PXD041343-1

PXD041343 is an original dataset announced via ProteomeXchange.

Title	Targeted Profiling of Epitranscriptomic Reader, Writer and Eraser Proteins Regulated by H3K36me3
Description	Trimethylation of lysine 36 on histone H3 (H3K36me3), an epigenetic mark associated with actively transcribed genes, plays an important role in multiple cellular processes, including transcription elongation, DNA methylation, DNA repair, and RNA m6A methylation, etc. Aberrant expression and mutations of the main methyltransferase for H3K36me3, i.e., SET domain-containing 2 (SETD2), were shown to be associated with various cancers. Here, we performed targeted profiling of 154 epitranscriptomic RWE proteins using a scheduled liquid chromatography-parallel-reaction monitoring (LC-PRM) method coupled with the use of stable isotope-labeled (SIL) peptides as internal standards to investigate how H3K36me3 modulates the chromatin occupancies of epitranscriptomic reader, writer, and eraser (RWE) proteins. Our results showed consistent changes in chromatin occupancies of RWE proteins upon losses of H3K36me3 and H4K16ac, and a role of H3K36me3 in recruiting METTL3 to chromatin upon DNA double strand break induction. In addition, protein-protein interaction network and Kaplan-Meier survival analyses revealed the importance of METTL14 and TRMT11 in kidney cancer. Taken together, our work revealed cross-talks between H3K36me3 and epitranscriptomic RWE proteins and uncovered potential roles of these RWE proteins in H3K36me3-mediated biological processes.
HostingRepository	PRIDE
AnnounceDate	2023-05-25
AnnouncementXML	Submission_2023-05-25_14:38:41.923.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	JiekaiYin
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2023-04-05 00:24:26	ID requested
⏵ 1	2023-05-25 14:38:42	announced
2	2024-10-22 05:45:56	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: RNA modification, H3K36me3,Cultured human cells, LC-MS/MS

Dr.YinshengWang
contact affiliation	Environmental Toxicology Graduate Program and Department of Chemistry, University of California, Riverside, California 92521, United States
contact email	yinsheng.wang@ucr.edu
lab head
JiekaiYin
contact affiliation	University of California, Riverside
contact email	jyin026@ucr.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD041343
     1. Label: PRIDE project
     2. Name: Targeted Profiling of Epitranscriptomic Reader, Writer and Eraser Proteins Regulated by H3K36me3