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SysZNF: the C2H2 zinc finger gene database.

Guohui Ding¹, Peter Lorenz, Michael Kreutzer

¹Bioinformatics Center, Key Lab of Systems Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 320 Yueyang Road, Shanghai 200031, P. R. China.

Nucleic Acids Research

|November 1, 2008

Summary

SysZNF is a new database cataloging human and mouse C2H2 zinc finger (C2H2-ZNF) genes. This resource aids genotype-phenotype comparisons and understanding C2H2-ZNF gene evolution.

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Area of Science:

Genomics
Bioinformatics
Evolutionary Biology

Background:

C2H2 zinc finger (C2H2-ZNF) genes represent a vast and intricate gene super-family in metazoan genomes.
Hundreds of C2H2-ZNF genes exist in human and mouse genomes, necessitating computational tools for comprehensive study.

Purpose of the Study:

To systematically collect and organize C2H2-ZNF gene data from human and mouse genomes.
To create a centralized database (SysZNF) for genotype-phenotype comparisons and evolutionary analysis of C2H2-ZNF genes.

Main Methods:

Systematic collection of all C2H2-ZNF genes from human and mouse genomes.
Construction of the SysZNF database, integrating gene location, models, expression data, protein domains, homologs, and literature links.
Implementation of search functionalities (text and sequence) and data download options.

Main Results:

The SysZNF database provides comprehensive data for each C2H2-ZNF gene, including physical location, transcript forms, expression probes, protein domains, and homologous genes.
The database highlights the clustered organization of C2H2-ZNF genes and facilitates synteny analysis between human and mouse.
Integrated tools within SysZNF, such as graphical views and sequence retrieval, support an integrative approach to C2H2-ZNF gene research.

Conclusions:

SysZNF serves as a valuable computational resource for researchers studying C2H2-ZNF genes.
The database supports genotype-phenotype comparisons and advances the understanding of C2H2-ZNF gene evolution across species.