{"doi":"10.17504/protocols.io.3byl464b8go5/v1","title":"Fast-ATACseq protocol – Stanford Bone Marrow TMC v1","abstract":"Frozen CD34⁺ enriched cells from mobilized peripheral blood were thawed and suspended in cell-staining media with TruStain FC blocker for 10 min at room temperature prior to staining. Next, the cocktail of surface antibodies was added (Table S1), and cells were stained in the dark for 30 min on ice and then washed in cell-staining media. Prior to data acquisition, cell suspensions were spiked with 7-AAD (BioLegend) to label non-viable cells. The sorted populations (Figures S3B and S5D) were used for bulk ATAC-seq analysis. For bulk Fast-ATAC-seq, cells were processed as described previously (M.R. Corces et al., Nat. Genet., 48 (2016)). Briefly, approximately 50,000 FACS-purified cells were pelleted and used for the transposition reaction for each technical replicate, followed by DNA purification. Amplification and purification of the transposed fragments were performed as described previously (J.D. Buenrostro et al., Curr. Protoc. Mol. Biol., 109 (2015)) with modified indexing primers (J.D. Buenrostro et al., Nature, 523 (2015)). Libraries were quantified using qPCR. All Fast-ATAC libraries were sequenced on an Illumina NovaSeq through Novogene. Each population analyzed included two technical replicates and two biological replicates.","journal":null,"year":2025,"id":580903,"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":0.6455,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2025-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":994114,"name":"Warren Reynolds","orcid":null,"position":1,"is_corresponding":false},{"id":233126,"name":"Reema Baskar","orcid":"0000-0002-3872-0164","position":2,"is_corresponding":false},{"id":233129,"name":"Sean C. Bendall","orcid":"0000-0003-1341-2453","position":3,"is_corresponding":false},{"id":331103,"name":"Patricia Favaro","orcid":"0000-0002-3764-9538","position":0,"is_corresponding":true}],"reference_count":0,"raw_metadata":null,"created_at":"2026-07-19T02:58:43.046112Z","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":[]}