Figure 1.
Transcriptomic differences between R/R and CR pts in pretreatment primary AML samples. (A) Volcano plot profile (left) showing the −log10 FDR value and log2 fold change of DEGs between pts who achieved CR/CRi (CR pts) and pts who did not respond to treatment or relapsed after VEN/DEC treatment (R/R pts) in the treatment-naive AML cohort (R/R, n = 5; CR, n = 6). Dot plot (right) of GSEA results illustrating the top-ranked GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in R/R pts. The gene ratio is the percentage of genes that were significantly associated with the R/R group among the total number of genes associated with the process. GO terms are ranked in decreasing order of NES. A single asterisk and a double asterisk indicate GO terms associated with energy production and immune response, respectively. (B) Volcano plot profile (left) of DEGs in R/R pts vs CR pts in the previously treated (nonnaive) group of pts with AML (R/R, n = 7; CR, n = 3). Dot plot (right) of GSEA results illustrating the top of a ranked list of GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in R/R pts. (C) Volcano plot profile (left) of DEGs in nonnaive vs treatment-naive pts in the CR group (nonnaive, n = 3; treatment-naive, n = 6). Dot plot (right) of GSEA results illustrating the top-ranked GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in the nonnaive cohort. (D) Volcano plot (left) profile of DEGs in nonnaive vs treatment-naive pts in the R/R group (nonnaive, n = 7; treatment-naive, n = 5). Dot plot (right) of GSEA results illustrating the top-ranked GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in the nonnaive cohort. ATP, adenosine triphosphate; BP, biological process; DEGs, differentially expressed genes; ER, endoplasmic reticulum; GO, gene ontology; ncRNA, non-coding RNA; NES, normalized enrichment scores; pts, patients; rRNA, ribosomal RNA; SSU, Small Subunit; tRNA, transfer RNA.

Transcriptomic differences between R/R and CR pts in pretreatment primary AML samples. (A) Volcano plot profile (left) showing the −log10 FDR value and log2 fold change of DEGs between pts who achieved CR/CRi (CR pts) and pts who did not respond to treatment or relapsed after VEN/DEC treatment (R/R pts) in the treatment-naive AML cohort (R/R, n = 5; CR, n = 6). Dot plot (right) of GSEA results illustrating the top-ranked GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in R/R pts. The gene ratio is the percentage of genes that were significantly associated with the R/R group among the total number of genes associated with the process. GO terms are ranked in decreasing order of NES. A single asterisk and a double asterisk indicate GO terms associated with energy production and immune response, respectively. (B) Volcano plot profile (left) of DEGs in R/R pts vs CR pts in the previously treated (nonnaive) group of pts with AML (R/R, n = 7; CR, n = 3). Dot plot (right) of GSEA results illustrating the top of a ranked list of GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in R/R pts. (C) Volcano plot profile (left) of DEGs in nonnaive vs treatment-naive pts in the CR group (nonnaive, n = 3; treatment-naive, n = 6). Dot plot (right) of GSEA results illustrating the top-ranked GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in the nonnaive cohort. (D) Volcano plot (left) profile of DEGs in nonnaive vs treatment-naive pts in the R/R group (nonnaive, n = 7; treatment-naive, n = 5). Dot plot (right) of GSEA results illustrating the top-ranked GO BP terms enriched in the DEGs (FDR < 0.25). Positive and negative enrichment scores, respectively, indicate upregulation and downregulation in the nonnaive cohort. ATP, adenosine triphosphate; BP, biological process; DEGs, differentially expressed genes; ER, endoplasmic reticulum; GO, gene ontology; ncRNA, non-coding RNA; NES, normalized enrichment scores; pts, patients; rRNA, ribosomal RNA; SSU, Small Subunit; tRNA, transfer RNA.

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