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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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			Action	DRS
	checksum.txt	Txt
	mqpar.xml	Xml
	shNC-1.raw	Raw
	shNC-1_FS45.raw	Raw
	shNC-1_FS65.raw	Raw

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Publications

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

photoaffinity for Puerarin and mouse brainstem

Project description:To elucidate the molecular mechanism mediating the inactivated effect of DMV neurons on fat absorption, we performed an activity-based protein profiling strategy, using Puerarin as a “bait”. The Puerarin-tag probe was synthesized with a photoreactive tag to enrich and visualize target proteins via a photoaffinity chemistry reaction. We verified that probe-tagged Puerarin retains the same effects of increasing fecal lipid excretion as non-tagged Puerarin. Probe-tagged Puerarin was added to the freshly isolated brainstem sample, and 10 doses of non-tagged Puerarin was used as a competitor of probe-tagged Puerarin. Following the photoaffinity reaction, targeted proteins were subsequently assessed by liquid chromatography tandem mass spectrometry (LC-MS).

2024-09-06 | PXD052140 | 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

Trichopria drosophilae venom, LC-MS/MS-based proteomics

Project description:Identification of venom proteins of Drosophila parasitoid, Trichopria drosophilae.

2024-06-20 | PXD038251 | Pride