Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-Seq expression profiling of clonal populations from the OCI-C5x patient-derived ovarian clear cell carcinoma cell line

ABSTRACT: Intratumoral heterogeneity is well-recognized but its impact on tumor progression is unclear. Here, we derived unbiased clonal populations from OCI-C5x, a patient-derived ovarian clear cell carcinoma cell line, and assessed their tumorigenicity and tracked their fate during tumor progression. Results provide insight into intratumoral heterogeneity of clear cell carcinoma transcriptomes.

ORGANISM(S): Homo sapiens

PROVIDER: GSE123426 | GEO | 2020/09/11

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Sunitinib treatment exacerbates intratumoral heterogeneity in metastatic renal cancer

Project description:The aim of this study was to investigate the effect of VEGF targeted therapy (sunitinib) on intratumoral heterogeneity (ITH) in metastatic clear cell renal cancer (mRCC). 138 samples from patients with clear cell renal cell carcinoma, including biological replicates of nephrectomy samples. RNA extracted fresh frozen tissue samples.

2015-05-25 | E-GEOD-65615 | biostudies-arrayexpress

Niche-dependent expression profiles of intratumoral heterogenous ovarian clear cell carcinoma cells

Project description:Exploring the expression profile of ovarian clear cell carcinoma cancer cell subpopulations- derived tumors grown within a murine and a human cellular tissues. RNA samples were obtained from laser micro-dissected from two cancer cell subpopulations (CCSPs C12 and C13)- derived tumors that developed within a murine (intratumoral) and a human (intra-teratoma) and from in vitro grown cells; a total of 9 RNA samples of CCSP's C12 and 9 RNA samples of CCSP's C13 .

2013-01-07 | E-GEOD-43208 | biostudies-arrayexpress

H3K4me2 profiling in OCI-Ly1 and OCI-Ly7 cell lines.

Project description:Define and compare H3K4me2 enrichment in OCI-Ly1 and OCI-Ly7 cell lines.

2015-08-28 | GSE67381 | GEO

H3K4me2 profiling in OCI-Ly1 and OCI-Ly7 cell lines.

Project description:Define and compare H3K4me2 enrichment in OCI-Ly1 and OCI-Ly7 cell lines. Using ChIP-seq, we examined the H3K4me2 genomic enrichment locations in two biological replicates in each cell line

2015-08-28 | E-GEOD-67381 | biostudies-arrayexpress

NanoString gene expression data of OCI-C5x and OCI-P5x

Project description:NanoString gene expression data of OCI-C5x and OCI-P5x

| PRJNA642661 | ENA

RNA-Seq expression profiling of clonal populations from the OCI-C5x patient-derived ovarian clear cell carcinoma cell line

Project description:RNA-Seq expression profiling of clonal populations from the OCI-C5x patient-derived ovarian clear cell carcinoma cell line

| PRJNA508736 | ENA

Epigenetic and transcriptomic characterization reveals progression markers and essential pathways in clear cell renal cell carcinoma

Project description:Identifying tumor-cell-specific markers and elucidating their epigenetic regulation and spatial heterogeneity provides mechanistic insights into cancer etiology. Here, we have performed snRNA-seq and snATAC-seq in 34 and 28 human clear cell renal cell carcinoma (ccRCC) specimens, respectively, with matched bulk proteogenomics data. By identifying 20 tumor-specific markers through a multi-omics tiered approach, we reveal an association between higher ceruloplasmin (CP) expression and reduced survival. CP knockdown, combined with spatial transcriptomics, suggests a role for CP in regulating hyalinized stroma and tumor-stroma interactions in ccRCC. Intratumoral heterogeneity analysis portrays tumor cell-intrinsic inflammation and epithelial-mesenchymal transition (EMT) as two distinguishing features of tumor subpopulations. Finally, BAP1 mutations are associated with widespread reduction of chromatin accessibility, while PBRM1 mutations generally increase accessibility, with the former affecting five times more accessible peaks than the latter. These integrated analyses reveal the cellular architecture of ccRCC, providing insights into key markers and pathways in ccRCC tumorigenesis.

2023-03-22 | GSE227898 | GEO

Major Action of Endogenous Lysyl Oxidase in Clear Cell Renal Cell Carcinoma Progression and Collagen Stiffness Revealed by Primary Cell Cultures

Project description:In this work we aimed to perform, for the first time in human clear cell renal cell carcinoma (ccRCC), a comprehensive and detailed study of endogenous LOX expression and functions. To overcome the difficulties and limitations due to tissue heterogeneity, we took advantage of a consolidated in vitro model of primary cell cultures that we obtained from normal kidney and ccRCC tissues. We have previously extensively characterized these primary cell cultures for their proteomic, cellular, and genomic features, and we also investigated here for their transcriptomic profile by using Affymetrix technology. This in vitro model has been instrumental for the molecular and functional analysis of endogenous LOX related to ccRCC progression.

2016-06-06 | E-MTAB-4074 | biostudies-arrayexpress

Methylation status of OCI Ly3 SP vs. nonSP

Project description:Promotor methylation status of Side Population cells of DLBCL cell line OCI Ly3 was compared to non Side Population Cells of OCI Ly3

2013-12-07 | GSE53043 | GEO

Methylation status of OCI Ly3 SP vs. nonSP

Project description:Promotor methylation status of Side Population cells of DLBCL cell line OCI Ly3 was compared to non Side Population Cells of OCI Ly3 DLBCL Cell Line OCI Ly3 was cultured and stained using Hoechst33342. FACS analysis showed a distinct Side Population. Side Population Cells and non Side Population cells were sorted, gDNA was extracted and Methylation analysis was performed using Illumin 27k Bead Array.

2013-12-07 | E-GEOD-53043 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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