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Image Search Results
Journal: Cell reports
Article Title: CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia
doi: 10.1016/j.celrep.2021.110079
Figure Lengend Snippet: (A) Schematic of sample analysis for CD19-CAR T cells at the pre-manufacturing and post-infusion time points. Created with BioRender. (B) Principal-component analysis (PCA) showing PC1 using genome-wide DNA methylation status for all available patient samples. n = 29 total patient samples. (C) Summary graph showing the number of differentially methylated regions (DMRs) longitudinally gained and lost across all patient samples relative to the associated GMP. n = 11 matched GMP and post-infusion patient samples. (D) Heatmap of the top methylated and demethylated CpG sites in all patient samples with longitudinal analysis among GMP, week 1, week 2, and week 3 time points. Clusters 1–8 are K-means clustering to identify groups of closely associated genes listed in . (E) Representative methylation and demethylation events at LEF1, PRF1, and TBET loci. Longitudinal samples are from a representative patient. Individual CpG sites are represented by vertical lines, with red indicating methylation and blue indicating lack of methylation. DMRs are represented by a green box, and enhancers are shown with a purple line. (F) Permutation test assessing enrichment of the DMRs conserved for all week 1–3 samples at enhancer sites defined by FANTOM . n = 12 post-infusion patient samples. (G) Transcription factor consensus sequence analysis of both the loss of methylation and gain of methylation DMRs conserved for all CD8 + CD19-CAR T cell post-infusion samples. n = 12 post-infusion patient samples.
Article Snippet: Human CD8 + CD19-CAR T cells were stained with the following antibodies: CD45 - FITC (BD Bioscience, Cat# 555482, Clone: HI30)
Techniques: Genome Wide, DNA Methylation Assay, Methylation, Sequencing
Journal: Cell reports
Article Title: CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia
doi: 10.1016/j.celrep.2021.110079
Figure Lengend Snippet: (A) GO for the conserved post-infusion DMRs derived for all week 1–3 CD8 + CD19-CAR T cells. n = 12 post-infusion patient samples. (B) PCA of healthy donor naive (n = 4), stem-memory (Tscm, n = 3), central-memory (Tcm, n = 3), effector-memory (Tem, n = 3), and n = 13 CD8 + CD19-CAR T cells isolated longitudinally from patients post-infusion.
Article Snippet: Human CD8 + CD19-CAR T cells were stained with the following antibodies: CD45 - FITC (BD Bioscience, Cat# 555482, Clone: HI30)
Techniques: Derivative Assay, Isolation
Journal: Cell reports
Article Title: CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia
doi: 10.1016/j.celrep.2021.110079
Figure Lengend Snippet: (A) Cross-sectional analysis of methylation-based multipotency index (MPI) measurement for CD8 + CD19-CAR T cells. n = 13 patient samples. (B) Longitudinal analysis of MPI measurement for CD8 + CD19-CAR T cells. n = 19 patient samples. (C) Linear regression of GMP MPI versus week 1 post-infusion CD8 + CD19-CAR T cell quantity (ug DNA on a log scale) determined from peripheral blood. n = 12 patient samples.
Article Snippet: Human CD8 + CD19-CAR T cells were stained with the following antibodies: CD45 - FITC (BD Bioscience, Cat# 555482, Clone: HI30)
Techniques: Methylation
Journal: Cell reports
Article Title: CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia
doi: 10.1016/j.celrep.2021.110079
Figure Lengend Snippet: (A) PCA using DNA methylation profiles of naive (n = 2), progenitor-exhausted (n = 2), and fully exhausted HIV tetramer+ (n = 4) CD8 + T cells for comparison with the GMP (n = 13) and weeks 1 (n = 4), 2 (n = 5), and 3 (n = 3) CD8 + CD19-CAR T cell profiles. (B) Summary pie charts for methylation status of DMRs residing within transitory-exhaustion-associated genes. (C) UMAP analysis of single-cell RNA sequencing data from an independent dataset obtained from CD19-CAR T cell infusion product and post-infusion early (1–2 weeks), late (~1 month), and very late (~80–100 days) time points. The left panel shows the distribution of cells based on the time point, and the smaller right panels show the expression of CX3CR1, BATF, LEF1, and TOX among the cells.
Article Snippet: Human CD8 + CD19-CAR T cells were stained with the following antibodies: CD45 - FITC (BD Bioscience, Cat# 555482, Clone: HI30)
Techniques: DNA Methylation Assay, Comparison, Methylation, RNA Sequencing, Expressing
Journal: Cell reports
Article Title: CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia
doi: 10.1016/j.celrep.2021.110079
Figure Lengend Snippet: (A) Schematic depiction of a CD19-CAR T cell quantity relative to antigen-positive cells during a primary and secondary immune response. (B) Top panel: longitudinal graph of CD19-CAR T cell quantity and antigen-positive B cells from representative patient 5. Bottom panel: summary graph of CD19-CAR T cell expansion during a primary response to antigen (initial infusion) versus during endogenous CD19+ B cell recovery. n = 5 patient samples. (C) Patients #4 and #6 CAR T cell vector copy is calculated at the given time points relative to the overall quantity of DNA from the PBMCs. DNA methylation profiles at LEF1, CX3CR1, BATF, PDCD1, TIGIT, and TOX loci from patient 6 GMP and week 2 CD8 + CD19-CAR T cells as well as a Tpex sample are shown. Individual CpG sites are represented by vertical lines, with red indicating methylation and blue indicating a lack of methylation. DMRs are represented by a green box, and enhancers are shown with a purple line.
Article Snippet: Human CD8 + CD19-CAR T cells were stained with the following antibodies: CD45 - FITC (BD Bioscience, Cat# 555482, Clone: HI30)
Techniques: Cell Recovery, Plasmid Preparation, DNA Methylation Assay, Methylation
Journal: Cell reports
Article Title: CD19-CAR T cells undergo exhaustion DNA methylation programming in patients with acute lymphoblastic leukemia
doi: 10.1016/j.celrep.2021.110079
Figure Lengend Snippet: KEY RESOURCES TABLE
Article Snippet: Human CD8 + CD19-CAR T cells were stained with the following antibodies: CD45 - FITC (BD Bioscience, Cat# 555482, Clone: HI30)
Techniques: Recombinant, DNA Methylation Assay, Methylation, Software, Methylation Sequencing, Flow Cytometry