Review of the Phase 1 PsychENCODE capstone resource: �Layers of distributed information

1

Material in the 3 capstones:

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AC - Wang et al. ('18)

DC - Li et al. ('18)

NC - Gandal et al. ('18)

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Resource.psychencode.org

Development.psychencode.org

Base Data Layer

Organizing Metaphors

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Future considerations

• New "Axes" ?
• New sets to merge (GTEx v8, HCA)?
• Reference brain ?

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2

[AC,DC]

Pipeline Results

• ChIP-seq & Me
• signal tracks & peaks
• Differential H3K27ac & Me peaks
• Bulk RNA-seq quantifications
• Single-cell
• Quantifications
• Cell-type signatures & fractions
• Imputed genotypes
• Hi-C matrix & TADs

Future considerations

• ATAC-seq pipeline? sc-ATAC?
• More cell types
• WGS vs. imputed genotypes

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3

[AC,DC]

Derived Results

• DEX genes & co-expr. modules
• Across development, �regions & conditions
• Differential splicing
• PFC QTLs
• cis-eQTLs - ~2M (sat’d)
• fQTL, cQTLs
• Enhancers (init. PFC & CBC)

Future considerations

• Trans QTLs? More regions?
• Starr-seq enhancers?

4

[AC,NC]

Integrative Models

• Integ. Regulatory Networks
• Activity+Hi-C+QTL
• Double overlap high-conf. linkages (eg A+H)
• Init. disease prediction model (DSPN)

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Future considerations

• Better networks? Single-cell?
• How to distribute models ?

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5

[AC]