Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Next generation sequencing facilitates quantitative analysis of control and NICD overexpression salivary gland imagnal ring tumor transcriptomes

ABSTRACT: We established a tumor model in which Notch overexpression can induce tumor formation in a transition-zone (TZ) region in the Drosophila salivary gland imagnal ring (ImR). TZ cells are polyploid cells and do not devide during normal development, however, polyploid TZ cells reenter to mitosis and form tumor after Notch induction. Growth and progression of the TZ tumor are fueled by a combination of polyploid mitosis, endoreplication, and depolyploidization. To determine the molecular mechanisms underlying tumor formation in the NICD-induced TZ tumors, we did RNA-seq and compared the transcriptomes between tumor and control. We found the mitosis of the salivary gland ImR tumor was due to the Drosophila Cdc25 homolog String (Stg), a M-phase inducer phosphatase, was significantly upregulated in the tumor sample. Besides, we found DNA damage response genes, also active during meiosis, are upregulated in these tumors and are required for the ploidy reduction division. This study suggests that polyploidy and associated cell-cycle variants are critical for increased tumor cell heterogeneity and genome instability during cancer progression.

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE175415 | GEO | 2022/05/20

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

microRNA (miRNA) expression profiles of murine polyploid trophoblast giant cells (TGCs) from day 9.5 implantation sites.

2013-04-30 | GSE45784 | GEO

RNA expression profiles of murine polyploid trophoblast giant cells (TGCs) from day 9.5 implantation sites.

2013-04-30 | GSE45782 | GEO

H3K9 promotes under-replication of pericentromeric heterochromatin in Drosophila salivary gland polytene chromosomes

Project description:We replaced the endogenous histones of Drosophila melanogaster with either histones containing an H3K9R mutation or histones containing an H4K16R mutation to interrogate direct functions for histone residues in salivary gland endoreplication. We performed genomic DNA sequencing in HWT (Histone Wild Type) control, H3K9R, and H4K16R females. We found that H3K9 promotes under-replication of pericentromeric heterochromatin but not along chromosome arms and H4K16 is dispensable for under-replication.

2019-02-21 | GSE125505 | GEO

microRNA (miRNA) expression profiles of murine polyploid trophoblast giant cells (TGCs) from day 9.5 implantation sites.

Project description:We employed miRNA-seq to profile all miRNAs from a pure population of hand-dissected polyploid TGCs from embryonic day 9.5. These data set of polyploid-specific TGCs microRNAs will provide insights into TGCs differentiation and endoreplication. TGCs were micro-dissected from day E9.5 nine implantation sites from C57BL/J6 mice. The portion of the TGCs in direct contact with the spongiotrophoblast layer and the labyrinth layer were manually removed to avoid collecting any polyploid cells from the former or multi-nucleated syncytiotrophoblast cells from the latter.

2013-04-30 | E-GEOD-45784 | biostudies-arrayexpress

RNA expression profiles of murine polyploid trophoblast giant cells (TGCs) from day 9.5 implantation sites.

Project description:We employed RNA-seq to transcriptionally profile a pure population of hand-dissected polyploid TGCs from embryonic day 9.5. These data provide a set of polyploid-specific TGCs transcripts that will aid in the understanding of TGCs differentiation and endoreplication. TGCs were micro-dissected from day E9.5 nine implantation sites from C57BL/6J mice. The portion of the TGCs in direct contact with the spongiotrophoblast layer and the labyrinth layer were manually removed to avoid collecting any polyploid cells from the former or multi-nucleated syncytiotrophoblast cells from the latter.

