{"doi":"10.26508/lsa.202000641","title":"Full-length transcript alterations in human bronchial epithelial cells with<i>U2AF1</i>S34F mutations","abstract":"U2AF1 is one of the most recurrently mutated splicing factors in lung adenocarcinoma and has been shown to cause transcriptome-wide pre-mRNA splicing alterations; however, the full-length altered mRNA isoforms associated with the mutation are largely unknown. To better understand the impact U2AF1 has on full-length isoform fate and function, we conducted high-throughput long-read cDNA sequencing from isogenic human bronchial epithelial cells with and without a U2AF1 S34F mutation. We identified 49,366 multi-exon transcript isoforms, more than half of which did not match GENCODE or short-read–assembled isoforms. We found 198 transcript isoforms with significant expression and usage changes relative to WT, only 68% of which were assembled by short reads. Expression of isoforms from immune-related genes is largely down-regulated in mutant cells and without observed splicing changes. Finally, we reveal that isoforms likely targeted by nonsense-mediated decay are down-regulated in U2AF1 S34F cells, suggesting that isoform changes may alter the translational output of those affected genes. Altogether, our work provides a resource of full-length isoforms associated with U2AF1 S34F in lung cells.","journal":"Life Science Alliance","year":2023,"id":381018,"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":4,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9137,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2023-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":225659,"name":"Eva Hrabeta‐Robinson","orcid":"0000-0003-4818-3988","position":1,"is_corresponding":false},{"id":15643,"name":"Carlos Arevalo","orcid":"0000-0003-2492-2547","position":2,"is_corresponding":false},{"id":1146578,"name":"Colette Felton","orcid":"0000-0003-0810-0084","position":3,"is_corresponding":false},{"id":225656,"name":"Alison D. Tang","orcid":"0000-0001-7125-0793","position":4,"is_corresponding":false},{"id":3673,"name":"Maximillian G. Marin","orcid":"0000-0002-9108-3328","position":5,"is_corresponding":false},{"id":13299,"name":"Angela N. Brooks","orcid":"0000-0002-7898-3073","position":6,"is_corresponding":false},{"id":14077,"name":"Cameron M. Soulette","orcid":"0000-0001-8274-1838","position":0,"is_corresponding":true}],"reference_count":65,"raw_metadata":null,"created_at":"2026-07-19T01:17:08.831117Z","pmid":"37487637","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":[]}