A Systems Approach to Map B cell Specific Network

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A Systems Approach to Map B cell Specific Network

• Chan Ming Liang
• Jamie Duke
• Mahmoud Mansouri
• Liang Qiao
• Faculty Timothy Ravasi and Sourav Bandyopadhyay

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B Cell Lineages
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Dataset

• Affymetrix microarrays on B cells from mouse
  (GSE4142)
• Naïve, Germinal Center, Plasma and Memory
• Data processing
• GCRMA for normalization
• Select only genes that are differentially
  expressed between 2 cell types
• Map mouse gene ids to human gene ids using MGI
  Mammalian Orthology Query Tool
• Move to Cytoscape
• Import Human Protein Protein Interaction
  Network
• Overlay expression values and p-values between
  cell types

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B-cells specific cellular network
Node 1939 Edges 3693
Degree distribution
Shorter path
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Pathway analysis of B-cell specific network
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Searching for active sub-networks
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Hierarchical Clustering with Support Trees using
MeV
Genes
Subnetworks
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Gene Topology
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Samples Topology
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Naïve Specific Subnetwork
high
expression
low
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Naïve Specific Subnetwork
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Germinal Center Specific Subnetwork
high
expression
low
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Germinal Center Specific Subnetwork