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SeaBase: a multispecies transcriptomic resource and platform for gene network inference.

Antje H L Fischer1, Dmitry Mozzherin2, A Murat Eren2

  • 1*Marine Biological Laboratory, Woods Hole, MA 02543, USA; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA; Systems & Control Engineering, University of Magna Graecia, 88100 Catanzaro, Italy*Marine Biological Laboratory, Woods Hole, MA 02543, USA; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA; Systems & Control Engineering, University of Magna Graecia, 88100 Catanzaro, Italy jcsmith@mbl.edu.

Integrative and Comparative Biology
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Summary
This summary is machine-generated.

SeaBase is a new platform for sharing and searching marine transcriptome data. This tool supports gene network inference, aiding research in diverse aquatic model organisms.

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Area of Science:

  • Marine biology
  • Genomics
  • Bioinformatics

Background:

  • Marine and aquatic animals offer valuable insights into development, evolution, regeneration, cancer resistance, longevity, and symbiosis.
  • Genomics and transcriptomics are crucial for studying these diverse organisms but present challenges in new model systems.

Purpose of the Study:

  • To introduce SeaBase, a novel platform designed to facilitate the sharing and searching of transcriptome data for marine and aquatic model organisms.
  • To support the inference of gene network mechanisms and expand the utility of these organisms in research.

Main Methods:

  • Development of SeaBase as a centralized platform for transcriptome data.
  • Inclusion of initial datasets, such as the developmental transcriptomic profile of *Nematostella vectensis*.
  • Planning for expansion to include user-supplied data for a wider range of aquatic species.

Main Results:

  • SeaBase provides a functional platform for accessing and analyzing transcriptome data.
  • The platform currently hosts data for *Nematostella vectensis*, with plans for broader species coverage.
  • SeaBase is designed to support advanced tools for gene network analysis.

Conclusions:

  • SeaBase addresses the need for accessible genomics data in marine model systems.
  • The platform aims to foster new discoveries by supporting a growing number of aquatic research models.
  • SeaBase is poised to become a valuable resource for the marine genomics community.