{"doi":"10.1101/2020.03.05.977801","title":"Analyzing and interpreting DNA double-strand break sequencing data","abstract":"Abstract DNA double-strand breaks (DSBs), are a major threat to genomic stability and may lead to cancer. Several technologies to accurately detect DSBs genome-wide have been developed recently, but still lacking publicly available tools for analysis of the resulting data. Here, we present a step-by-step iSeq package ( http://breakome.utmb.edu/software.html ), custom designed for analysis and interpretation of DSB-sequencing data. iSeq performs barcode trimming and read counting, and identifies DSB-enriched regions by statistical test and annotate them to the desired genomic features. Applying this package, users can identify and annotate DSB-enriched regions from base pair (eg. Cas9 cleavage sites) up to megabase (eg. DNA replication stress-induced) resolution, and if possible quantify DSB frequencies per cell genome-wide by combining with qDSB-Seq. iSeq can be used for any sequencing-based DSB detection techniques. The analysis for Steps 1-19 can be performed within ~4 hours.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2020,"id":124686,"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":2,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9442,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2020-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":86707,"name":"Norbert Dojer","orcid":"0000-0001-5653-1167","position":1,"is_corresponding":false},{"id":569848,"name":"Bernard Fongang","orcid":"0000-0002-8161-1553","position":2,"is_corresponding":false},{"id":569849,"name":"Jules Nde","orcid":"0000-0002-1571-5637","position":3,"is_corresponding":false},{"id":569850,"name":"Yingjie Zhu","orcid":"0000-0003-1849-6019","position":4,"is_corresponding":false},{"id":247515,"name":"Maga Rowicka","orcid":"0000-0002-4011-071X","position":5,"is_corresponding":false},{"id":569847,"name":"Abhishek Mitra","orcid":"0000-0002-7378-4147","position":0,"is_corresponding":true}],"reference_count":20,"raw_metadata":null,"created_at":"2026-07-18T23:15:11.632153Z","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":[]}