Science Advances

Supplementary Materials

The PDF file includes:

  • Supplementary Text
  • Fig. S1. Directed differentiation of human iPSCs to neural progenitors and cortical neurons and expression of stage-specific markers.
  • Fig. S2. Biological interpretation of genomic regions identified in the DMRs/DHMRs/DFCRs in PSEN2 and WT cell lines.
  • References (3642)

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Other Supplementary Material for this manuscript includes the following:

  • Table S1 (Microsoft Excel format). Total 5mC, 5hmC, and 5fC/caC sites in WT and AD cell lines.
  • Table S2A (Microsoft Excel format). GO functional enrichment analysis of genes in DMRs (cutoff P < 0.05).
  • Table S2B (Microsoft Excel format). GO functional enrichment analysis of genes in DHMRs (cutoff P < 0.05).
  • Table S2C (Microsoft Excel format). GO functional enrichment analysis of genes in DFCRs (cutoff P < 0.05).
  • Table S3A (Microsoft Excel format). AD-related 5mC signatures.
  • Table S3B (Microsoft Excel format). AD-related 5hmC signatures.
  • Table S3C (Microsoft Excel format). AD-related 5fC/caC signatures.
  • Table S4A (Microsoft Excel format). AD-related 5mC signatures (cutoff ±1 fold-change methylation variation).
  • Table S4B (Microsoft Excel format). AD-related 5hmC signatures (cutoff ±1.5 fold-change methylation variation).
  • Table S4C (Microsoft Excel format). AD-related 5fC/caC signatures (cutoff ±1.5 fold-change methylation variation).
  • Table S5A (Microsoft Excel format). CpG-specific AD epigenetic signatures (5mC).
  • Table S5B (Microsoft Excel format). CpG-specific AD epigenetic signatures (5hmC).
  • Table S5C (Microsoft Excel format). CpG-specific AD epigenetic signatures (5fC/caC).
  • Table S6 (Microsoft Excel format). Validation of AD-related epigenetic signatures in the ROS/MAP replication cohort.
  • Table S7 (Microsoft Excel format). qRT-PCR primers.
  • Table S8A (Microsoft Word format). Summary of whole-genome OXBS-seq experiments.
  • Table S8B (Microsoft Word format). Summary of whole-genome MAB-seq experiments.

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