Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease
Abstract Background Chronic obstructive pulmonary disease (COPD) is a leading cause of morbidity and mortality worldwide. Single-cell RNA sequencing (scRNA-seq) provides gene expression profiles at the single-cell level. Hence, we evaluated gene expression in the peripheral blood of patients with CO...
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BMC
2025-01-01
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| Series: | BMC Pulmonary Medicine |
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| Online Access: | https://doi.org/10.1186/s12890-024-03475-y |
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| author | Yeonjeong Heo Jeeyoung Kim Seok-Ho Hong Woo Jin Kim |
| author_facet | Yeonjeong Heo Jeeyoung Kim Seok-Ho Hong Woo Jin Kim |
| author_sort | Yeonjeong Heo |
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| description | Abstract Background Chronic obstructive pulmonary disease (COPD) is a leading cause of morbidity and mortality worldwide. Single-cell RNA sequencing (scRNA-seq) provides gene expression profiles at the single-cell level. Hence, we evaluated gene expression in the peripheral blood of patients with COPD. Methods Peripheral blood samples from seven healthy controls and eight patients with COPD were obtained in this study. The 10X Genomics Chromium Instrument and cDNA synthesis kit were utilized to generate a barcoded cDNA library for single cell RNA-sequencing. We compared the scRNA-seq data between the COPD and control groups using computational analysis. Functional analyses were performed using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses. Results scRNA-seq was used to analyze the transcriptome of peripheral blood mononuclear cells from seven normal controls and eight patients with COPD. We found an increased number of monocyte/macrophages in the COPD group compared to the normal control group. Among the differentially expressed genes (DEGs) in monocyte/macrophages, we identified 15 upregulated genes (EGR1, NR4A1, CCL3, CXCL8, PTGS2, CD83, BCL2A1, SGK1, IL1B, BTG2, NFKBIZ, DUSP2, MAFB, PLAUR and CCL3L1) and 7 downregulated genes (FOLR3, RPS4Y1, HLA-DRB5, NAMPT, CD52, TMEM176A and TMEM176B) in the COPD group compared to the normal control group. Conclusions Using scRNA-seq, we found differences in cell type distribution, especially in monocyte/ macrophages. Several upregulated and downregulated genes were found in the monocyte/macrophages of the COPD group. |
| format | Article |
| id | doaj-art-e20207f9b1e947b096c9ab6c48007e61 |
| institution | Kabale University |
| issn | 1471-2466 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Pulmonary Medicine |
| spelling | doaj-art-e20207f9b1e947b096c9ab6c48007e612025-01-19T12:08:27ZengBMCBMC Pulmonary Medicine1471-24662025-01-0125111110.1186/s12890-024-03475-ySingle cell transcriptomics in blood of patients with chronic obstructive pulmonary diseaseYeonjeong Heo0Jeeyoung Kim1Seok-Ho Hong2Woo Jin Kim3Department of Internal Medicine, Kangwon National University HospitalDepartment of Internal Medicine, Kangwon National University HospitalDepartment of Internal Medicine, School of Medicine, Kangwon National UniversityDepartment of Internal Medicine, Kangwon National University HospitalAbstract Background Chronic obstructive pulmonary disease (COPD) is a leading cause of morbidity and mortality worldwide. Single-cell RNA sequencing (scRNA-seq) provides gene expression profiles at the single-cell level. Hence, we evaluated gene expression in the peripheral blood of patients with COPD. Methods Peripheral blood samples from seven healthy controls and eight patients with COPD were obtained in this study. The 10X Genomics Chromium Instrument and cDNA synthesis kit were utilized to generate a barcoded cDNA library for single cell RNA-sequencing. We compared the scRNA-seq data between the COPD and control groups using computational analysis. Functional analyses were performed using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses. Results scRNA-seq was used to analyze the transcriptome of peripheral blood mononuclear cells from seven normal controls and eight patients with COPD. We found an increased number of monocyte/macrophages in the COPD group compared to the normal control group. Among the differentially expressed genes (DEGs) in monocyte/macrophages, we identified 15 upregulated genes (EGR1, NR4A1, CCL3, CXCL8, PTGS2, CD83, BCL2A1, SGK1, IL1B, BTG2, NFKBIZ, DUSP2, MAFB, PLAUR and CCL3L1) and 7 downregulated genes (FOLR3, RPS4Y1, HLA-DRB5, NAMPT, CD52, TMEM176A and TMEM176B) in the COPD group compared to the normal control group. Conclusions Using scRNA-seq, we found differences in cell type distribution, especially in monocyte/ macrophages. Several upregulated and downregulated genes were found in the monocyte/macrophages of the COPD group.https://doi.org/10.1186/s12890-024-03475-yChronic obstructive pulmonary diseaseSingle cell RNA sequencingSingle cell transcriptome |
| spellingShingle | Yeonjeong Heo Jeeyoung Kim Seok-Ho Hong Woo Jin Kim Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease BMC Pulmonary Medicine Chronic obstructive pulmonary disease Single cell RNA sequencing Single cell transcriptome |
| title | Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease |
| title_full | Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease |
| title_fullStr | Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease |
| title_full_unstemmed | Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease |
| title_short | Single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease |
| title_sort | single cell transcriptomics in blood of patients with chronic obstructive pulmonary disease |
| topic | Chronic obstructive pulmonary disease Single cell RNA sequencing Single cell transcriptome |
| url | https://doi.org/10.1186/s12890-024-03475-y |
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