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Assembling the interactome of human extracellular matrix to understand its role in health and disease. Graham Cromar and John Parkinson Department of Molecular and Medical Genetics, University of Toronto Program in Molecular Structure and Function, Hospital for Sick Children, Toronto.

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Assembling the interactome of human extracellular matrix to understand its role in health and disease

Graham Cromar and John Parkinson

Department of Molecular and Medical Genetics, University of Toronto

Program in Molecular Structure and Function, Hospital for Sick Children, Toronto

biological networks
Biological Networks

Goh et al. 2007. PNAS The human disease network.

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Aims

How is the Extracellular Matrix organized?

  • List of components?
  • How are they organized?
  • What are the important functional units?

Understand elastin within the context of surrounding matrix

  • What does it interact with?
  • How central is elastin to this network?

Gain insight into how the ECM network evolved

  • Did important functional units always exit?
  • Did some proteins arise in association with specific adaptations?
  • What did the network look like when elastin emerged?
approach
GO

Cellular Component = ECM

Biological Process

Molecular Function

Gene Ontology

Approach

Protein Databases

Uniprot

RefSeq

Ensembl

Filter

Interaction Databases

DIP

BioGRID

Database of

ECM proteins

IntAct

Search

Mint

results
Results
  • Initial map consisting of 361 nodes (547 edges).
  • A considerable number (40%) of ECM proteins appear to have no known interactions.
  • Many human ECM proteins are incompletely annotated in GO.
  • Rat proteins are well-annotated in comparison to their human orthologues.

ELN

NID2 FBN2 FBN1 FBLN2 FBLN1 LOX BGN DCN MAFP FCN1 PRTN3 FKBP10 LYZ SPINK1 ELA2 ASS GALS3

future work
Expand the number of GO terms used

Use annotations from Rat/Mouse orthologues to extend human network.

Look at other interaction databases to complement this data.

Future Work

Supported by:

Restracomp

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