t47d er her2 breast cancer cells  (ATCC)

Journal: Clinical Cancer Research

Article Title: Tamoxifen Response at Single-Cell Resolution in Estrogen Receptor–Positive Primary Human Breast Tumors

doi: 10.1158/1078-0432.CCR-23-1248

Figure Lengend Snippet: T47D response to tamoxifen at a single-cell level. A, Illustration showing T47D scRNA-seq workflow. B, UMAP plot of T47D scRNA-seq cells color coded by groupA (luminal A–like subpopulation) or groupB (luminal B–like subpopulation). C, UMAP plot of T47D scRNA-seq cells color coded by treatment condition. D, Volcano plot showing enriched and depleted gene sets after tamoxifen treatment in T47D cells. Significant gene sets were defined as a gene ratio of >0.125 and a log 10 q value of <−4.5 or >4.5, and a thresholding limit of 10 was applied when log 10 q value >10 for visualization. E, Feature plots showing the expression of luminal epithelial markers and proliferation score in T47D cells.

Article Snippet: We obtained the ER + /HER2 − cell line T47D from the ATCC.

Techniques: Expressing

Journal: Clinical Cancer Research

Article Title: Tamoxifen Response at Single-Cell Resolution in Estrogen Receptor–Positive Primary Human Breast Tumors

doi: 10.1158/1078-0432.CCR-23-1248

Figure Lengend Snippet: Targeted analysis of four tamoxifen-responsive tumor pairs. A, UMAP plot of scRNA-seq cells from four tumors that demonstrated depletion of scTAM-response-T47D signature. Cells are color coded by cell type. B, UMAP plot of scRNA-seq cells from four tumor pairs, color coded by tumor and treatment condition. C, Heat map of upregulated and downregulated gene sets in tamoxifen-treated tumor cells relative to control cells. D, Volcano plot showing enriched and depleted gene sets after tamoxifen treatment in malignant cells from 4 ER + /HER2 − tumor pairs. Significant gene sets were defined as a gene ratio of > 0.085 and a log 10 q value of < −10 or > 10 for visualization. E, Kaplan–Meier (KM) curve for overall survival using two independent clinically annotated datasets with transcriptional data. ER + /HER2 − patients treated with endocrine therapy were assigned a centroid score of our malignant cell-specific tamoxifen resistance signature (scTAM-resistance-M) and stratified by high and low score. High signature score is associated with significantly worse overall survival in patients in METABRIC (HR, 1.63; P = 0.023) and SCAN-B (HR, 2.94; P = 0.002). Statistical significance was assessed by the log-rank test and the estimates of survival probabilities and cumulative hazard with a univariate Cox proportional hazards model.

Article Snippet: We obtained the ER + /HER2 − cell line T47D from the ATCC.

Techniques: Control

Journal: Clinical Cancer Research

Article Title: Tamoxifen Response at Single-Cell Resolution in Estrogen Receptor–Positive Primary Human Breast Tumors

doi: 10.1158/1078-0432.CCR-23-1248

Figure Lengend Snippet: Identification and characterization of resistant tumor cell subpopulations in four tamoxifen-responsive tumor pairs. A, Individual cells were assigned a score from the T47D tamoxifen response signature compared with cluster matched untreated score. Application of response score to UMAP plot demonstrated three distinct clusters with enriched signature score on treatment (cluster 3, 12, 19) and one tamoxifen-sensitive cluster with depletion of response score (cluster 2). B, Abundance of cells from resistant clusters in each of the four tumors. C, Stacked bar chart showing distribution of cells within 22 distinct clusters, color coded by tumor and treatment condition. D, Kaplan–Meier (KM) curve of the cluster 19 signature (scTAM-resistance-C19), using ER + /HER2 − patients that received endocrine therapy from METABRIC. Higher signature score predicted worse overall survival (HR, 2.17; P < 0.001). Survival curve differences were calculated by the log-rank test and the estimates of survival probabilities and cumulative hazard with a univariate Cox proportional hazards model. E, We obtained data of clinically annotated endocrine therapy sensitive and resistant tumors from Xia and colleagues . All three tamoxifen resistance signatures were enriched in resistant tumors compared with sensitive. Significance was determined using the Wilcoxon rank-sum test, ***, P < 0.001.

Article Snippet: We obtained the ER + /HER2 − cell line T47D from the ATCC.

Techniques: