Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysis of gene expression in co-culture of PBMCs with breast cancer cell lines by High-Throughput Sequencing

ABSTRACT: The goal of this study is to investigate paracrine effect of peripheral blood mononuclear cells (PBMCs) on breast cancer cell lines. Transcription profiles of PBMCs (control) and PBMCs co-cultured with breast cancer cell lines (treatment) were generated by deep sequencing, in triplicate for MCF7 and duplicate for T47D, using Illumina HiSeq 4000. Transcriptome analysis of PBMCs has shown the gene expression changed when co-cultured with breast cancer cell lines. The result revealed significantly up- and down-regulated genes.

ORGANISM(S): Homo sapiens

PROVIDER: GSE112280 | GEO | 2021/12/31

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Analysis of gene expression in co-culture of PBMCs with colon cancer cell lines by High-Throughput Sequencing

Project description:(Objectives) The goal of this study is to investigate paracrine effect of peripheral blood mononuclear cells (PBMCs) on colon cancer cell lines. (Method) Transcription profiles of PBMCs (control) and PBMCs co-cultured with colon cancer cell lines (treatment) were generated by deep sequencing, in triplicate for SW480 and duplicate for HT29, using Illumina HiSeq 4000. (Results and conclusion) Transcriptome analysis of PBMCs has shown the gene expression changed when co-cultured with colon cancer cell lines. The result revealed significantly up- and down-regulated genes.

2020-12-31 | GSE110989 | GEO

Analysis of gene expression in co-culture of PBMCs with Head and Neck cancer cells line by High-Throughput Sequencing

Project description:(Objectives) The goal of this study is to investigate paracrine effect of Peripheral Blood Mononuclear Cells (PBMCs) on Head and Neck cancer cell lines. (Method) Transcription profiles of PBMCs (control) and PBMCs co-cultured with Head and Neck cancer cell lines (treatment) were generated by deep sequencing, in triplicate for HN17 and duplicate for HN4, using Illumina HiSeq 4000. (Results and conclusion) Transcriptome analysis of PBMCs has shown the gene expression changed when co-cultured with HN cell lines. The result revealed significantly down-regulated genes. On the other hand, up-regulated gene, ZCCHC6 were used to validated with qRT-PCR in HNSCC patient blood. The synopsis of this study demonstrates paracrine effect on PBMC of HNSCC patient to significantly up expression of ZCCHC6 gene when compared with healthy donors.

2020-12-31 | GSE110744 | GEO

Analysis of gene expression in co-culture of PBMCs with lung cancer cell lines by High-Throughput Sequencing

Project description:Objective: The goal of this study is to investigate paracrine effect of Peripheral Blood Mononuclear Cells (PBMCs) on lung cancer cell lines. Method: Transcription profiles of PBMCs (control) and PBMCs co-cultured with lung cancer cell lines (treatment) were generated by deep sequencing,in triplicate, using Illumina HiSeq 4000. Results and Conclusions: With demonstrating of RNA sequencing approach, PBMCs has been shown the gene expression changed when co-cultured with lung cancer cell lines. The result revealed that up-regulated genes were 8,073 and 8,070 genes co-cultured with A549 and H292, respectively. In the other hand, down-regulated genes were 8,341 and 8,342 genes co-cultured with A549 and H292, respectively. Comparing the data to expression array databases from lung cancer patients, up-regulated genes were shown 29 genes co-cultured with A549 and 37 genes with H292 which, among them, there were 2 genes, ANKRD37 and BUB3, found in both treatments. Down-regulated genes were found 24 and 35 genes in the co-culture of A549 an d H292, respectively, that no similar genes found in both treatments.

2021-12-31 | GSE112005 | GEO

Analysis of gene expression in co-culture of PBMCs with Hepatocellular carcinoma by High-Throughput Sequencing

Project description:Objectives: To characterize the transcripts profile of PBMCs when co-cultured with HCC cell lines using High-Throughput Sequencing and To validate the differentially expressed genes via quantitative reverse transcription polymerase chain reaction (qRT-PCR) in PBMCs of HCC pateints. Methods: Transcription profiles of PBMC (control) and PBMC co-cultured with liver cancer cell lines (treatment) were generated by deep sequencing, in triplicate, using Illumina Illumina HiSeq 4000. Results and conclusion: Transcriptome analysis of PBMCs has revealed the presence of biological process alterations when co-cultured with HCC cell lines and qRT-PCR validation have indicated that four genes were up-reglurated in HCC patients when compared with healthy donors including IL1b, INHBA, PLOD2, PRG4.

