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Mechanism of TP53 and RB1 inactivation-induced neuroendocrine phenotype transformation in TKI-resistant lung adenocarcinoma

ABSTRACT: In order to study the mechanism of co-inactivation of RB1 and TP53 in the transformation of lung adenocarcinoma to small cell lung cancer, we established the NCI-H1975 cell line with RB1 knockdown.NCI-H1975 cells were cultured and infected with lentivirus expressing RB1-shRNA (n=3) or pLKO.1-shRNA (n=3), We then performed transcriptome sequencing (RNA-seq) on the above cells.

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Lung, Epithelial Cell

DISEASE(S): Lung Cancer

SUBMITTER: Ying Zhang

LAB HEAD: Yuanzhi Lu

PROVIDER: PXD042073 | Pride | 2023-08-20

REPOSITORIES: Pride

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Bioinformatics-based screening of key genes for transformation of tyrosine kinase inhibitor-resistant lung adenocarcinoma to small cell lung cancer.

Zhang Ying Y Chen Qiang Q Huang Ting T Zhu Di D Lu Yuanzhi Y

Frontiers in medicine 20230731

<h4>Purpose</h4>Lung adenocarcinoma (LUAD) is a common type of lung cancer. Cancer in a small number of patients with EGFR mutations will transform from LUAD to small cell lung cancer (SCLC) during epidermal growth factor receptor tyrosine kinase inhibitor (EGFR-TKI) therapiesr. The purpose of the present study was to identify the core genes related to the transformation of LUAD into SCLC and to explore the associated molecular mechanisms.<h4>Methods</h4>GSE29016, GSE1037, GSE6044 and GSE40275 m ...[more]

PMID: 37583423

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Mechanism of TP53 and RB1 inactivation-induced neuroendocrine phenotype transformation in TKI-resistant lung adenocarcinoma

Project description:In order to study the mechanism of co-inactivation of RB1 and TP53 in the transformation of lung adenocarcinoma to small cell lung cancer, we established the NCI-H1975 cell line with RB1 knockdown.NCI-H1975 cells were cultured and infected with lentivirus expressing RB1-shRNA (n=3) or pLKO.1-shRNA (n=3), We then performed transcriptome sequencing (RNA-seq) on the above cells.

2023-07-25 | GSE232387 | GEO

Comparative proteomics of CTS effect on human lung cancer H1975

Project description:Cryptotanshinone (CTS) is a lipophilic constituent of Salvia miltiorrhiza, with a broad-spectrum anticancer activity. We have observed that CTS enhances the efficacy of gefitinib in human lung cancer H1975 cells, yet little is known about its molecular mechanism. To explore how CTS enhances H1975 cell sensitivity to gefitinib, we figured out differential proteins of H1975 cells treated by gefitinib alone or in combination with CTS using label-free liquid chromatography-mass spectrometry (LC-MS). Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and protein-protein interaction (PPI) bioinformatic analyses of the differential proteins were performed. CTS enhanced H1975 cell sensitivity to gefitinib in vitro and in vivo, with 115 and 128 differential proteins identified respectively. GO enrichment, KEGG analysis, and PPI network comprehensively demonstrated that CTS mainly impacted the redox process and fatty acid metabolism in H1975 cells. Moreover, three differential proteins were validated by RT-qPCR and Western blot. In conclusion, we used a proteomic method to study the mechanism of CTS enhancing gefitinib sensitivity in H1975 cells. Our finding reveals the potential protein targets of CTS in overcoming gefitinib resistance which may be therapeutical targets in lung cancer.

2022-02-23 | PXD031533 | Pride

Haemonchus contortus ESPs LS-MS/MS

Project description:Haemonchus contortus has developed complexed and multifaceted mechanisms of immune evasion to enable the survival in the host. Generating excretion and secretion products (ESPs) to subvert or suppress the functions of host cytokines is a newly immune regulatory pattern found during recent years. TGF-β1 has critical immune regulatory functions in nematode infections. In this study, the co-immunoprecipitation was used to collect the molecules which bound to the goat TGF-β1 from ESPs, and the precipitates were identified by mass spectrometry using shotgun LC-MS / MS.

