Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from colorectal cancer cell lines transfected with CDKL1-shRNA

ABSTRACT: CDKL1 protein was overexpressed in colorectal cancer tissues compared with paired normal tissue. Knockdown of CDKL1 in HCT116 and Caco2 significantly inhibited cell growth, colony formation ability, tumor invasion, and G1-S phase transition of the cell cycle. We used microarrays to detail the gene expression of colorectal cells after CDKL1 knockdown by shRNA.

ORGANISM(S): Homo sapiens

PROVIDER: GSE94887 | GEO | 2017/02/15

SECONDARY ACCESSION(S): PRJNA374725

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Colorectal cancer cell lines with SETDB1 depletion [RNA-seq]

Project description:We performed RNA sequencing analysis of three colorectal cancer cell lines (Caco2, HCT116, SW480) with SETDB1 knockdown. Samples were obtained after flow cytometry sorting according to KRT20 expression level.

2019-08-07 | GSE135460 | GEO

Colorectal cancer cell lines basal expression [microarray]

Project description:We performed microarray analysis of four colorectal cancer cell lines (Caco2, HCT116, SW480, and SW620).

2019-08-07 | GSE135459 | GEO

Gene expression analysis of HCT116 colorectal cancer cells with shRNA mediated control (GFP) or ZEB1 knockdown

Project description:Epithelial-to-mesenchymal transition (EMT) is a fundamental process in development and disease. If aberrantly activated it is a trigger for tumour progression and metastasis (Thiery et al 2009 Cell). It is now known that EMT activation is also associated with the maintenance of stem-cell properties (Mani et al. 2008 Cell). Since Zinc-finger enhancer binding transcription factor 1 (ZEB1) is a crucial EMT activator, we analyzed the changes in the gene expression profile that accompany shRNA mediated loss of ZEB1 in HCT116 colorectal cancer cells. HCT116 is a cell line that exhibits mesenchymal characteristics, but reverts to an epithelial phenotype upon ZEB1 knock down (Spaderna et al. 2008 Cancer Research). HCT116 cells were stably transfected with control (GFP) or ZEB1 shRNA. Upon puromycin selection, single cell clones were picked and characterized. Cells from two control versus two ZEB1 knockdown clones were harvested, total RNA was isolated and processed to hybridization.

2016-06-15 | E-MTAB-3480 | biostudies-arrayexpress

Expression data from PTC cell lines transfected with SHCBP1-shRNA

Project description:The mRNA and protein levels of SHCBP1 were significantly upregulated in PTC cancer tissues compared with paired normal tissue. Knockdown of SHCBP11 in TPC-1 and K1 significantly supressed cell growth, colony formation ability, tumor invasion, and phase transition of the cell cycle. We used microarrays to investigate the gene expression alterations of PTC cells after SHCBP1 knockdown by shRNA.

2020-10-04 | GSE154307 | GEO

Expression data from PTC cell lines transfected with FAM60A-shRNA

Project description:The mRNA and protein levels of FAM60A were significantly upregulated in PTC cancer tissues compared with paired normal tissue. Knockdown of FAM60A1 in TPC-1 and K1 significantly supressed cell growth, colony formation ability, tumor invasion, and phase transition of the cell cycle. We used microarrays to investigate the gene expression alterations of PTC cells after FAM60A knockdown by shRNA.

2020-11-26 | GSE154331 | GEO

Inhibition of DUSP18 impairs cholesterol biosynthesis and promotes anti-tumor immunity in colorectal cancer

Project description:We discovered, through mining TCGA data and conducting CRISPR screens, that DUSP18 expression within tumor cells significantly influences the immune microenvironment of colorectal cancer.To explore the role of DUSP18 in regulating the immune microenvironment of colorectal cancer (CRC), we established MC38 and HCT116 cell lines with targeted gene knockdown via shRNA and performed RNA-Seq.

2024-06-21 | GSE264145 | GEO

The global transcriptome analysis of HCT116 cells transfected with scrambled or CBX4 shRNA

Project description:To investigate the molecular mechanism of CBX4 in CRC, the global transcriptomes were analyzed in HCT116 cells in which CBX4 was knocked down with shRNA, and these transcriptomes were compared to those of HCT116 cells transfected with scrambled shRNA.

2017-02-10 | GSE87778 | GEO

Expression profiling of HCT116 cells transfected with shCTRL or shKSR1

Project description:We engineered HCT116 cells by transfecting a non targeting control hairpin or 2 different short hairpin against KSR1 to knockdown KSR1 and microarrays were performed on non-transfected controls, non-targeting shRNA controls, shRNA #1 targeting KSR1, and shRNA #2 targeting KSR1. We used microarray for molecular profiling of colon cancer cells in presence or in absence of KSR1, an important scaffold of Raf/MEK/ERK pathway and identify genes which are regulated by KSR1 Cell lines were measured in as single biological replicates 1. HCT116 untransfected 2 HCT116 + shCTRL 3.HCT116 + shKSR1#1 4. 3.HCT116 + shKSR1#2

2015-01-28 | E-GEOD-65351 | biostudies-arrayexpress

Effect of Sprouty2 Downregulation on MicroRNA Expression Profile in HCT116 Colon Cancer Cells

Project description:Sprouty proteins are evolutionarily conserved modulators of mitogen-activated protein kinase pathway. Sprouty2 appears to function as a tumor suppressor in cancers, whereas we reported earlier that Sprouty2 functions as an oncogene in colorectal cancer. To further understand the oncogenic potential of Sprouty2 in the colon, microRNA expression profile of colon cancer cells was investigated. Sprouty2 suppression in HCT116 colon cancer cells significantly increased MicroRNA 194-5p. Sprouty2 dependent regulation of microRNA194-5p and its biological targets were studied further for their tumor suppressive actions in reducing epithelial-mesenchymal transition in colorectal cancer. Sprouty2 knockdown was performed by infecting HCT116 cells with three different lentivirus expressing shRNAs against human Sprouty2 mRNA and a control non targeted non-silencing shRNA (Sprouty2 MISSION shRNA Lentiviral Transduction Particles; TRCN 0000007522, TRCN 0000231589, TRCN 0000231588 and a non-targeted shRNA control from Sigma) following lentiviral transduction protocols provided by Sigma. Due to the random integration of the lentivirus into the host genome, varying levels of Sprouty2 gene knockdown was expected in puromycin resistant colonies. Three colonies in triplicate that demonstrated highest to lowest level of Sprouty2 suppression, as assessed by western blotting, were selected. RNA samples from these colonies and one from non-targeted shRNA expressing colony were prepared for microRNA expression profile analysis. Pooled RNA samples from each group were shipped to Exiqon for microRNA profiling based on miRCURY LNATM array technology.

2015-06-09 | E-GEOD-69665 | biostudies-arrayexpress

RNA-seq analysis of differentially expressed genes between WT and shTRIM21 HCT116 cells.

Project description:To investigate the biological function TRIM21 in the colorectal cancer, we established HCT116 cell lines in which the TRIM21 gene has been knocked down by shRNA. We used a lentiviral shRNA technique to knockdown TRIM21 expression in HCT116 cells. A scrambled shRNA (shRNA/Control) was used as a control. We then performed RNA-Seq with Cloud-seq Biotech Inc. (Shanghai, China) to analyze gene expression changes in HCT116 cells. For each sample, three independent biological replicates were performed.

2023-05-23 | GSE211267 | 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