2021-01-05 | GSE108796 | GEO

Analysis of gene expression in co-culture of PBMCs with ovarian cancer cell lines by High-Throughput Sequencing

Project description:(Objectives) The goal of this study is to investigate paracrine effect of peripheral blood mononuclear cells (PBMCs) on ovarian cancer cell lines. (Methods) Transcription profiles of PBMC (control) and PBMC co-cultured with ovarian cancer cell lines (treatment) were generated by deep sequencing, in triplicate, using Illumina HiSeq X Ten. (Results and Conclusions) Transcriptome analysis of PBMCs has revealed the expression change when co-cultured with EOC cell lines with significantly in up-regulated genes; CDKN1B, GIMAP8 and SNN. The qRT-PCR validation have indicated that GIMAP8 was high expressed in EOC patients when compared with healthy female. We summarized that PBMCs were changed their expression as a result of paracrine signals from ovarian cancer cells.

2020-12-31 | GSE110745 | GEO

Characterization of macrophage - cancer cell crosstalk in estrogen receptor positive and triple-negative breast cancer

Project description:We performed whole transcriptome sequencing of human monocytes that were co-cultured with estrogen receptor positive (ER+) or triple-negative (TNBC) breast cancer cell lines and studied the biological responses related to the differential gene activation in both cell types to understand how different cancer cells educate host cells to support tumor growth To characterize the differences in macrophage activation under the influence of either ER+ or TNBC breast cancer cells, we cultured freshly isolated human peripheral monocytes with two breast cancer cell lines (T47D, ER+ and MDA-MB-231, TNBC) in an in vitro transwell co-culture assay. The transwell setting allowed us to investigate the effect of soluble mediators on macrophage activation since direct cell contact of these cells was inhibited by a (PET) membrane (pore size 0.4âÎ¼m).

2015-11-19 | E-GEOD-75130 | biostudies-arrayexpress

RNA-SEQ of humna lung and breast cancer cell lines

Project description:We cultured human lung and breast cancer cell lines, A549, H23, MDA-MB-231, MCF-7-TNR, and T47D cells. Total RNA was extracted and processed for RNA-SEQ.

2019-07-31 | GSE135112 | GEO

Gene expression of T47D-MTVL human breast cancer cells upon H1.4 knock-down or overexpression

Project description:Gene expression of T47D-MTVL human breast cancer cells expressing Dox-inducible shRNAs against histone H1.4 (sh120) or multiple H1 variants (sh225), or overexpressing WT or K26A mutant HA-tagged H1.4. T47D-MTVL, breast cancer cell line carrying one stably integrated copy of luciferase reporter gene driven by the MMTV promoter, is stably infected with an inducible system for the expression of shRNAs.Cells stably express RedFP and KRAB repressor fused to Tet regulator.Upon Dox treatment, cells express RedFP and the cloned shRNA. Stable breast cancer-derived cell lines expressing an shRNA against one of each of the histone H1 isoforms in response to doxycycline (Dox) were grown for six days in the presence or absence of Dox, in duplicate, and RNA extracted for microarray hybridization. Cell lines used: inducible shRNA against H1.4 or multiple H1 variants, and random shRNA-expression vector. Stable breast cancer-derived cell lines expressing the histone H1.4 isoform, WT or K26A, HA-tagged, in duplicate, and RNA extracted for microarray hybridization. Cell lines used: overexpressing H1.4 WT or K26A mutant.

2014-05-16 | E-GEOD-55786 | biostudies-arrayexpress

PBMCs from metastatic breast cancer patients

Project description:PBMCs from metastatic breast cancer patients

| PRJNA730015 | ENA

Support of a bi-faceted role of ERM-NM-2 in ERM-NM-1-positive breast cancer cells.

Project description:Comparison of the basal and estrogen-induced effects on genome-wide transcription in ERM-NM-1-positive breast cancer cell lines T47D and MCF7 after lentiviral transduction with ERM-NM-2. Comparison of ERM-NM-2-transduced T47D and MCF7 cells versus respective control-transduced cells, in the presence of vehicle or estrogen. Each comparison in technical and biological duplicate.

2013-11-21 | E-GEOD-45047 | 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