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DNA Microarrays

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...

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A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

BioconductorBuntu: a Linux distribution that implements a web-based DNA microarray analysis server.

Paul Geeleher¹, Dermot Morris, John P Hinde

¹School of Mathematics, Statistics and Applied Mathematics, National University of Ireland, Galway, Ireland. paul.geeleher@nuigalway.ie

Bioinformatics (Oxford, England)

|March 25, 2009

Summary

This summary is machine-generated.

BioconductorBuntu provides a user-friendly, web-based graphical user interface (GUI) for server-side microarray analysis. This custom Ubuntu Linux distribution simplifies the processing of microarray and next-generation sequencing data.

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Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

BioconductorBuntu is a specialized Ubuntu Linux distribution.
It simplifies the setup of a server-side microarray processing environment.

Purpose of the Study:

To provide a user-friendly, web-based GUI for Bioconductor tools.
To facilitate the analysis of microarray and next-generation sequencing data.

Main Methods:

Installation via CD image or Debian package.
Integrates Bioconductor Project tools for microarray analysis.
Supports oligonucleotide, dual- or single-dye experiments, and Gene Set Enrichment Analysis.

Main Results:

Offers a locally or network-accessible GUI for complex analyses.
Designed for extensibility with additional Bioconductor modules.
Provides a straightforward Python-based infrastructure.

Conclusions:

BioconductorBuntu simplifies microarray data processing.
It serves as an ideal environment for developing next-generation sequencing analysis procedures.