SciCrunch

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SciCrunch is a collaboratively edited knowledge base about scientific resources. It is a community portal for researchers and a content management system for data and databases. It is intended to provide a common source of data to the research community and the data about Research Resource Identifiers (RRIDs), which can be used in scientific publications. In some respect, it is for science and scholarly publishing, similar to what Wikidata is for Wikimedia Foundation projects. Hosted by the University of California, San Diego, SciCrunch was also designed to help communities of researchers create their own portals to provide access to resources, databases and tools of relevance to their research areas [1]

Research Resource Identifiers[edit]

Research Resource Identifiers (RRID) are supposed to be resource identifiers which are globally unique and persistent.[2] They were introduced and are promoted by the Resource Identification Initiative.[2] Resources in this context are research resources like reagents, tools or materials.[2][3] An example for such a resource would be a cell line used in an experiment or software tool used in a computational analysis. The Resource Identification Portal (https://scicrunch.org/resources) was created in support of this initiative and is a central service where these identifiers can be searched and created.[2][4] These identifiers should be fully searchable by data mining unlike supplementary files, and can be updated to new versions as basic methodology changes over time.

Format for RRID citations[edit]

The recommendation for citing research resources is shown below for key biological resources:

  • Antibody: Millipore Cat# MAB377 (Lot) RRID:AB_2298772
  • Model organism: NXR Cat# 1.0049, RRID:NXR_1.0049
  • Cell line: Coriell Cat# GM03745, RRID:CVCL_1H60
  • Tools: CellProfiler Image Analysis Software, (version or date) RRID:SCR_007358

The Resource Identification Portal lists existing RRIDs and instructions for creating a new one if an RRID matching the resource does not already exist.

Institutions and publishers recommending use of RRIDs[edit]

A number of publishing houses, initiatives and research institutions encourage using SciCrunch‘s RRIDs: Common Citation Format Article in Nature,[5] Cell Press,[6] eLIFE,[7] FORCE11,[8] Frontiers Media,[9] GigaScience,[10] MIRIAM Registry,[11] NIH,[12] PLOS Biology and PLOS Genetics.[13]

See also[edit]


References[edit]

  1. ^ Jeffrey, Grethe; Anita, Bandrowski; Davis, Banks; Christopher, Condit; Amarnath, Gupta; Stephen, Larson; Yueling, Li; Ibrahim, Ozyurt; Andrea, Stagg; Patricia, Whetzel; Luis, Marenco; Perry, Miller; Rixin, Wang; Gordon, Shepherd; Maryann, Martone (2014). "SciCrunch: A cooperative and collaborative data and resource discovery platform for scientific communities". Frontiers in Neuroinformatics. 8. doi:10.3389/conf.fninf.2014.18.00069.
  2. ^ a b c d Bandrowski, Anita; Brush, Matthew; Grethe, Jeffery S.; Haendel, Melissa A.; Kennedy, David N.; Hill, Sean; Hof, Patrick R.; Martone, Maryann E.; Pols, Maaike; Tan, Serena; Washington, Nicole; Zudilova-Seinstra, Elena; Vasilevsky, Nicole; additional authors are the members of the Resource Identification Initiative (https://www.force11.org/node/4463/members) (19 November 2015). "The Resource Identification Initiative: A cultural shift in publishing". F1000Research. 2. 4 (134): 134. doi:10.12688/f1000research.6555.2. PMC 4648211. PMID 26594330.
  3. ^ "What is a Resource?". scicrunch.org. SciCrunch. Retrieved 7 January 2018.
  4. ^ "Resource Identification Portal". scicrunch.org. SciCrunch. Retrieved 7 January 2018.
  5. ^ Singh Chawla, Dalmeet (2015). "Researchers argue for common format". Nature. doi:10.1038/nature.2015.17652. S2CID 211730637.
  6. ^ "Cell Press: Neuron". www.cell.com.
  7. ^ "eLife joins the Resource Identification Initiative". 2016-07-07.
  8. ^ "Resource Identification Initiative". FORCE11. 2013-08-14. Retrieved 18 April 2016. CS1 maint: discouraged parameter (link)
  9. ^ "Frontiers Author Guidelines". Frontiers. Retrieved 19 April 2016. CS1 maint: discouraged parameter (link)
  10. ^ "Technical Note | GigaScience | Oxford Academic". academic.oup.com. Retrieved 2019-07-15.
  11. ^ "identifiers.org". Data collection: RRID. Retrieved 18 April 2016. CS1 maint: discouraged parameter (link)
  12. ^ "NIDA supports SciCrunch and RRIDs in making research resources visible in science". FORCE11. 2016-03-07. Retrieved 18 April 2016. CS1 maint: discouraged parameter (link)
  13. ^ "Introducing the Research Resource Identification Initiative at PLOS Biology & PLOS Genetics". PLOS Biologue. 2015-01-29. Retrieved 18 April 2016. CS1 maint: discouraged parameter (link)

External links[edit]