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Updated: Jun 10, 2025

Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues

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Sequence Flow: interactive web application for visualizing partial order alignments.

Krzysztof Zdąbłasz¹, Anna Lisiecka¹, Norbert Dojer²

¹Institute of Informatics, University of Warsaw, Banacha 2, Warszawa, 02-097, Poland.

|October 16, 2024

Summary

This summary is machine-generated.

Sequence Flow visualizes partial order alignments (POA) using interactive Sankey diagrams, addressing a gap in bioinformatics tools. This web application enhances exploration and analysis of complex sequence data.

Keywords:

Multiple sequence alignment Partial order alignment Sankey diagram Webserver

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Published on: July 16, 2017

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

Multiple sequence alignment (MSA) is crucial for evolutionary and functional insights.
Partial order alignment (POA) offers an alternative graph-based model for sequence data.
Existing visualization tools for POA are limited, hindering its broader application.

Purpose of the Study:

To develop efficient visualization tools for partial order alignments.
To highlight the advantages of the POA model through interactive exploration.
To provide accessible web-based and developer-focused solutions for POA visualization.

Main Methods:

Developed Sequence Flow, a web application for POA visualization.
Implemented POA visualization using Sankey diagrams via the SanKEY.js library.
Enabled interactive features like fragment selection and node modification for alignment exploration.

Main Results:

Sequence Flow presents POAs as interactive Sankey diagrams.
The tool allows users to explore, modify, and save visualizations of large alignments.
Satisfactory performance achieved even for extensive datasets.

Conclusions:

Introduced Sequence Flow and SanKEY.js as Sankey diagram-based POA visualization tools.
Provided end-user and developer resources for enhanced POA analysis.
Made Sequence Flow web service and SanKEY.js source code publicly available.