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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.

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Updated: May 30, 2026

RNA Secondary Structure Prediction Using High-throughput SHAPE

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Simple high-throughput annotation pipeline (SHAP).

Matthew Z DeMaere¹, Federico M Lauro, Torsten Thomas

¹School of Biotechnology and Biomolecular Sciences, The University of New South Wales, Sydney, NSW 2052, Australia. matt.demaere@unsw.edu.au

Bioinformatics (Oxford, England)

|July 22, 2011

Summary

This summary is machine-generated.

SHAP, a simple high-throughput annotation pipeline, offers a lightweight and scalable solution for DNA sequence data analysis. This Java-based software supports research groups with limited resources, providing efficient annotation and data management.

Related Experiment Videos

Last Updated: May 30, 2026

RNA Secondary Structure Prediction Using High-throughput SHAPE

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Area of Science:

Bioinformatics
Genomics
Computational Biology

Background:

Large volumes of DNA sequence data present annotation challenges.
Research groups often have limited computational resources.

Purpose of the Study:

To introduce SHAP (simple high-throughput annotation pipeline), a new software tool.
To provide a scalable and resource-efficient solution for DNA sequence annotation.

Main Methods:

SHAP is implemented in Java.
The pipeline supports Grid-enabled analysis.
It features relational data storage and web-based search capabilities.

Main Results:

SHAP is lightweight and scalable for high-throughput annotation.
The software is designed to accommodate the resource constraints of smaller research groups.
It facilitates efficient management and retrieval of DNA sequence annotation data.

Conclusions:

SHAP is a valuable tool for researchers working with large DNA sequence datasets.
Its design addresses the need for accessible and efficient bioinformatics solutions.
The software supports diverse research efforts in genomics and related fields.