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HPREP: a comprehensive database for human proteome repeats.

David Mary Rajathei1, Subbiah Parthasarathy1, Samuel Selvaraj1

  • 1Department of Bioinformatics, School of Life Sciences, Bharathidasan University, Tiruchirappalli 620 024, India.

Journal of Integrative Bioinformatics
|November 2, 2020
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Summary
This summary is machine-generated.

Human protein repeats are crucial for structure and function, and their abnormal expansion causes disease. The HPREP database provides a comprehensive resource for analyzing human proteome repeats and their associated functions and diseases.

Keywords:
bioinformaticsdatabasediseasefunctionhuman proteomerepeats

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Amino acid repeats are integral to protein structure and function across all life forms, particularly in eukaryotes.
  • A significant portion of human proteins contains these repeats, and their aberrant expansion is linked to various human diseases.

Purpose of the Study:

  • To develop a comprehensive web database, HPREP, for analyzing human proteome repeats.
  • To integrate functional, mutational, and disease information with identified repeats for a deeper understanding of their roles.

Main Methods:

  • Utilized in-house Perl programming and the T-REKS tool with the XSTREAM web server to identify well-characterized and novel repeats in the human proteome (UniProtKB/Swiss-Prot).
  • Annotated identified proteins with functional, mutational, and disease data, categorizing them by repeat type.
  • Developed the HPREP web database using Perl and HTML programming.

Main Results:

  • Successfully identified and categorized various types of amino acid repeats within the human proteome.
  • Integrated extensive functional, mutational, and disease-related annotations for proteins containing these repeats.
  • Created a searchable web resource, HPREP, facilitating exploration of repeat types and their biological significance.

Conclusions:

  • The HPREP database serves as a valuable resource for researchers studying the human proteome.
  • It offers enhanced insights into the diverse roles and implications of amino acid repeats in human proteins and associated diseases.