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Best Practices to Promote Data Utility and Reuse by the Non-Traditional Model Organism Community

Dunlap, Garrett S and Leigh, Nicholas D LU orcid (2023) In Methods in molecular biology (Clifton, N.J.) 2562. p.461-469
Abstract

The dramatic increase in accessibility to sequencing technologies has opened new avenues into studying different processes, cells, and animal models. In the amphibian models used for regeneration research, these new datasets have uncovered a variety of information about what genes define the regenerating limb as well as how genes and cells change over the course of regeneration. The accumulation of data from these studies undoubtedly increases our understanding of regeneration. Throughout these studies, it is important to consider how data can be made most useful not only for the primary study but also for reuse within the scientific community. This chapter will focus on best practices for data collection and handling as well as... (More)

The dramatic increase in accessibility to sequencing technologies has opened new avenues into studying different processes, cells, and animal models. In the amphibian models used for regeneration research, these new datasets have uncovered a variety of information about what genes define the regenerating limb as well as how genes and cells change over the course of regeneration. The accumulation of data from these studies undoubtedly increases our understanding of regeneration. Throughout these studies, it is important to consider how data can be made most useful not only for the primary study but also for reuse within the scientific community. This chapter will focus on best practices for data collection and handling as well as principles to promote access and reuse of big datasets. However, the deposition and thorough description of data of all sizes generated for a publication (e.g., images, fcs files, etc.) can also be done following this generic workflow. The aim is to lower hurdles for reuse, access, and re-evaluation of data which will in turn increase the utility of these datasets and accelerate scientific progress.

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author
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organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Workflow, Sequence Analysis, Data Collection, Technology
in
Methods in molecular biology (Clifton, N.J.)
volume
2562
pages
9 pages
publisher
Springer
external identifiers
  • pmid:36272094
  • scopus:85140348988
ISSN
1940-6029
DOI
10.1007/978-1-0716-2659-7_30
language
English
LU publication?
yes
additional info
© 2023. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.
id
6f1c12b8-537f-41e8-b1d6-1140c1a7d17f
date added to LUP
2022-10-29 16:08:54
date last changed
2024-02-13 19:42:10
@article{6f1c12b8-537f-41e8-b1d6-1140c1a7d17f,
  abstract     = {{<p>The dramatic increase in accessibility to sequencing technologies has opened new avenues into studying different processes, cells, and animal models. In the amphibian models used for regeneration research, these new datasets have uncovered a variety of information about what genes define the regenerating limb as well as how genes and cells change over the course of regeneration. The accumulation of data from these studies undoubtedly increases our understanding of regeneration. Throughout these studies, it is important to consider how data can be made most useful not only for the primary study but also for reuse within the scientific community. This chapter will focus on best practices for data collection and handling as well as principles to promote access and reuse of big datasets. However, the deposition and thorough description of data of all sizes generated for a publication (e.g., images, fcs files, etc.) can also be done following this generic workflow. The aim is to lower hurdles for reuse, access, and re-evaluation of data which will in turn increase the utility of these datasets and accelerate scientific progress.</p>}},
  author       = {{Dunlap, Garrett S and Leigh, Nicholas D}},
  issn         = {{1940-6029}},
  keywords     = {{Workflow; Sequence Analysis; Data Collection; Technology}},
  language     = {{eng}},
  pages        = {{461--469}},
  publisher    = {{Springer}},
  series       = {{Methods in molecular biology (Clifton, N.J.)}},
  title        = {{Best Practices to Promote Data Utility and Reuse by the Non-Traditional Model Organism Community}},
  url          = {{http://dx.doi.org/10.1007/978-1-0716-2659-7_30}},
  doi          = {{10.1007/978-1-0716-2659-7_30}},
  volume       = {{2562}},
  year         = {{2023}},
}