PXD009009

PXD009009 is an original dataset announced via ProteomeXchange.

Title	Integrated Omics Profiling Identifies Hypoxia-Regulated Genes in HCT116 Colon Cancer Cells
Description	Hypoxia is associated with poor prognosis in most solid tumors due to its multiple effects on therapy resistance, angiogenesis, apoptotic resistance, and tumor invasion/metastasis. Here we used a comprehensive omics profiling to investigate hypoxia-regulated gene expression in HCT116 colon cancer cells. Quantitative analyses of proteome and secretome were performed in HCT116 cells cultured under hypoxic or normoxic conditions. A total of 5,700 proteins were quantified in proteome analysis and 722 proteins were quantified in secretome analysis. Both datasets were combined with the transcriptome and translatome datasets for further analysis. Verification of candidate proteins/genes in this integrated omics analysis was performed using immunoblotting and quantitative real-time RT-PCR analyses. We also performed polysome profiling to assess changes in translational efficiency of hypoxia-induced genes. Notably, several genes were differently regulated at the transcriptional and translational levels in HCT116 cells during hypoxia. Bioinformatics analysis suggested that hypoxia regulates translation of genes involved in extracellular matrix organization, extracellular exosomes, and protein processing in endoplasmic reticulum. Aberrations in these metabolic pathways appear to be correlated with an increased risk of tumor invasion/metastasis.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:42:52.658.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	JengTing Chen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue
Instrument	LTQ Orbitrap; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-02-22 01:16:36	ID requested
1	2018-03-14 02:16:45	announced
⏵ 2	2024-10-22 04:43:00	announced	2024-10-22: Updated project metadata.

10.1016/j.jprot.2018.02.031;

Chen JT, Liu CC, Yu JS, Li HH, Lai MC, Integrated omics profiling identifies hypoxia-regulated genes in HCT116 colon cancer cells. J Proteomics, 188():139-151(2018) [pubmed]

curator keyword: Biomedical

submitter keyword: colorectal cancer/ hypoxia/ proteome/ secretome/ transcriptome/ translatome

JengTing Chen
contact affiliation	Chang Gung Memorial Hospital
contact email	jtchen@cgmh.org.tw
lab head
JengTing Chen
contact affiliation	chang gung memorial hospital
contact email	jtchen@cgmh.org.tw
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD009009
     1. Label: PRIDE project
     2. Name: Integrated Omics Profiling Identifies Hypoxia-Regulated Genes in HCT116 Colon Cancer Cells