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An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia

Lien Provez, Bart Van Puyvelde (UGent) , Laura Corveleyn (UGent) , Nina Demeulemeester, Sigrid Verhelst (UGent) , Beatrice Lintermans, Simon Daled (UGent) , Juliette Roels (UGent) , Lieven Clement (UGent) , Lennart Martens (UGent) , et al.
(2022) SCIENTIFIC DATA. 9(1).
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Abstract
The holistic nature of omics studies makes them ideally suited to generate hypotheses on health and disease. Sequencing-based genomics and mass spectrometry (MS)-based proteomics are linked through epigenetic regulation mechanisms. However, epigenomics is currently mainly focused on DNA methylation status using sequencing technologies, while studying histone posttranslational modifications (hPTMs) using MS is lagging, partly because reuse of raw data is impractical. Yet, targeting hPTMs using epidrugs is an established promising research avenue in cancer treatment. Therefore, we here present the most comprehensive MS-based preprocessed hPTM atlas to date, including 21 T-cell acute lymphoblastic leukemia (T-ALL) cell lines. We present the data in an intuitive and browsable single licensed Progenesis QIP project and provide all essential quality metrics, allowing users to assess the quality of the data, edit individual peptides, try novel annotation algorithms and export both peptide and protein data for downstream analyses, exemplified by the PeptidoformViz tool. This data resource sets the stage for generalizing MS-based histone analysis and provides the first reusable histone dataset for epidrug development.
Keywords
EZH2

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MLA
Provez, Lien, et al. “An Interactive Mass Spectrometry Atlas of Histone Posttranslational Modifications in T-Cell Acute Leukemia.” SCIENTIFIC DATA, vol. 9, no. 1, Nature Portfolio, 2022, doi:10.1038/s41597-022-01736-1.
APA
Provez, L., Van Puyvelde, B., Corveleyn, L., Demeulemeester, N., Verhelst, S., Lintermans, B., … Dhaenens, M. (2022). An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia. SCIENTIFIC DATA, 9(1). https://doi.org/10.1038/s41597-022-01736-1
Chicago author-date
Provez, Lien, Bart Van Puyvelde, Laura Corveleyn, Nina Demeulemeester, Sigrid Verhelst, Beatrice Lintermans, Simon Daled, et al. 2022. “An Interactive Mass Spectrometry Atlas of Histone Posttranslational Modifications in T-Cell Acute Leukemia.” SCIENTIFIC DATA 9 (1). https://doi.org/10.1038/s41597-022-01736-1.
Chicago author-date (all authors)
Provez, Lien, Bart Van Puyvelde, Laura Corveleyn, Nina Demeulemeester, Sigrid Verhelst, Beatrice Lintermans, Simon Daled, Juliette Roels, Lieven Clement, Lennart Martens, Dieter Deforce, Pieter Van Vlierberghe, and Maarten Dhaenens. 2022. “An Interactive Mass Spectrometry Atlas of Histone Posttranslational Modifications in T-Cell Acute Leukemia.” SCIENTIFIC DATA 9 (1). doi:10.1038/s41597-022-01736-1.
Vancouver
1.
Provez L, Van Puyvelde B, Corveleyn L, Demeulemeester N, Verhelst S, Lintermans B, et al. An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia. SCIENTIFIC DATA. 2022;9(1).
IEEE
[1]
L. Provez et al., “An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia,” SCIENTIFIC DATA, vol. 9, no. 1, 2022.
@article{01GJYQT88VYKVFVPNX5AJEJ6AP,
  abstract     = {{The holistic nature of omics studies makes them ideally suited to generate hypotheses on health and disease. Sequencing-based genomics and mass spectrometry (MS)-based proteomics are linked through epigenetic regulation mechanisms. However, epigenomics is currently mainly focused on DNA methylation status using sequencing technologies, while studying histone posttranslational modifications (hPTMs) using MS is lagging, partly because reuse of raw data is impractical. Yet, targeting hPTMs using epidrugs is an established promising research avenue in cancer treatment. Therefore, we here present the most comprehensive MS-based preprocessed hPTM atlas to date, including 21 T-cell acute lymphoblastic leukemia (T-ALL) cell lines. We present the data in an intuitive and browsable single licensed Progenesis QIP project and provide all essential quality metrics, allowing users to assess the quality of the data, edit individual peptides, try novel annotation algorithms and export both peptide and protein data for downstream analyses, exemplified by the PeptidoformViz tool. This data resource sets the stage for generalizing MS-based histone analysis and provides the first reusable histone dataset for epidrug development.}},
  articleno    = {{626}},
  author       = {{Provez, Lien and Van Puyvelde, Bart and Corveleyn, Laura and Demeulemeester, Nina and Verhelst, Sigrid and Lintermans, Beatrice and Daled, Simon and Roels, Juliette and Clement, Lieven and Martens, Lennart and Deforce, Dieter and Van Vlierberghe, Pieter and Dhaenens, Maarten}},
  issn         = {{2052-4463}},
  journal      = {{SCIENTIFIC DATA}},
  keywords     = {{EZH2}},
  language     = {{eng}},
  number       = {{1}},
  pages        = {{15}},
  publisher    = {{Nature Portfolio}},
  title        = {{An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia}},
  url          = {{http://doi.org/10.1038/s41597-022-01736-1}},
  volume       = {{9}},
  year         = {{2022}},
}
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