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Genome Annotation and Assembly

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.

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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Updated: Jun 19, 2026

RNA-Seq Analysis of Differential Gene Expression in Electroporated Chick Embryonic Spinal Cord

RNA-Seq Analysis of Differential Gene Expression in Electroporated Chick Embryonic Spinal Cord

Published on: November 1, 2014

Facilitating functional annotation of chicken microarray data.

Teresia J Buza¹, Ranjit Kumar, Cathy R Gresham

¹Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, Mississippi State, MS 39762, USA. tbuza@cvm.msstate.edu

BMC Bioinformatics

|October 9, 2009

Summary

This summary is machine-generated.

This study enhances functional annotations for chicken genome microarrays, improving data quality and accessibility. A new tool, Array GO Mapper (AGOM), aids researchers in analyzing microarray datasets for biological insights and potential drug discovery.

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Fluorescence-microscopy Screening and Next-generation Sequencing: Useful Tools for the Identification of Genes Involved in Organelle Integrity

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Published on: April 13, 2012

Area of Science:

Genomics
Bioinformatics
Functional genomics

Background:

Chicken microarray studies face challenges due to limited functional gene annotation.
Existing Affymetrix chicken genome array annotations are incomplete and lack direct retrieval tools.
Researchers spend significant time manually searching multiple databases for functional information.

Purpose of the Study:

To improve the functional annotation of the Affymetrix chicken genome array.
To develop a tool for efficient retrieval of functional annotations from microarray datasets.
To identify key biological insights, including diseases, gene types, and drug targets.

Main Methods:

Enhanced functional annotation of gene products on the Affymetrix chicken genome array.
Development of the Array GO Mapper (AGOM) tool for data retrieval.
Analysis of identified diseases, gene types, and drug targets.

Main Results:

Achieved a 45% increase in annotation breadth and a 14% improvement in annotation quality.
Identified significant diseases, disorders, gene types, and drug targets within the array data.
Developed the AGOM tool to facilitate rapid functional annotation of microarray datasets.

Conclusions:

The study enhances chicken microarray data analysis and facilitates annotation of other arrays.
The AGOM tool enables researchers to model datasets into reliable biological information.
Findings on diseases, genes, and drug targets may advance drug discovery and therapeutic development.