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Sharing: Collaborating & Publishing

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Outline

  • What is sharing?

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  • Collaboration
    • Project Organization
    • Data and document sharing
    • Collaborative writing

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  • Publishing
    • Preprints
    • Protocols and reagents
    • Data

https://www.refresco.org/publications/data-sharing/

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What does sharing mean to you?

Discussion

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Sharing

  • For colleagues

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  • Access control

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  • Sensitive data*
  • For the public

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  • Publicly available

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  • No sensitive data

Publishing

Collaboration

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How do you share files with collaborators?

Discussion

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Considerations for collaboration

  • Standardization - choose a strategy and document it

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  • Access - can all my collaborators get to our files?

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  • Security - is the platform secure enough for out research?

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  • Capacity - Can I fit everything ?

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  • Cost- can i afford it?

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Standardization

  • Document your organizational strategies
  • Organize your files into folders
  • Use descriptive file names
  • Be consistent!
  • Use similar strategies across projects and files

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Crafternoon by Stephen Kennedy

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Collaboration platforms available at UW-Madison

https://researchdata.wisc.edu/data-storage-backup/

  • LabArchives, Box, GoogleDrive, OneDrive, Research Drive

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  • Free to UW-Madison faculty/staff/students*

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  • NetID login

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  • Cross-platform

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Collaboration platforms available at UW-Madison

Platform

Location

Login

Sensitive data

ResearchDrive

Local

VPN

Yes*

LabArchives

Cloud

anywhere

Soon?

Box

Cloud

anywhere

Yes*

GoogleDrive

Cloud

anywhere

NO

OneDrive

Cloud

anywhere

NO

https://researchdata.wisc.edu/data-storage-backup/

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ResearchDrive

  • Securely store, encrypt and backup research data locally
  • Easy to share with anyone on campus*
  • Cross-platform - access from anywhere with VPN
  • PI requests storage allocation
    • 5TB per PI at no cost
    • $200/TB/year for additional storage and off-site data protection
  • Will support restricted data like HIPAA and CUI in early 2020

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https://it.wisc.edu/services/researchdrive

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Collaborative writing

  • GoogleDrive, Office365, Box support real-time coauthoring

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  • What about citation management?

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  • Options:
    • Google drive + Zotero
    • Mendeley Office365
    • EndNote Office365

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Google Drive + Zotero

Demo

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Publishing research outputs

  • Manuscripts: Journals and Preprint publishing

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  • Data: repositories

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  • Protocols: Protocols.io

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  • Reagents: RRID portal

From: https://hugeorange.com/self-publishing-vs-traditional-publishing/

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Publishing manuscripts

  • Most common way to share research findings

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  • Gets you academic “credit”
    • Tenure, promotion, graduation

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  • Can take a LONG time

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  • Journal restrictions
    • Short methods sections
    • Data sharing policies

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  • May not tell the whole story

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Preprint publishing

Sharing a draft of your manuscript publicly on a preprint server

Examples:

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Preprint publishing

Pros:

  • Distribute your work quickly, fewer limitations
  • Feedback before formal peer review
  • Ensures open access

Cons:

  • Not common in all fields
  • May exclude publication in some journals
  • Could get “scooped”

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Sharing Protocols

  • Free for public protocols
  • Collaborate with lab
  • Create your own protocols
    • Guidelines and warnings
    • Materials - searchable
    • Steps
    • Versioning
  • Copy and modify any protocol
    • “fork”

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protocols.io

Demo

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Sharing reagents

  • RRID portal :Aggregates unique identifiers for reagents into one place

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  • Cell lines, antibodies, plasmids, databases etc.

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  • Let colleagues know EXACTLY what you used
  • Contribute to source databases: https://scicrunch.org/resources/about/resource

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RRID portal

Demo

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Publishing data

  • making your data available so that they can be accessed and used - by yourself or by others - in the future

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  • FAIR principles

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FAIR principles

  • Findable: How will users know it exists?
  • Accessible: How will users get the data?
  • Interoperable: Can it be combined with similar datasets for meta-analyses?
  • Reusable: Can users use it for new purposes?

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Data Repositories provide

  • A place to put (meta)data

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  • Unique IDs for each dataset

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  • A search interface

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  • Metadata requirements

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Types of Repositories

  • Discipline specific

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  • General purpose

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  • Institutional
    • MINDS@UW - COMING SOON

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How to pick a repository

  • Findability: is there a discipline-specific repository that people in your field look for data? If not, is the repository searchable and provides unique identifiers?
  • Accessibility: does the repository allow open access to data? If not, what restrictions are there?
  • Interoperability: Does the repository use discipline specific (meta)data standards?
  • Reusability: does the repository offer reuse licenses for deposited data?

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Where would you publish your data?

Discussion

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Summary

  • Sharing = collaboration + publishing
  • UW-Madison provides collaboration tools
  • Citation managers integrate with these tools
  • Manuscripts aren’t the only way to publish research outputs
    • Preprints
    • Protocols and reagents
    • Data
  • Sharing these resources will help make your research more reproducible