{"doi":"10.1101/2024.09.20.612103","title":"A novel method for characterizing cell-cell interactions at single-cell resolution reveals unique signatures in blood T cell-monocyte complexes during infection","abstract":"Communication between immune cells through direct contact is a critical feature of immune responses. Here, we developed a novel high-throughput method to study the transcriptome and adaptive immune receptor repertoire of single cells forming complexes without needing bioinformatic deconvolution. We found that T cells and monocytes forming complexes in blood during active tuberculosis (TB) and dengue hold unique transcriptomic signatures indicative of TCR/MCH-II immune synapses. Additionally, T cells in complexes showed enrichment for effector phenotypes, imaging and transcriptomic features of active TCR signaling, and increased immune activity at diagnosis compared to after anti-TB therapy. We also found evidence for bidirectional RNA exchange between T cells and monocytes, since complexes were markedly enriched for \"dual-expressing\" cells (i.e., co-expressing T cell and monocyte genes). Thus, studying immune cell complexes at a single-cell resolution offers novel perspectives on immune synaptic interactions occurring in blood during infection.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2024,"id":489038,"datarank":0.16479184330021646,"base_score":1.0986122886681096,"endowment":1.0986122886681096,"self_citation_contribution":0.16479184330021646,"citation_network_contribution":0.0,"self_endowment_contribution":0.16479184330021646,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":2,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9478,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2024-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":639465,"name":"Ashu Chawla","orcid":null,"position":1,"is_corresponding":false},{"id":564829,"name":"Hannah Hillman","orcid":"0009-0002-5448-3143","position":2,"is_corresponding":false},{"id":919503,"name":"Rashmi Tippalagama","orcid":"0000-0001-6157-8592","position":3,"is_corresponding":false},{"id":104943,"name":"Cheryl Kim","orcid":"0000-0001-9535-5709","position":4,"is_corresponding":false},{"id":273867,"name":"Zbigniew Mikulski","orcid":"0000-0002-1918-9216","position":5,"is_corresponding":false},{"id":110383,"name":"Grégory Seumois","orcid":"0000-0002-8164-6852","position":6,"is_corresponding":false},{"id":110385,"name":"Pandurangan Vijayanand","orcid":"0000-0001-7067-9723","position":7,"is_corresponding":false},{"id":252307,"name":"Thomas J. Scriba","orcid":"0000-0002-0641-1359","position":8,"is_corresponding":false},{"id":342843,"name":"Aruna Dharshan De Silva","orcid":"0000-0001-5291-9543","position":9,"is_corresponding":false},{"id":236673,"name":"Ángel Balmaseda","orcid":"0000-0003-1174-4235","position":10,"is_corresponding":false},{"id":138547,"name":"Eva Harris","orcid":null,"position":11,"is_corresponding":false},{"id":103766,"name":"Daniela Weiskopf","orcid":"0000-0003-2968-7371","position":12,"is_corresponding":false},{"id":55670,"name":"Alessandro Sette","orcid":"0000-0001-7013-2250","position":13,"is_corresponding":false},{"id":230241,"name":"Cecilia S. Lindestam Arlehamn","orcid":"0000-0001-7302-8002","position":14,"is_corresponding":false},{"id":34766,"name":"Bjoern Peters","orcid":"0000-0002-8457-6693","position":15,"is_corresponding":false},{"id":471661,"name":"Julie G. Burel","orcid":"0000-0003-1692-2758","position":16,"is_corresponding":false},{"id":1200712,"name":"Ningxin Kang","orcid":null,"position":0,"is_corresponding":true}],"reference_count":60,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-07-19T02:08:23.929823Z","pmid":"39386643","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":[]}