Related Experiment Video
Updated: May 16, 2026

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
DOOSS: a tool for visual analysis of data overlaid on secondary structures
Michael Golden1, Darren Martin
1Computational Biology Group, Institute of Infectious Diseases and Molecular Medicine, University of Cape Town, Cape Town 4579, South Africa. michaelgolden0@gmail.com
Data Overlaid On Secondary Structures (DOOSS) visualizes nucleotide sequences, aiding researchers in assessing biological relevance of secondary structures in viral genomes. This Java tool enhances sequence analysis for biological insights.
Area of Science:
- Bioinformatics
- Computational Biology
- Molecular Biology
Background:
- Large single-stranded nucleotide sequences, such as full-length virus genomes, possess complex secondary structures.
- Understanding these structures is crucial for deciphering biological functions and mechanisms.
Purpose of the Study:
- To introduce DOOSS (Data Overlaid On Secondary Structures), a novel visualization tool.
- To facilitate the evaluation of biological relevance of secondary structures within nucleotide sequences.
Main Methods:
- DOOSS is implemented using Java.
- The tool provides visualization of annotated secondary structures.
- It is designed for handling large nucleotide sequences.
Main Results:
- DOOSS enables researchers to overlay data onto secondary structure representations.
- Facilitates detailed examination of sequence-structure relationships.
Conclusions:
- DOOSS serves as a valuable resource for investigators studying viral genomes and other large nucleotide sequences.
- Enhances the biological interpretation of secondary structure data.
Related Concept Videos
X-ray Diffraction of Biological Samples
According to Bragg's law, when X-rays strike the sample positioned on a stage, the rays are scattered by the electron clouds around the sample atoms. The X-ray diffraction or scattering is caused by constructive interference of the X-ray waves that reflect off the internal crystal...
Newman Projections
The organic molecules rotate across the single bonds leading to numerous temporary three-dimensional structures of varying energy known as conformers.
Protein Organization
The primary structure of a protein is its amino acid sequence.
Protein and Protein Structures
A protein's shape is critical to its function. For example, an enzyme can...
Nucleic Acid Structure
DNA Structure
DNA has a double-helix structure. The...
Molecular Models