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Mining the human proteome: experience with the human lymphoid protein database

S M Hanash1, D Teichroew

  • 1Department of Pediatrics, University of Michigan School of Medicine, Ann Arbor 48109-0510, USA. shanash@umich.edu

Electrophoresis
|September 18, 1998
PubMed
Summary

A comprehensive database of lymphoid proteins was developed using two-dimensional gel electrophoresis. This resource, containing thousands of protein patterns, offers novel insights into lymphoid cell biology and disease.

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Area of Science:

  • Immunology
  • Proteomics
  • Bioinformatics

Background:

  • Developing a comprehensive database of lymphoid proteins is crucial for understanding immune cell function and dysfunction.
  • Two-dimensional polyacrylamide gel electrophoresis (2-D PAGE) is a powerful technique for separating and visualizing complex protein mixtures.

Purpose of the Study:

  • To create and expand a database of lymphoid proteins analyzed by 2-D PAGE.
  • To catalog protein expression profiles in various lymphoid cell types, including normal and diseased states.

Main Methods:

  • Utilized 2-D PAGE to generate protein profiles from diverse lymphoid cell populations.
  • Collected and curated 2-D gel patterns from unstimulated/stimulated T cells, thymocytes, manipulated cell lines, clones, and patient samples.

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  • Developed a database to store and manage a large collection of 2-D gel patterns.

    • Main Results:

    • The database now contains 9,167 individual 2-D patterns, part of a larger collection of 30,682 patterns.
    • The database encompasses protein profiles from various T cell types, B cell clones, and cells from patients with lymphoproliferative disorders and leukemia.
    • Initial data mining has revealed novel findings, highlighting the value of this protein-centric approach.

    Conclusions:

    • The developed lymphoid protein database is a valuable resource for immunological and proteomic research.
    • Despite challenges in full data integration, the database has already yielded significant insights into lymphoid cell protein expression.
    • Ongoing efforts and additional resources are focused on maximizing the data mining potential for novel discoveries.