Related Experiment Video
Updated: Apr 23, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
Published on: July 12, 2022
ProfileGrids: a sequence alignment visualization paradigm that avoids the limitations of Sequence Logos
1ProfileGrid.org, P.O. Box 6414, Irvine, California 92616, USA.
Background:
The 2013 BioVis Contest provided an opportunity to evaluate different paradigms for visualizing protein multiple sequence alignments. Such data sets are becoming extremely large and thus taxing current visualization paradigms. Sequence Logos represent consensus sequences but have limitations for protein alignments. As an alternative, ProfileGrids are a new protein sequence alignment visualization paradigm that represents an alignment as a color-coded matrix of the residue frequency occurring at every homologous position in the aligned protein family.
Results:
The JProfileGrid software program was used to analyze the BioVis contest data sets to generate figures for comparison with the Sequence Logo reference images.
Conclusions:
The ProfileGrid representation allows for the clear and effective analysis of protein multiple sequence alignments. This includes both a general overview of the conservation and diversity sequence patterns as well as the interactive ability to query the details of the protein residue distributions in the alignment. The JProfileGrid software is free and available from http://www.ProfileGrid.org.
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