{"doi":"10.1016/j.xpro.2022.101681","title":"Protocol for high-throughput reservoir quantification across global HIV subtypes using a cross-subtype intact proviral DNA assay","abstract":"The cross-subtype intact proviral DNA assay (CS-IPDA) is a high-throughput method to quantify HIV reservoir size in populations infected with any of the dominant global HIV-1 subtypes. Our protocol includes genomic DNA isolation optimized to minimize DNA shearing, a reference droplet digital PCR (ddPCR) assay to quantify T cells and assess DNA shearing, and a multiplex ddPCR targeting three distinct regions across the HIV genome to quantify intact proviruses as an estimate of replication-competent proviruses in the reservoir. For complete details on the use and execution of this protocol, please refer to Cassidy et al. (2022).","journal":"STAR Protocols","year":2022,"id":263541,"datarank":0.3958585994422889,"base_score":2.639057329615259,"endowment":2.639057329615259,"self_citation_contribution":0.3958585994422889,"citation_network_contribution":0.0,"self_endowment_contribution":0.3958585994422889,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":13,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.95,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2022-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":518601,"name":"Noah A.J. Cassidy","orcid":null,"position":1,"is_corresponding":false},{"id":544211,"name":"Claire Levy","orcid":"0000-0003-3204-211X","position":2,"is_corresponding":false},{"id":522000,"name":"Sean M. Hughes","orcid":"0000-0002-9409-9405","position":3,"is_corresponding":false},{"id":108343,"name":"Keith R. Jerome","orcid":"0000-0002-8212-3789","position":4,"is_corresponding":false},{"id":344987,"name":"Julie Overbaugh","orcid":"0000-0002-0239-9444","position":5,"is_corresponding":false},{"id":407078,"name":"Florian Hladik","orcid":"0000-0002-0375-2764","position":6,"is_corresponding":false},{"id":344988,"name":"Dara A. Lehman","orcid":"0000-0002-0372-0631","position":7,"is_corresponding":false},{"id":666747,"name":"Carolyn S. Fish","orcid":"0009-0008-4894-8825","position":0,"is_corresponding":true}],"reference_count":11,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-07-19T00:26:33.413850Z","pmid":"36178789","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":[]}