A proteomics sample metadata representation for multiomics integration and big data analysis
The amount of public proteomics data is rapidly increasing but there is no standardized format to describe the sample metadata and their relationship with the dataset files in a way that fully supports their understanding or reanalysis. Here we propose to develop the transcriptomics data format MAGE...
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| creator | Dai, Chengxin Füllgrabe, Anja Pfeuffer, Julianus Solovyeva, Elizaveta M Deng, Jingwen Moreno, Pablo Kamatchinathan, Selvakumar Kundu, Deepti Jaiswal George, Nancy Fexova, Silvie Grüning, Björn A Föll, Melanie Christine Griss, Johannes Vaudel, Marc Audain, Enrique Locard-Paulet, Marie Turewicz, Michael Eisenacher, Martin Uszkoreit, Julian Van Den Bossche, Tim Schwämmle, Veit Webel, Henry Schulze, Stefan Bouyssié, David Jayaram, Savita Duggineni, Vinay Kumar Samaras, Patroklos Wilhelm, Mathias Choi, Meena Wang, Mingxun Kohlbacher, Oliver Brazma, Alvis Papatheodorou, Irene Bandeira, Nuno Deutsch, Eric W Vizcaíno, Juan Antonio Bai, Mingze Sachsenberg, Timo Levitsky, Lev I Perez-Riverol, Yasset |
| description | The amount of public proteomics data is rapidly increasing but there is no standardized format to describe the sample metadata and their relationship with the dataset files in a way that fully supports their understanding or reanalysis. Here we propose to develop the transcriptomics data format MAGE-TAB into a standard representation for proteomics sample metadata. We implement MAGE-TAB-Proteomics in a crowdsourcing project to manually curate over 200 public datasets. We also describe tools and libraries to validate and submit sample metadata-related information to the PRIDE repository. We expect that these developments will improve the reproducibility and facilitate the reanalysis and integration of public proteomics datasets. |
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Here we propose to develop the transcriptomics data format MAGE-TAB into a standard representation for proteomics sample metadata. We implement MAGE-TAB-Proteomics in a crowdsourcing project to manually curate over 200 public datasets. We also describe tools and libraries to validate and submit sample metadata-related information to the PRIDE repository. 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Here we propose to develop the transcriptomics data format MAGE-TAB into a standard representation for proteomics sample metadata. We implement MAGE-TAB-Proteomics in a crowdsourcing project to manually curate over 200 public datasets. We also describe tools and libraries to validate and submit sample metadata-related information to the PRIDE repository. 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Here we propose to develop the transcriptomics data format MAGE-TAB into a standard representation for proteomics sample metadata. We implement MAGE-TAB-Proteomics in a crowdsourcing project to manually curate over 200 public datasets. We also describe tools and libraries to validate and submit sample metadata-related information to the PRIDE repository. We expect that these developments will improve the reproducibility and facilitate the reanalysis and integration of public proteomics datasets.</abstract><pub>Nature</pub><oa>free_for_read</oa></addata></record> |
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| title | A proteomics sample metadata representation for multiomics integration and big data analysis |
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