2020-09-08 | PXD020699 | Pride

Human fetal left and right frontal lobes LC-MSMS

Project description:Inherent hemispheric asymmetry is significant for cognition, language and other functions. An understanding of normal brain and asymmetry development in the early period will further the knowledge of how different hemispheres prioritize specific functions, which is still unknown. We analysed the developmental changes in and asymmetry of the proteome in the bilateral frontal lobes of three foetal specimens in the late first trimester of pregnancy (9, 11, 13 gestational weeks). We found that during this period, the difference in expression between gestational weeks increased, and the difference in asymmetric expression decreased. The patterns of protein expression changes in the bilateral frontal lobes were different. Our results show that brain asymmetry can be observed in the early stage. Researchers can use these findings to further investigate the mechanisms of brain asymmetry.

2022-09-30 | PXD034192 | Pride

A quantitative analysis of rice stem tissue by iTRAQ proteomic techonology

Project description:Here, we reported the quantitative analysis of brown planthopper (BPH) interactions with rice stem tissue by iTRAQ proteomic techonology.The results obtained from this work not only aimed to provide a new clues that will facilitate better understanding of complex molecular and cellular events in BPH infestation, but also explored the regulatory roles of HSP20 for breeding BPH resistant rice.

2019-11-14 | PXD008926 | Pride

Proteomics of ectopic endometrial cell-derived exosomes in endometriosis

Project description:We primary cultured ectopic endometrial cells from patients with endometriosis (2 cases) and without endometriosis(2 cases) and collected cell culture supernatants（P0). We isolated exosomes from cell culture supernatants by differential centrifugation and then performed proteome analysis on the two groups of exosomes to investigate the role of ectopic endometrial cell-derived exosomes in the development of endometriosis.

2022-06-09 | PXD033124 | Pride

Serratia bacteria Su_YN1 OMV LC-MSMS

Project description:This project aims to analyse the proteins of outer membrane vesicles (OMVs) released by a Serratia bacteria strain Su_YN1, which is isolated from field-caught mosquito gut. Su_YN1 produces massive OMVs under host serum induction. The data contain LC-MSMS results of the OMVs released without serum induction (WT-), and serum induced OMVs of WT strain (WT+) and several gene disruption strains (disruption of the ABC transporter genes ABC1 and ABC2). This project was conducted by CEMPS lab and Shanghai hoogen biotech co.ltd. The CEMPS lab prepared the purified OMV samples and Shanghai hoogen biotech co.ltd conducted the LC-MSMS analysis.

2023-08-02 | PXD042831 | Pride

FKBP4 knockdown effect on the gene expression of H1975 cells

Project description:H1975 cells were transfected with FKBP4 targeting shRNA and the control shRNA, then mRNA were extracted for high-throughput sequencing.

2020-09-12 | GSE157826 | GEO

Analysis of Global Protein Expression in PIWIL1 knockdown PDAC cell line

Project description:In contrast to the great advances in understanding of the functions of Piwi in germlines, their actions in cancer cells remain less clear. In particular, Piwi proteins have been asserted as oncoproteins, but little is known about how their oncogenic function is achieved in cancer cells. We conducted mass spectrometry-based quantitative proteomic analyses to monitor the proteome changes upon PIWIL1 downregulation in PDAC cell line.

2020-02-18 | PXD017452 | Pride

Comparative proteomic analysis of plasma membrane proteins in rice leaves reveals a vesicle trafficking network in plant immunity provoked by blast fungi

Project description:This project aims to analyze rice plasma membrane proteins related to resistance against rice blast infection. We extracted rice plasma membrane proteins before and after M.oryzae infection for 24h, and then used trypsin to digest and iTRAQ to label the peptides, HPLC-MS/MS was used to seperate and identify peptides. 1.1/0.909 fold change with p-value < 0.05 was used as threshold for differentially expressed proteins. 2,977 proteins were identified and 951 of which were found to be responsive to resistance against M. oryzae. Gene Ontology (GO) enrichment analysis, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis and protein interaction network showed that plenty of proteins were involved in vesicle trafficking with obvious functional tendencies towards transport, vesicle-mediated transport, secretion, endocytosis and phagosome. 10 DEPs were validated at transcript level, and a SNARE protein named NPSN (novel plant-specific SNARE)13 actively responded to M. oryzae infection, and it contributed to rice blast resistance and mainly located at PM.

2022-05-19 | PXD028545 | Pride

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