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bioRxiv · 10.1101/632018

Regeneration Rosetta: An interactive web application to explore regeneration-associated gene expression and chromatin accessibility

Rau, A.·Dhara, S.·Udvadia, A.·Auer, P.
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Abstract

Time-course high-throughput assays of gene expression and enhancer usage in zebrafish provide a valuable characterization of the dynamic mechanisms governing gene regulatory programs during CNS axon regeneration. To facilitate the exploration and functional interpretation of a set of fully-processed data on regeneration-associated temporal transcription networks, we have created an interactive web application called Regeneration Rosetta. Using either built-in or user-provided lists of genes in one of dozens of supported organisms, our web application facilitates the (1) visualization of clustered temporal expression trends; (2) identification of proximal and distal regions of accessible chromatin to expedite downstream motif analysis; and (3) description of enriched functional gene ontology categories. By enabling a straightforward interrogation of these rich data without extensive bioinformatic expertise, Regeneration Rosetta is broadly useful for both a deep investigation of time-dependent regulation during regeneration in zebrafish and hypothesis generation in other organisms.

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Rau, A., Dhara, S., Udvadia, A., Auer, P.. 2019-05-08. Regeneration Rosetta: An interactive web application to explore regeneration-associated gene expression and chromatin accessibility. https://doi.org/10.1101/632018

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