Tissue proteomics repositories for data reanalysis Article Swipe
Rafael Stroggilos
,
Aggeliki Tserga
,
Jérôme Zoidakis
,
Antonia Vlahou
,
Manousos Makridakis
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1002/mas.21860
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1002/mas.21860
We are approaching the third decade since the establishment of the very first proteomics repositories back in the mid‐'00s. New experimental approaches and technologies continuously enrich the field while producing vast amounts of mass spectrometry data. Together with initiatives to establish standard terminology and file formats, proteomics is rapidly transforming into a mature component of systems biology. Here we describe the ProteomeXchange consortium repositories. We specifically search, collect and evaluate public human tissue datasets (categorized as “complete” by the repository) submitted in 2015–2022, to both map the existing information and assess the data set reusability. Human tissue data are variably represented in the repositories reviewed, ranging between 10% and 25% of the total data submitted, with cancers being the most represented, followed by neuronal and cardiovascular diseases. About half of the retrieved data sets were found to lack annotations or metadata necessary to directly replicate the analysis. This poses a rough challenge to data reusability and highlights the need to increase awareness of the mage‐tab file format for metadata in the community. Overall, proteomics repositories have evolved greatly over the past 7 years, as they have grown in size and become equipped with various powerful applications and tools that enable data searching and analytical tasks. However, to make the most of this potential, priority must be given to finding ways to secure detailed metadata for each submission, which is likely the next major milestone for proteomics repositories.
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Metadata
- Type
- review
- Language
- en
- Landing Page
- https://doi.org/10.1002/mas.21860
- https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/mas.21860
- OA Status
- hybrid
- Cited By
- 2
- References
- 55
- Related Works
- 10
- OpenAlex ID
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All OpenAlex metadata
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https://openalex.org/W4385514598Canonical identifier for this work in OpenAlex
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https://doi.org/10.1002/mas.21860Digital Object Identifier
- Title
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Tissue proteomics repositories for data reanalysisWork title
- Type
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reviewOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
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2023-08-03Full publication date if available
- Authors
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Rafael Stroggilos, Aggeliki Tserga, Jérôme Zoidakis, Antonia Vlahou, Manousos MakridakisList of authors in order
- Landing page
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https://doi.org/10.1002/mas.21860Publisher landing page
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https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/mas.21860Direct link to full text PDF
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YesWhether a free full text is available
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hybridOpen access status per OpenAlex
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https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/mas.21860Direct OA link when available
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2Total citation count in OpenAlex
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2025: 1, 2024: 1Per-year citation counts (last 5 years)
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10Other works algorithmically related by OpenAlex
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