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https://github.com/Nazeeefa/awesome-data-steward-resources

A list of resources to learn about data stewardship
https://github.com/Nazeeefa/awesome-data-steward-resources

List: awesome-data-steward-resources

bioinformatics data-management data-stewardship fair-principles

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A list of resources to learn about data stewardship

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README 

        
# awesome-data-steward-resources

A list of useful resources, for beginners and experts especially those in the field of bioinformatics, to learn/revise knowledge about data stewardship.



## How to Contribute

Contribute by submitting [pull requests](https://github.com/Nazeeefa/awesome-data-steward-resources/pulls), or posting suggestions as [issues](https://github.com/Nazeeefa/awesome-data-steward-resources/issues). Thank you.



#



## Key



- Videos 🎥 

- GuideLines 🕸

- FAIR Principles 🍀

- Presentation Slides 🖥

- Computational Tools 🛠



## Articles



### FAIR Principles 🍀



- [Ten simple rules for getting and giving credit for data](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1010476)

- [Taking a fresh look at FAIR for research software](https://doi.org/10.1016/j.patter.2021.100222)

- [FAIRness Literacy: The Achilles’ Heel of Applying FAIR Principles](https://datascience.codata.org/articles/10.5334/dsj-2020-032/)

- [The FAIR Guiding Principles for scientific data management and stewardship](https://www.nature.com/articles/sdata201618)



### Data Management/Stewardship ✨



- [Foundational Practices of Research Data Management](https://riojournal.com/article/56508/)

- [Open Data Practices among Users of Primary Biodiversity Data](https://academic.oup.com/bioscience/advance-article/doi/10.1093/biosci/biab072/6348370)

- 💻 [Data Steward Career Survey, ELIXIR Europe](https://drive.google.com/file/d/1vPctZGJHLWZQwdDb47XyS-m6-ZeTx6aq/view?usp=sharing)



### Life Sciences: General Articles 🧬



- [5 rules for good data management in the life sciences](https://www.natureindex.com/news-blog/five-rules-for-good-data-management-in-the-life-sciences) 

- [FAIRly big: A framework for computationally reproducible processing of large-scale data](https://www.biorxiv.org/content/10.1101/2021.10.12.464122v1)

- [Using “Big Data” in the Cost-Effectiveness Analysis of Next-Generation Sequencing Technologies: Challenges and Potential Solutions](https://www.valueinhealthjournal.com/article/S1098-3015(18)32265-4/fulltext) - covers data collection and management challenges

- [Experimenting with reproducibility: a case study of robustness in bioinformatics](https://academic.oup.com/gigascience/article/7/7/giy077/5046609)

- [Comparability and reproducibility of biomedical data ](https://academic.oup.com/bib/article/14/4/391/192999)

- [The role of metadata in reproducible computational research](https://www.cell.com/patterns/pdf/S2666-3899(21)00170-7.pdf) - PDF File

- [Harmonizing semantic annotations for computational models in biology](https://academic.oup.com/bib/article/20/2/540/5164345)



#### Bioinformatics: Domain-Specific



- [Road to FAIR genomes: a gap Analyse of NGS data generation and sharing in the Netherlands](https://pubmed.ncbi.nlm.nih.gov/35505836/)

- [Implementing FAIR data management within the German Network for Bioinformatics Infrastructure](https://academic.oup.com/bib/advance-article/doi/10.1093/bib/bbab010/6135008)

- [Mapping single-cell data to reference atlases by transfer learning](https://www.nature.com/articles/s41587-021-01001-7)

- [Reproducibility standards for machine learning in the life sciences](https://www.nature.com/articles/s41592-021-01256-7)

- [Moving towards reproducible machine learning](https://www.nature.com/articles/s43588-021-00152-6)

- [Community curation of bioinformatics software and data resources](https://academic.oup.com/bib/article/21/5/1697/5560007)



### Miscellaneous



- [A graduate student perspective on overcoming barriers to interacting with open-source software](https://www.facetsjournal.com/doi/10.1139/facets-2019-0020)

- [What senior academics can do to support reproducible and open research: a short, three-step guide](https://psyarxiv.com/jyfr7)



#



### GuideLines 🕸



- [FAIR Cookbook](https://fairplus.github.io/the-fair-cookbook/content/home.html)

- [Top 10 FAIR Data & Software Things](https://librarycarpentry.org/Top-10-FAIR/)

- 🎥 [Developing an ELIXIR Software Management plan for use in Life Science Project](https://elixir-europe.org/events/webinar-software-management-plans)



#



### Computational Tools for FAIR Data 🛠



- [A Python library for probabilistic analysis of single-cell omics data](https://www.nature.com/articles/s41587-021-01206-w)

- [BAMboozle removes genetic variation from human sequence data for open data sharing](https://www.nature.com/articles/s41467-021-26152-8)

- [Tools to measure FAIRness](https://fairassist.org/#!/)

- [liftr - tool to containerize R Markdown documents](https://liftr.me/)

- [METAGENOTE: a simplified web platform for metadata annotation of genomic samples and streamlined submission to NCBI’s sequence read archive](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-03694-0)

- [EMBL-EBI Ontology Xref Service (OxO)](https://www.ebi.ac.uk/spot/oxo/)

- [BioAnnotate](https://github.com/ababaian/BioAnnotate)

- 🖥 [RO-Crate (FAIR Computational Workflows)](https://zenodo.org/record/4011999)

- [MDEmic: a metadata annotation tool to facilitate management of FAIR image data in the bioimaging community](https://www.nature.com/articles/s41592-021-01288-z) 

- [The FAANG Data Portal: Global, Open-Access, "FAIR", and Richly Validated Genotype to Phenotype Data for High-Quality Functional Annotation of Animal Genomes.](https://www.frontiersin.org/articles/10.3389/fgene.2021.639238/full)