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Overview of My Research. Brendan Mumey Department of Computer Science MSU. Interest: Algorithms. In Computational Biology… Epitope mapping In Networking… Optical networking (NSF supported) Wireless networking. Background: Antibody Imprinting .

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Overview of my research

Overview of My Research

Brendan Mumey

Department of Computer Science

MSU


Interest algorithms
Interest: Algorithms

  • In Computational Biology…

    • Epitope mapping

  • In Networking…

    • Optical networking (NSF supported)

    • Wireless networking


Background antibody imprinting
Background: Antibody Imprinting

  • Step 1: Find an antibody that binds the protein:

    Step 2: Probe the antibody with a random peptide library of short peptide sequences:

protein

target

antibody

probes

antibody


Validation case antibody 9d7 epitope on il 10

15%

85%

Validation case: Antibody 9D7 epitope on IL-10



Current work
Current Work peptides

  • Improving algorithm to do multiple alignments

  • Refining substitution matrix based on PDB data


Optical networking
Optical Networking peptides

NSF Optical Network




Current work1
Current Work peptides

  • Extending some ideas from Multicommodity Flow for improved algorithms

  • New software simulation system (RAPTOR) for testing RWA algorithms with physical impairments modeled


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