PXD021318

PXD021318 is an original dataset announced via ProteomeXchange.

Title	Multiplex analyses of mitochondria in colorectal cancer patients uncover novel diagnostic and therapeutic opportunities
Description	Background: Multi-omics analyses are profitable for discovering novel biomarkers and drug targets, but such integrated examinations on mitochondria of colorectal cancer (CRC) patients are lacking. Methods: We investigated global structural variants, DNA methylation, chromatin accessibility, proteome, and phosphoproteome on human CRC (n = 6-8). The alterations of mitochondria on these levels and potential upstream regulatory genes were described. Furthermore, combining with the mRNA datasets of 538 CRC and 91 colitis patients from the public databases, we identified independent prognostic factors (IPFs). Findings: Revealed by the proteogenomic analyses in our study, mitochondria altered the most among all organelles in CRC, which were also associated with patient prognosis the most. We found that the mRNA of one nuclear-coding mitochondrial gene (NCMG), HIGD1A, decreased in colitis, two subtypes of adenoma, and six subtypes of CRC, subsequently was identified as a favorable IPF for CRC. Besides, the comprehensive analyses of mitochondria by multi-omics uncovered unique proteogenomic alterations on six survival-related NCMGs. Key transcriptional factors potentially regulating the mitochondria were also unveiled, such as GLIS1, JUN, CREB1, and YAP1. Finally, p38 was highlighted as one possible central kinase involving in the modulation of mitochondrial activity in CRC patients. Interpretation: Our study presents a multilayer and molecular picture of mitochondria of CRC patients, recognizes HIGD1A as a potential prognostic biomarker, and provides new candidate genes as therapeutic targets
HostingRepository	PRIDE
AnnounceDate	2022-02-16
AnnouncementXML	Submission_2022-02-16_08:08:54.736.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wei Zhang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2020-09-04 06:28:04	ID requested
⏵ 1	2022-02-16 08:08:56	announced

Zhang W, Lin L, Xia L, Cai W, Dai W, Zou C, Yin L, Tang D, Xu Y, Dai Y, Multi-omics analyses of human colorectal cancer revealed three mitochondrial genes potentially associated with poor outcomes of patients. J Transl Med, 19(1):273(2021) [pubmed]

submitter keyword: Mitochondria

multi-omics

colorectal cancer

prognosis

drug targets

Yong Dai
contact affiliation	Shenzhen People’s Hospital
contact email	daiyong22@aliyun.com
lab head
Wei Zhang
contact affiliation	Shenzhen People's Hospital
contact email	zhangwei_magic@163.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD021318
     1. Label: PRIDE project
     2. Name: Multiplex analyses of mitochondria in colorectal cancer patients uncover novel diagnostic and therapeutic opportunities