Monthly Archives: January 2018

Planet Microbe Townhall at 2018 Ocean Sciences

February 14, 2018, 6:30-7:30 pm, room D137-138 at the Convention Center in Portland, Oregon.

Planet Microbe, a 2017 NSF EarthCube Building Block award, aims to reunite diverse oceanographic and geobiology data types through a federated search platform that adaptively connects data repositories in ways that will enable data discovery and open data sharing for historical and on-going research efforts.

A short presentation (~30min) will start the town hall:
  1. Introduction to the project’s three-phased data integration plan,
  2. Some specifics on how Planet Microbe is linking up with BCO-DMO (Phase I)
  3. Demonstration of the current data discovery capabilities, and
  4. Ideas for community engagement – how you can get involved.

The reminder of the time will be open for questions and sharing of ideas with OSM’s microbial ecology community. We value your contributions! How we can help make ‘omics data do more for our field?

Planet Microbe arose from a community identified need for data discovery during discussions around science/cyberinfrastructure challenges. More information can be found at and our recent article at Ocean and Carbon Biogeochemistry.

Planet Microbe is about data integration

Two major issues in our field are data discovery and data integration, so Bonnie and I (Elisha) wanted to explore how Planet Microbe might help. We had a recent brainstorming event in Bonnie’s office at the University of Arizona about how Planet Microbe fits into the bigger picture of her research world (see chalkboard brainstorm below). We decided that….

Planet Microbe is about data integration.

It is NOT about building another sequencing platform or data repository. Those already exist (e.g., iMicrobe, IMG, MG-RAST, BCO-DMO, R2R, etc), but the data they contain aren’t easily discoverable across platforms.

Planet Microbe is about working to improve data integration for existing resources, and doing it in a way that enables data discovery, data exploration, and best practices for reproducible and open data sharing. By using her existing iMicrobe platform to connect sequence data sets with associated contextual data at BCO-DMO (for example), we can expand iMicrobe’s search parameters to discover data based on parameters specified in either repository.

In addition, iMicrobe will soon allow you to create a novel, user-generated data sets from disparate data repositories through the Ocean Cloud Commons (OCC). The OCC allows for remote data sets to be accessed and analysed through iMicrobe’s connection with CyVerse and the Texas Advanced Computing Center (TACC), without the time and expense of massive data transfers, local storage, and personal compute resources!

Planet Microbe is NOT about re-inventing, but it is about reconnecting you with data sets and resources.

Brainstorming data integration to kick off Planet Microbe