{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Vallejo J"],"funding":["NCATS NIH HHS","National Institutes of Health Grant","NIAID NIH HHS","NHLBI NIH HHS","Cancer Research Institute","Swedish Society for Medical Research"],"pagination":["193"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9434837"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["20(1)"],"pubmed_abstract":["<h4>Background</h4>Cryopreserved peripheral blood mononuclear cells (PBMCs) are frequently collected and provide disease- and treatment-relevant data in clinical studies. Here, we developed combined protein (40 antibodies) and transcript single-cell (sc)RNA sequencing (scRNA-seq) in PBMCs.<h4>Results</h4>Among 31 participants in the Women's Interagency HIV Study (WIHS), we sequenced 41,611 cells. Using Boolean gating followed by Seurat UMAPs (tool for visualizing high-dimensional data) and Louvain clustering, we identified 50 subsets among CD4+ T, CD8+ T, B, NK cells, and monocytes. This resolution was superior to flow cytometry, mass cytometry, or scRNA-seq without antibodies. Combined protein and transcript scRNA-seq allowed for the assessment of disease-related changes in transcriptomes"],"journal":["BMC biology"],"pubmed_title":["Combined protein and transcript single-cell RNA sequencing in human peripheral blood mononuclear cells."],"pmcid":["PMC9434837"],"funding_grant_id":["R01 HL148094","P30 AI050410","U01-AI-103390","K01 HL137557","U01-AI-034989","U01 HL146204","U01 HL146202","R35 HL145241","R01 HL140976","P01 HL136275","R01 HL126543","U01 AI103408","R01 HL121697","P30 AI027767","R01 HL134236","U01 AI034989","U01 AI031834","R35-HL-145241, R01-HL-121697, R01-HL-148094","UL1 TR000004","P30 AI050409","U01 AI103390","U01-AI-103408","R01-HL-126543, 5R01-HL-126543-05, 5R01-HL-140976-02, R01-HL-148094-01, R01-HL-148094","K01-HL-137557","P01-KL-136275, R01-HL-134236"],"pubmed_authors":["Durant CP","Lanier LL","Hedrick CC","Alimadadi A","Ghosheh Y","Ofotokun I","Vallejo J","Pattarabanjird T","Shemesh A","Roy P","Weber KM","Tracy RP","Armstrong Suthahar SS","Heath SL","Adimora AA","Landay AL","McNamara CA","Gulati R","Tien PC","Saigusa R","Suryawanshi V","Ley K","Hanna DB","Hodis HN","Ehinger E","Lazar JM","Mack WJ","Kaplan RC"],"additional_accession":[]},"is_claimable":false,"name":"Combined protein and transcript single-cell RNA sequencing in human peripheral blood mononuclear cells.","description":"<h4>Background</h4>Cryopreserved peripheral blood mononuclear cells (PBMCs) are frequently collected and provide disease- and treatment-relevant data in clinical studies. Here, we developed combined protein (40 antibodies) and transcript single-cell (sc)RNA sequencing (scRNA-seq) in PBMCs.<h4>Results</h4>Among 31 participants in the Women's Interagency HIV Study (WIHS), we sequenced 41,611 cells. Using Boolean gating followed by Seurat UMAPs (tool for visualizing high-dimensional data) and Louvain clustering, we identified 50 subsets among CD4+ T, CD8+ T, B, NK cells, and monocytes. This resolution was superior to flow cytometry, mass cytometry, or scRNA-seq without antibodies. Combined protein and transcript scRNA-seq allowed for the assessment of disease-related changes in transcriptomes","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Sep","modification":"2025-04-19T18:51:36.958Z","creation":"2025-04-19T18:51:36.958Z"},"accession":"S-EPMC9434837","cross_references":{"pubmed":["36045343"],"doi":["10.1186/s12915-022-01382-4"]}}