Data descriptor: Transcriptome and protein interaction profiling in cancer cells with mutations in histone H3.3

Jinyeong Lim, Joo Hyun Park, Annika Baude, Jörg Fellenberg, Jozef Zustin, Florian Haller, Irene Krücken, Hyun Guy Kang, Yoon Jung Park, Christoph Plass, Anders M. Lindroth

Research output: Contribution to journalArticlepeer-review

3 Scopus citations


Mutations of histone variant H3.3 are highly recurrent in childhood glioblastoma and in young adults with Giant Cell Tumor of the Bone (GCTB). The heterozygotic representation of the mutations in the tumors, and with potential histone H3 and H3.3 redundancy, suggest that the mutations are gain-of-function by nature. To address common H3.3 point mutations, we have generated data from GCTB patient samples with H3.3 G34W substitutions and engineered human GFP-tagged H3.3-mutated isogenic cell lines for high throughput data comparisons. First, a total of thirty-six patient samples and cell lines were used to acquire gene expression transcriptome data using microarray and RNA-sequencing. The expression data were validated with the orthogonal nCounter assay. Second, to uncover the H3.3-GFP interaction proteomes from the isogenic cell lines, immunoprecipitation of unmutated wild type, K27M, G34R, and G34W substitutions were performed. The RNA-sequencing data and the H3.3 interaction proteome enable potentially important functional insight into the tumorigenic process and should spur further detailed analysis.

Original languageEnglish
Article number180283
JournalScientific Data
StatePublished - 2018

Bibliographical note

Funding Information:
This work was supported to AML by grants from the Rep. of Korea provided by the National Cancer Center (NCC: 1510260-1 and 1810050-1) and the National Research Foundation of Korea (NRF-2014R1A1A2058964), and to YJP from the National Research Foundation of Korea (2018R1D1A1B07051274).

Publisher Copyright:
© The Author(s) 2018.


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