{"doi":"10.1101/2023.03.05.531201","title":"High-Capacity Sample Multiplexing for Single Cell Chromatin Accessibility Profiling","abstract":"Single-cell chromatin accessibility has emerged as a powerful means of understanding the epigenetic landscape of diverse tissues and cell types, but profiling cells from many independent specimens is challenging and costly. Here we describe a novel approach, sciPlex-ATAC-seq, which uses unmodified DNA oligos as sample-specific nuclear labels, enabling the concurrent profiling of chromatin accessibility within single nuclei from virtually unlimited specimens or experimental conditions. We first demonstrate our method with a chemical epigenomics screen, in which we identify drug-altered distal regulatory sites predictive of compound- and dose-dependent effects on transcription. We then analyze cell type-specific chromatin changes in PBMCs from multiple donors responding to synthetic and allogeneic immune stimulation. We quantify stimulation-altered immune cell compositions and isolate the unique effects of allogeneic stimulation on chromatin accessibility specific to T-lymphocytes. Finally, we observe that impaired global chromatin decondensation often coincides with chemical inhibition of allogeneic T-cell activation.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2023,"id":394272,"datarank":0.20794415416798362,"base_score":1.3862943611198906,"endowment":1.3862943611198906,"self_citation_contribution":0.20794415416798362,"citation_network_contribution":0.0,"self_endowment_contribution":0.20794415416798362,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":3,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.945,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2023-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":36581,"name":"Riza M. Daza","orcid":"0000-0003-1635-8675","position":1,"is_corresponding":false},{"id":36586,"name":"Sanjay Srivatsan","orcid":"0000-0001-7282-0487","position":2,"is_corresponding":false},{"id":36583,"name":"José L. McFaline‐Figueroa","orcid":"0000-0003-4387-1511","position":3,"is_corresponding":false},{"id":986560,"name":"Rula Green Gladden","orcid":"0000-0001-5779-8525","position":4,"is_corresponding":false},{"id":94709,"name":"Scott N. Furlan","orcid":"0000-0003-3007-9840","position":5,"is_corresponding":false},{"id":36510,"name":"Jay Shendure","orcid":"0000-0002-1516-1865","position":6,"is_corresponding":false},{"id":19437,"name":"Cole Trapnell","orcid":"0000-0002-8105-4347","position":7,"is_corresponding":false},{"id":714381,"name":"Gregory T. Booth","orcid":"0000-0003-3748-5518","position":0,"is_corresponding":true}],"reference_count":56,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-07-19T01:19:10.334330Z","pmid":"36945538","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}