2013-04-30 | E-GEOD-45782 | biostudies-arrayexpress

Identification of the CREB-regulated transcriptional program in human mucoepidermoid carcinoma cells

Project description:Mucoepidermoid carcinomas (MEC) is the most common salivary gland malignancy. To date, advanced and nonresectable MEC have poor prognosis and no effective treatment. The CRTC1-MAML2 fusion oncogene, which is associated with more than 50% of MEC, consists of the N-terminal CREB-binding domain of the CREB transcriptional co-activator CRTC1 and the C-terminal transcriptional activation domain of the Notch transcriptional co-activator MAML2. CRTC1-MAML2 fusion was found to interact with CREB and constitutively activate their transcriptional targets. To investigate the contribution of the transcription factor CREB to mediate the fusion target gene expression, gene expression profiling analysis were performed in two salivary gland tumor cell lines (including fusion-positive H3118 MEC cells and fusion-negative HSY parotid adenocarcinoma cells) before and after CREB knockdown. This study demonstrated that CRTC1-MAML2 co-activation of CREB is a major mechanism underlying CRTC1-MAML2-mediated transcriptional regulation. Two salivary gland tumor cell lines were used in this study, including fusion-positive H3118 MEC cells and fusion-negative HSY parotid adenocarcinoma cells. The CREB knock down was performed with three biological replicates for each group. Both fusion-positive MEC H3118 cells and fusion-negative parotid adenocarcinoma HSY cells were stably transduced with pLKO.1-based shRNA targeting luciferase gene (shLuc, control) or CREB (shCREB). The cells were independently cultured and RNAs were then harvested 72 hours after transduction for microarray analysis.

2015-10-30 | E-GEOD-49673 | biostudies-arrayexpress

Identify and characterize the polyploidization process of primary human proximal tubular cells (hPTC)

Project description:We generated single-cell RNA sequencing (scRNAseq) datasets of primary cultures of human proximal tubular cells at different passages which we have found to contain a polyploid fraction. Within hPTC clusters, we found genes previously associated with different phases of endoreplication-mediated polyploidy and established that YAP1 controls the polyploidization process of hPTC. These observations were verified by treating hPTC with verteporfin (a YAP1 inhibitor), YAP1 silencing and by quantifying the expression of YAP1 downstream targets in sorted polyploid hPTC

2022-10-01 | GSE212275 | GEO

Gene expression of murine 3 major salivary gland organoids

Project description:Salivary glands that produce and secret saliva, which is essential for lubrication, digestion, immunity, and oral homeostasis, consist of diverse cells. The long-term maintenance of diverse salivary gland cells in organoids remains problematic. Here, we established long-term murine salivary gland organoids from 3 major salivary glands, including parotid gland (PG), submandibular gland (SMG), and sublingual gland (SLG). Murine salivary gland organoids expressed gland-specific genes and proteins of acinar, myoepithelial, and duct cells. Organoids were maintained in growth media (named GEM) and further underwent differentiation in differentiation media (named DAM). Our study will provide an experimental platform for the exploration of mechanisms involvled in tissue regeneration, development, or several salivary gland diseases.

2022-05-05 | GSE184091 | GEO

Gene expression analysis of human salivary gland and organoid at single cell resolution

Project description:Salivary glands that produce and secret saliva, which is essential for lubrication, digestion, immunity, and oral homeostasis, consist of diverse cells. Maintenance of diverse salivary gland cells in organoids remains problematic. Here, we established human salivary gland organoids, which is composed of multiple cellular subsets, from 3 major salivary glands, including parotid gland (PG), submandibular gland (SMG), and sublingual gland (SLG). Human salivary gland organoids expressed gland-specific genes and proteins of acinar, myoepithelial, and duct cells. Organoids were maintained in growth media (named GEM) and further underwent differentiation in differentiation media (named DAM). Our study will provide an experimental platform for the exploration of mechanisms involvled in tissue regeneration, development, or several salivary gland diseases.

2022-05-05 | GSE184526 | GEO

DNA methylation profiling of salivary gland tumors

Project description:Tumors of the major and minor salivary gland encompass a diverse spectrum of diagnostically challenging neoplasms. Recent studies have identified several gene fusions and somatic mutations that are specific or highly enriched in certain salivary gland tumor entities and can assist histopathological diagnosis. Still, there is an unmet need to identify additional diagnostic biomarkers for entities lacking specific alterations. In this study, we collected a comprehensive cohort of 363 cases encompassing 20 different salivary gland tumor entities and explored the potential of DNA methylation to classify these tumors. We were able to show that most entities show specific epigenetic signatures and present a machine learning algorithm that can be used to classify diagnostically challenging cases.

2024-08-31 | GSE243075 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data