{"doi":"10.17504/protocols.io.ewov1962klr2/v1","title":"Sequencing-based Neutralization Assay for Influenza A Virus (v2) v1","abstract":"Traditional neutralization assays for influenza virus test a single viral strain against a single serum sample in each measurement. Here we describe a sequencing-based approach for neutralization assays that can measure the titers of serum samples against many viruses at once using the same serum volume and workflow of a traditional neutralization measurement. This method relies on incorporating a nucleotide barcode into the hemagglutinin genomic segment of the influenza virus, pooling many barcoded viruses together, and then using Illumina sequencing to read out the neutralization of all of the viruses in the pool at once. Here we provide the step-by-step protocol for running these assays with serum samples. Validation of this method is described in detail in the following manuscript: Loes AN, Tarabi RAL, Huddleston J, Touyon L, Wong SS, Cheng SMS, Leung NHL, Hannon WW, Bedford T, Cobey S, Cowling BJ, Bloom JD. 2024. High-throughput sequencing-based neutralization assay reveals how repeated vaccinations impact titers to recent human H1N1 influenza strains. J Virol0:e00689-24. https://doi.org/10.1128/jvi.00689-24","journal":null,"year":2024,"id":508400,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9479,"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":1210728,"name":"Rosario Araceli L Tarabi","orcid":null,"position":1,"is_corresponding":false},{"id":422660,"name":"Caroline Kikawa","orcid":"0000-0002-8654-5663","position":2,"is_corresponding":false},{"id":106715,"name":"Jesse D. Bloom","orcid":"0000-0003-1267-3408","position":3,"is_corresponding":false},{"id":106707,"name":"Andrea N. Loes","orcid":"0000-0002-8659-0149","position":0,"is_corresponding":true}],"reference_count":0,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-07-19T02:11:10.049781Z","pmid":null,"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":[]}