Overview of my research
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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

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Overview of my research

Overview of My Research

Brendan Mumey

Department of Computer Science


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:






Validation case antibody 9d7 epitope on il 10



Validation case: Antibody 9D7 epitope on IL-10

Overview of my research

  • The grey squares are the alignment of a random set of peptides

  • The gold triangles are the genuine epitope

  • The large yellow triangles are key residues mediating binding of antibody to antigen

Current work

Current Work

  • Improving algorithm to do multiple alignments

  • Refining substitution matrix based on PDB data

Optical networking

Optical Networking

NSF Optical Network

Routing and wavelength assignment

Routing and Wavelength Assignment

Markov based rwa results

Markov based RWA results

Current work1

Current Work

  • 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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