Single-cell RNA-seq of rheumatoid arthritis synovial tissue using low-cost microfluidic instrumentation
| Autor: | Bernadette Bracken, Cristina Rozo, Andrew Butler, William Stephenson, Ali Rashidfarrokhi, Dana E. Orange, Rahul Satija, Lionel B. Ivashkiv, Vivian P. Bykerk, Laura T. Donlin, Susan M. Goodman, Harold Swerdlow, Robert B. Darnell |
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| Jazyk: | angličtina |
| Rok vydání: | 2018 |
| Předmět: |
0301 basic medicine
Computer science Science Cell Microfluidics General Physics and Astronomy Arthritis RNA-Seq Computational biology General Biochemistry Genetics and Molecular Biology Article Arthritis Rheumatoid 03 medical and health sciences 0302 clinical medicine medicine Transcriptome profiling Humans lcsh:Science Synovial tissue 030203 arthritis & rheumatology Multidisciplinary Gene Expression Profiling Synovial Membrane General Chemistry Fibroblasts medicine.disease Gene expression profiling 030104 developmental biology medicine.anatomical_structure Rheumatoid arthritis RNA lcsh:Q Single-Cell Analysis |
| Zdroj: | Nature Communications Nature Communications, Vol 9, Iss 1, Pp 1-10 (2018) |
| ISSN: | 2041-1723 |
| Popis: | Droplet-based single-cell RNA-seq has emerged as a powerful technique for massively parallel cellular profiling. While this approach offers the exciting promise to deconvolute cellular heterogeneity in diseased tissues, the lack of cost-effective and user-friendly instrumentation has hindered widespread adoption of droplet microfluidic techniques. To address this, we developed a 3D-printed, low-cost droplet microfluidic control instrument and deploy it in a clinical environment to perform single-cell transcriptome profiling of disaggregated synovial tissue from five rheumatoid arthritis patients. We sequence 20,387 single cells revealing 13 transcriptomically distinct clusters. These encompass an unsupervised draft atlas of the autoimmune infiltrate that contribute to disease biology. Additionally, we identify previously uncharacterized fibroblast subpopulations and discern their spatial location within the synovium. We envision that this instrument will have broad utility in both research and clinical settings, enabling low-cost and routine application of microfluidic techniques. Droplet-based single-cell RNA-seq is a powerful tool for cellular heterogeneity profiling in disease but is limited by instrumentation required. Here the authors develop a 3D printed microfluidic platform for massive parallel sequencing of rheumatoid arthritis tissues. |
| Databáze: | OpenAIRE |
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