{"doi":"10.1101/2020.02.21.959023","title":"Single cell transcriptomic heterogeneity in invasive ductal and lobular breast cancer cells","abstract":"Abstract Invasive lobular breast carcinoma (ILC), one of the major breast cancer histological subtypes, exhibits unique clinical and molecular features compared to the other well-studied ductal cancer subtype (IDC). The pathognomonic feature of ILC is loss of E-cadherin, mainly caused by inactivating mutations within the CDH1 gene, but the extent of contribution of this genetic alteration to ILC-specific molecular characteristics remains largely understudied. To profile these features transcriptionally, we conducted single cell RNA sequencing on a panel of IDC and ILC cell lines, as well as an IDC cell line (T47D) with CRISPR-Cas9-mediated knock out (KO) of CDH1 . Inspection of intra-cell line heterogeneity illustrated genetically and transcriptionally distinct subpopulations in multiple cell lines and highlighted rare populations of MCF7 cells highly expressing an apoptosis-related signature, positively correlated with a pre-adaptation signature to estrogen deprivation. Investigation of CDH1 KO-induced alterations showed transcriptomic membranous systems remodeling, elevated resemblance to ILCs in regulon activation, and suggests IRF1 as a potential mediator of reduced proliferation and increased cytokine-mediated immune-reactivity in ILCs.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2020,"id":120861,"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":8,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9497,"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":420459,"name":"Kai Ding","orcid":"0000-0003-0160-4650","position":1,"is_corresponding":false},{"id":559186,"name":"Nolan Priedigkeit","orcid":"0000-0001-8330-5210","position":2,"is_corresponding":false},{"id":497391,"name":"Ashuvinee Elangovan","orcid":"0000-0001-5113-0970","position":3,"is_corresponding":false},{"id":497389,"name":"Kevin M. Levine","orcid":"0000-0001-6859-3461","position":4,"is_corresponding":false},{"id":356179,"name":"Neil Carleton","orcid":"0000-0001-6985-7510","position":5,"is_corresponding":false},{"id":497388,"name":"Laura Savariau","orcid":"0000-0003-0452-9481","position":6,"is_corresponding":false},{"id":510433,"name":"Jennifer M. Atkinson","orcid":"0000-0001-5164-5114","position":7,"is_corresponding":false},{"id":109274,"name":"Steffi Oesterreich","orcid":"0000-0002-2537-6923","position":8,"is_corresponding":false},{"id":44717,"name":"Adrian V. Lee","orcid":"0000-0001-9917-514X","position":9,"is_corresponding":false},{"id":559185,"name":"Fangyuan Chen","orcid":"0000-0002-9891-4753","position":0,"is_corresponding":true}],"reference_count":75,"raw_metadata":null,"created_at":"2026-07-18T23:14:38.147936Z","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":[]}