Proteomics

Dataset Information

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Comprehensive Histone Epigenetics (CHEpi): A mass spectrometry based screening assay to measure epigenetic toxicity


ABSTRACT: Epigenetics have taken center stage in the study of diseases such as cancer, diabetes, and neurodegeneration. For nearly thirty years, it has been known that cancer cells exhibit abnormal DNA methylation patterns. In contrast, the large scale analysis of histone posttranslational modifications (hPTMs) has lagged behind because classically, histone modification analysis has relied on site specific antibody-based techniques. Mass spectrometry (MS) is a technique that holds the promise to picture the histone code comprehensively in a single experiment. Therefore, we developed an MS-based method that is capable of tracking all possible hPTMs in an untargeted approach. In this way, trends in single and combinatorial hPTMs can be reported and enable prediction of the epigenetic toxicity of compounds. Moreover, this method is based on the use of human embryonic stem cells (hESCs), thereby omitting the need to sacrifice laboratory animals. Improving the workflow and the user-friendliness of the assay is an ongoing effort. Still, this novel toxicoepigenetic assay and the data it generates holds great potential for, among others, pharmaceutical industry, food science, clinical diagnostics and, environmental toxicity screening.

INSTRUMENT(S): TripleTOF 5600

ORGANISM(S): Homo Sapiens (human) Bos Taurus (bovine)

TISSUE(S): Embryonic Stem Cell Line, Cell Culture, Embryonic Stem Cell

SUBMITTER: Maarten Dhaenens  

LAB HEAD: Maarten Dhaenens

PROVIDER: PXD019652 | Pride | 2020-10-12

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
200331_VPA.fasta Fasta
F005370.mgf Mgf
F005370_VPA_ErrT.dat Other
F005370_VPA_ErrT.mzid.gz Mzid
F005375.mgf Mgf
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Publications

Comprehensive histone epigenetics: A mass spectrometry based screening assay to measure epigenetic toxicity.

Verhelst Sigrid S   De Clerck Laura L   Willems Sander S   Van Puyvelde Bart B   Daled Simon S   Deforce Dieter D   Dhaenens Maarten M  

MethodsX 20200905


Evidence of the involvement of epigenetics in pathologies such as cancer, diabetes, and neurodegeneration has increased global interest in epigenetic modifications. For nearly thirty years, it has been known that cancer cells exhibit abnormal DNA methylation patterns. In contrast, the large-scale analysis of histone post-translational modifications (hPTMs) has lagged behind because classically, histone modification analysis has relied on site specific antibody-based techniques. Mass spectrometry  ...[more]

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