{"doi":"10.1083/jcb.202103078","title":"High-throughput single-cell epigenomic profiling by targeted insertion of promoters (TIP-seq)","abstract":"Chromatin profiling in single cells has been extremely challenging and almost exclusively limited to histone proteins. In cases where single-cell methods have shown promise, many require highly specialized equipment or cell type-specific protocols and are relatively low throughput. Here, we combine the advantages of tagmentation, linear amplification, and combinatorial indexing to produce a high-throughput single-cell DNA binding site mapping method that is simple, inexpensive, and capable of multiplexing several independent samples per experiment. Targeted insertion of promoters sequencing (TIP-seq) uses Tn5 fused to proteinA to insert a T7 RNA polymerase promoter adjacent to a chromatin protein of interest. Linear amplification of flanking DNA with T7 polymerase before sequencing library preparation provides ∼10-fold higher unique reads per single cell compared with other methods. We applied TIP-seq to map histone modifications, RNA polymerase II (RNAPII), and transcription factor CTCF binding sites in single human and mouse cells.","journal":"The Journal of Cell Biology","year":2021,"id":157550,"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":50,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9504,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2021-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":16445,"name":"Vishnu Dileep","orcid":"0000-0001-9181-2191","position":1,"is_corresponding":false},{"id":558677,"name":"Tetsuya Handa","orcid":"0000-0001-7707-0195","position":2,"is_corresponding":false},{"id":664705,"name":"Yasuyuki Ohkawa","orcid":"0000-0001-6440-9954","position":3,"is_corresponding":false},{"id":112566,"name":"Hiroshi Kimura","orcid":"0000-0003-0854-083X","position":4,"is_corresponding":false},{"id":45084,"name":"Steven Henikoff","orcid":"0000-0002-7621-8685","position":5,"is_corresponding":false},{"id":42992,"name":"David M. Gilbert","orcid":"0000-0001-8087-9737","position":6,"is_corresponding":false},{"id":625847,"name":"Daniel A. Bartlett","orcid":"0000-0003-3197-2438","position":0,"is_corresponding":true}],"reference_count":54,"raw_metadata":null,"created_at":"2026-07-18T23:44:21.786014Z","pmid":"34783858","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":[]}