Dataset Information

Quantitative proteomics of epithelial mesenchymal transition of human primary small airway epithelial cells: part 1

ABSTRACT: A study employs quantitative proteomics approach fro systems biology understanding of the epithelial mesenchymal transition of human primary small airway epithelial cells.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Yingxin Zhao

LAB HEAD: Yingxin Zhao, Ph.D.

PROVIDER: PXD003293 | Pride | 2018-10-25

REPOSITORIES: Pride

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Publications

Integrative proteomic analysis reveals reprograming tumor necrosis factor signaling in epithelial mesenchymal transition.

Zhao Yingxin Y Tian Bing B Sadygov Rovshan G RG Zhang Yueqing Y Brasier Allan R AR

Journal of proteomics 20160725

<h4>Unlabelled</h4>The airway epithelium is a semi-impermeable barrier whose disruption by growth factor reprogramming is associated with chronic airway diseases of humans. Transforming growth factor beta (TGFβ)-induced epithelial mesenchymal transition (EMT) plays important roles in airway remodeling characteristic of idiopathic lung fibrosis, asthma and chronic obstructive pulmonary disease (COPD). Inflammation of the airways leads to airway injury and tumor necrosis factor alpha (TNFα) plays ...[more]

PMID: 27461979

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Project description:The airway epithelial cell plays a central role in coordinating pulmonary response to injury and inflammation. Here, transforming growth factor-b (TGFb) activates gene expression programs to induce stem cell-like properties, inhibit expression of differentiated epithelial adhesion proteins and express mesenchymal contractile proteins. This process is known as epithelial mesenchymal transition (EMT); although much is known about the role of EMT in cellular metastasis in an oncogene-transformed cell, less is known about Type II EMT, that occurring in normal epithelial cells. In this study, we applied next generation sequencing (RNA-seq) in primary human airway epithelial cells to understand the gene program controlling Type II EMT and how cytokine-induced inflammation modifies it. Generalized linear modeling was performed on a two-factor RNA-seq experiment of 6 treatments of telomerase immortalized human small airway epithelial cells (3 replicates). Using a stringent cut-off, we identified 3,478 differentially expressed genes (DEGs) in response to EMT. Unbiased transcription factor enrichment analysis identified three clusters of EMT regulators, one including SMADs/TP63 and another NF-kB/RelA. Surprisingly, we also observed 527 of the EMT DEGs were also regulated by the TNF-NF-kB/RelA pathway. This Type II EMT program was compared to Type III EMT in TGFb stimulated A549 alveolar lung cancer cells, revealing significant functional differences. Moreover, we observe that Type II EMT modifies the outcome of the TNF program, reducing IFN signaling and enhancing integrin signaling. We confirmed experimentally that TGFb-induced the NF-kB/RelA pathway by observing a 2-fold change in NF-kB/RelA nuclear translocation. A small molecule IKK inhibitor blocked TGFb-induced core transcription factor (SNAIL1, ZEB1 and Twist1) and mesenchymal gene (FN1 and VIM) expression. These data indicate that NF-kB/RelA controls a SMAD-independent gene network whose regulation is required for initiation of Type II EMT. Type II EMT dramatically affects the induction and kinetics of TNF-dependent gene networks.

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	EMT-ITRAQ-15-1.raw	Raw
	EMT-ITRAQ-15-2.raw	Raw
	EMT-ITRAQ-16-1.raw	Raw
	EMT-ITRAQ-16-2.raw	Raw
	EMT-iTRAQ-proteomics-15.msf	Msf