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Related Concept Videos

DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
Statistical Software for Data Analysis and Clinical Trials01:12

Statistical Software for Data Analysis and Clinical Trials

Statistical software is pivotal in data analysis and clinical trials by providing tools to analyze data, draw conclusions, and make predictions. These software packages range from simple data management applications to complex analytical platforms, supporting various statistical tests, models, and simulation techniques. Their significance lies in their ability to handle vast amounts of data with precision and efficiency, enabling researchers to validate hypotheses, identify trends, and make...

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Related Experiment Video

Updated: Jun 19, 2026

Processing the Loblolly Pine PtGen2 cDNA Microarray
07:01

Processing the Loblolly Pine PtGen2 cDNA Microarray

Published on: March 20, 2009

BASE--2nd generation software for microarray data management and analysis.

Johan Vallon-Christersson1, Nicklas Nordborg, Martin Svensson

  • 1Department of Oncology, Clinical Sciences, Lund University, SE-221 84 Lund, Sweden. johan.vallon-christersson@med.lu.se

BMC Bioinformatics
|October 14, 2009
PubMed
Summary
This summary is machine-generated.

Researchers can now efficiently manage and analyze microarray data with the improved BASE 1.2 system. This open-source software tracks biomaterials, array information, and raw data for comprehensive analysis.

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Related Experiment Videos

Last Updated: Jun 19, 2026

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Area of Science:

  • Bioinformatics
  • Genomics
  • Data Management

Background:

  • Microarray experiments generate large, asynchronously collected datasets requiring robust tracking.
  • Re-analysis of existing data necessitates efficient management of biomaterials, array information, raw data, and annotations.

Purpose of the Study:

  • To address the challenges of information tracking and data analysis in large-scale microarray experiments.
  • To present an improved version of the BASE ( [name of software] ) system for enhanced microarray data management.

Main Methods:

  • Reimplementation and enhancement of the existing BASE system.
  • Development of a comprehensive, annotable local microarray data repository and analysis application.

Main Results:

  • The new BASE system provides efficient information management, tracking all experimental materials from biosource to analysis.
  • All items within BASE are annotable, allowing annotations to serve as experimental factors in downstream analyses.
  • BASE accommodates all microarray experiment data, irrespective of available analysis tools or data formats.

Conclusions:

  • BASE is a comprehensive management application for microarray experiment information, data, and analysis.
  • The software is available as free, open-source software under the GPLv3 license.
  • The BASE team is committed to ongoing improvements and encourages community contributions.