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Last updated: 2025-06-18

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Anthracyclines induce global changes in cardiomyocyte chromatin accessibility that overlap with cardiovascular disease loci

Authors: E. Renee Matthews, Raodahtullah O. Abodunrin, John D. Hurley, Jose A. Gutierrez, Michelle C. Ward

Figure 1: Thousands of chromatin accessibility changes are induced in iPSC-CMs after anthracycline treatment.

Figure 2: Early drug-dependent responsive chromatin regions are enriched in CpG-rich regions near transcription start sites.

Figure 3: Regions opening in response to drug treatment are enriched for transcription factor motifs including p53 and JunB.

Figure 4: Regions that open in response to drugs are enriched near signaling genes, while closing regions are enriched near cardiac genes.

Figure 5: Drug-induced chromatin accessibility changes correspond to changes in active histone modification and gene expression.

Figure 6: Drug responsive regions are near cardiotoxicity-associated SNPs.

Figure 7: Drug responsive regions overlap SNPs associated with atrial fibrillation and heart failure.

Supplementary Figures 1-10

Supplementary Figures 12-19

Older Analysis pages

QC pages

Fastqc analysis of ATAC data

Read counts and Peak calling

Examination of Peak meta-data characteristics

Analysis pages using final peaks set based on 4 individuals:

Final peak set analysis

GO/KEGG analysis of associated RNA-expressed genes to close regions by cluster

Looking at enhancers and peaks)

Looking at TEs and peaks)

Jaspar motif analysis (in progress)

Investigating H3K27ac in a subset of samples

Additional plots of long Figure 6 and
Figure 6 iterations
Figure 7 iterations

Exploratory analysis pages

Looking at SNPs

Cardiotoxicity-associated SNPs
Utilizes 115 total SNPs obtained from:
Schneider, BP, et al., Genome-Wide Association Study for Anthracycline-Induced Congestive Heart Failure, Clinical Cancer Research, 2017. Link to paper
108 SNPs used

Park, B. et al., Genome-wide association study of genetic variants related to anthracycline-induced cardiotoxicity in early breast cancer, Cancer Science, 2020. Link to paper
7 SNPs used

Atrial Fibrillation and Heart Failure SNPs

Data obtained from GWAS Catalog using the terms atrial fibrillation and heart failure.