Journal: Blood Cancer Discovery
Article Title: A Single-Cell Taxonomy Predicts Inflammatory Niche Remodeling to Drive Tissue Failure and Outcome in Human AML
doi: 10.1158/2643-3230.bcd-23-0043
Figure Lengend Snippet: Figure 7. Gene signatures reflective of inflammatory niche remodeling are associated with favorable clinical outcomes in AML. A, Predicted BMSC subset size in the larger cohort of patients with AML (n = 62). ****, P < 0.0001 by the Wilcoxon test. B, Kaplan–Meier curves for overall survival (OS) and relapse probability indicating improved outcome in patients with the predicted loss of BMSC cluster 0. Cutoff is median frequency. Statistical signifi- cance is determined by a log-rank test. C, Construction of a gene signature reflective of niche remodeling (inflammatory activation and relative loss of BMSC cluster 0) in AML. 189 genes at the intersection of the genes differentially expressed in the BMSC-0 vs. other clusters in NBM, the genes differ- entially expressed in the BMSC-2 vs. other clusters in AML, and the genes differentially expressed in BMSCs in human AML vs. NBM were selected and tested for their correlation with outcome by multivariate Cox regression survival analysis. Thirteen of 189 genes were identified that were associated with outcome. D, Coefficient plot (left) and heat map (right) of the 13-gene signature. The gene-expression profile (GEP) score in each patient was calcu- lated using the coefficient and z-scale of the genes. Based on the median GEP score, patients were stratified into two groups, with a high score reflecting relative preservation of niche integrity and a low score reflecting niche inflammatory disruption. E, Kaplan–Meier curves for overall survival (OS) and relapse probability indicating improved outcome in patients with niche inflammatory disruption. Cutoff is median score. Log-rank test is used for statisti- cal analysis. F, Kaplan–Meier curves OS and relapse probability indicating improved outcome in patients with lower KITLG expression in BMSCs. Cutoff is median TPM. Log-rank test is used for statistical analysis. G, Kaplan–Meier curves for OS indicating improved outcome in age-matched patients with AML with lower KITLG expression in whole BM in Bohlander AML (GSE37642) cohort (n = 284) and TCGA-AML cohort (n = 98). Cutoff is 75th percentile normalized counts. Log-rank test is used for statistical analysis.
Article Snippet: Cell Line and Ex Vivo Coculture The STR-authenticated human BMSC cell line HS-5 was purchased from ATCC (CRL 3611) in 2020 and maintained in RPMI-1640 medium (Thermo Fisher Scientific) supplemented with 10% FCS and 1% penicillin and streptomycin.
Techniques: Activation Assay, Gene Expression, Preserving, Disruption, Expressing