555/JBR.35.20210026
|
| 18 |
He J , Shen J , Luo W , Han Z , Xie F , Pang T , Liao L , Guo Z , Li J , Li Y , Chen H . Research progress on application of single-cell TCR/BCR sequencing technology to the tumor immune microenvironment, autoimmune diseases, and infectious diseases. Front Immunol, 2022, 13: 969808.
doi: 10.3389/fimmu.2022.969808
|
| 19 |
Schafflick D , Xu CA , Hartlehnert M , Cole M , Schulte-Mecklenbeck A , Lautwein T , Wolbert J , Heming M , Meuth SG , Kuhlmann T , Gross CC , Wiendl H , Yosef N , Meyer Zu Horste G . Integrated single cell analysis of blood and cerebrospinal fluid leukocytes in multiple sclerosis. Nat Commun, 2020, 11: 247.
doi: 10.1038/s41467-019-14118-w
|
| 20 |
Sankowski R , Süß P , Benkendorff A , Böttcher C , Fernandez-Zapata C , Chhatbar C , Cahueau J , Monaco G , Gasull AD , Khavaran A , Grauvogel J , Scheiwe C , Shah MJ , Heiland DH , Schnell O , Markfeld-Erol F , Kunze M , Zeiser R , Priller J , Prinz M . Multiomic spatial landscape of innate immune cells at human central nervous system borders. Nat Med, 2024, 30: 186- 198.
doi: 10.1038/s41591-023-02673-1
|
| 21 |
Absinta M , Maric D , Gharagozloo M , Garton T , Smith MD , Jin J , Fitzgerald KC , Song A , Liu P , Lin JP , Wu T , Johnson KR , McGavern DB , Schafer DP , Calabresi PA , Reich DS . A lymphocyte-microglia-astrocyte axis in chronic active multiple sclerosis. Nature, 2021, 597: 709- 714.
doi: 10.1038/s41586-021-03892-7
|
| 22 |
Cao L , Chen C , Pi W , Zhang Y , Xue S , Yong VW , Xue M . Immune mechanisms in multiple sclerosis: CD3 levels on CD28+ CD4+ T cells link antibody responses to human herpesvirus 6. Cytokine, 2025, 187: 156866.
doi: 10.1016/j.cyto.2025.156866
|
| 23 |
Cotzomi E , Stathopoulos P , Lee CS , Ritchie AM , Soltys JN , Delmotte FR , Oe T , Sng J , Jiang R , Ma AK , Vander Heiden JA , Kleinstein SH , Levy M , Bennett JL , Meffre E , O'Connor KC . Early B cell tolerance defects in neuromyelitis opticafavour anti-AQP4 autoantibody production. Brain, 2019, 142: 1598- 1615.
doi: 10.1093/brain/awz106
|
| 24 |
Zhang W , Han Y , Huang H , Su Y , Ren H , Qi C , Li J , Yang H , Xu J , Chang G , Qiu W , Liu Q , Chang T . CD22 blockade exacerbates neuroinflammation in neuromyelitis optica spectrum disorder. J Neuroinflammation, 2024, 21: 313.
doi: 10.1186/s12974-024-03305-2
|
| 25 |
Qi C , Hao H , Zhang W , Fu Y , Han Y , Li J , Chen L , Cui G , Liu Q , Li Y , Wang X , Wang MW , Liu Q . Targeting formyl peptide receptor 2 to suppress neuroinflammation in neuromyelitis optica spectrum disorder. Theranostics, 2025, 15: 4495- 4506.
doi: 10.7150/thno.107303
|
| 26 |
de Bruijn MAAM , Leypoldt F , Dalmau J , Lee ST , Honnorat J , Clardy SL , Irani SR , Easton A , Kunchok A , Titulaer MJ . Autoimmune encephalitis. Nat Rev Dis Primers, 2025, 11: 65.
doi: 10.1038/s41572-025-00650-1
|
| 27 |
Feng J , Fan S , Sun Y , Zhang Z , Ren H , Li W , Cui L , Peng B , Ren X , Zhang W , Guan H , Wang J . Study of B cell repertoire in patients with anti-N-methyl-D-aspartate receptor encephalitis. Front Immunol, 2020, 11: 1539.
doi: 10.3389/fimmu.2020.01539
|
| 28 |
Li S , Hu X , Wang M , Yu L , Zhang Q , Xiao J , Hong Z , Zhou D , Li J . Single-cell RNA sequencing reveals diverse B cell phenotypes in patients with anti-NMDAR encephalitis. Psychiatry Clin Neurosci, 2024, 78: 197- 208.
doi: 10.1111/pcn.13627
|
| 29 |
Jin W , Yang Q , Peng Y , Yan C , Li Y , Luo Z , Xiao B , Xu L , Yang H . Single-cell RNA-seq reveals transcriptional heterogeneity and immune subtypes associated with disease activity in human myasthenia gravis. Cell Discov, 2021, 7: 85.
|
| 30 |
Verdier J , Fayet OM , Hemery E , Truffault F , Pinzón N , Demeret S , Behin A , Fadel E , Guihaire J , Corneau A , Blanc C , Berrih-Aknin S , Le Panse R . Single-cell mass cytometry on peripheral cells in Myasthenia Gravis identifies dysregulation of innate immune cells. Front Immunol, 2023, 14: 1083218.
doi: 10.3389/fimmu.2023.1083218
|
| 31 |
Zhong H , Huan X , Zhao R , Su M , Yan C , Song J , Xi J , Zhao C , Luo F , Luo S . Peripheral immune landscape for hypercytokinemia in myasthenic crisis utilizing single-cell transcriptomics. J Transl Med, 2023, 21: 564.
doi: 10.1186/s12967-023-04421-y
|
| 32 |
Jiang R , Fichtner ML , Hoehn KB , Pham MC , Stathopoulos P , Nowak RJ , Kleinstein SH , O'Connor KC . Single-cell repertoire tracing identifies rituximab-resistant B cells during myasthenia gravis relapses. JCI Insight, 2020, 5: e136471.
doi: 10.1172/jci.insight.136471
|