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Related Concept Videos

Schemas01:42

Schemas

A schema is a mental construct consisting of a cluster or collection of related concepts (Bartlett, 1932). There are many different types of schemata, and they all have one thing in common: schemata are a method of organizing information that allows the brain to work more efficiently. When a schema is activated, the brain makes immediate assumptions about the person or object being observed.
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GIS Software, Hardware, and Sources of GIS Data

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TBase - an Integrated Electronic Health Record and Research Database for Kidney Transplant Recipients
09:00

TBase - an Integrated Electronic Health Record and Research Database for Kidney Transplant Recipients

Published on: April 13, 2021

TabSQL: a MySQL tool to facilitate mapping user data to public databases.

Xiao-Qin Xia1, Michael McClelland, Yipeng Wang

  • 1Vaccine Research Institute of San Diego, 10835 Road to the Cure, San Diego, CA 92121, USA. xqxia70@gmail.com

BMC Bioinformatics
|June 25, 2010
PubMed
Summary
This summary is machine-generated.

Biologists can now easily query large datasets and public databases like Gene Ontology (GO) without programming using TabSQL. This tool simplifies data annotation and enrichment for genomic and proteomic research.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics and Proteomics Data Analysis

Background:

  • High-throughput genomics and proteomics generate large datasets, posing challenges for biologists.
  • Mapping experimental data to public annotations in databases is complex.

Purpose of the Study:

  • To develop a user-friendly tool for biologists to manage and analyze large biological data files.
  • To enable seamless querying of user data alongside public biological databases.

Main Methods:

  • Development of TabSQL, a MySQL-based application.
  • Implementation of functions to download and install data from public databases (e.g., Gene Ontology, Ensembl, UCSC Genome Bioinformatics).
  • Support for importing any tab-delimited flat files.

Main Results:

  • TabSQL facilitates viewing, filtering, and querying of large row-count data files.
  • Users can query their data with downloaded gene annotation tables from public databases.
  • Querying can be performed via a graphical interface or command line.

Conclusions:

  • TabSQL enables cross-database queries without requiring programming skills.
  • The tool serves as a convenient solution for biologists to annotate and enrich their data effectively.