Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-GEOD-12734

ABSTRACT: Transcription profiling by array of peripheral blood from human chronic lymphocytic leukemia patients expressing high or low levels of ZAP70 mRNA

OTHER RELATED OMICS DATASETS IN: PRJNA112641

PROVIDER: E-GEOD-12734 | ExpressionAtlas | 2015-08-28

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-GEOD-12734-analysis-methods.tsv	Tabular
	E-GEOD-12734-atlasExperimentSummary.Rdata	Rdata
	E-GEOD-12734-configuration.xml	Xml
	E-GEOD-12734-percentile-ranks.tsv	Tabular
	E-GEOD-12734.condensed-sdrf.tsv	Tabular

Items per page:

1 - 5 of 49

Similar Datasets

Nanda2013 - B cell chronic lymphocytic leukemia A model with immune response

Project description:B cell chronic lymphocytic leukemia - A model with immune response Seema Nanda 1, , Lisette dePillis 2, and Ami Radunskaya 3, 1. Tata Institute of Fundamental Research, Centre for Applicable Mathematics, Bangalore 560065, India 2. Department of Mathematics, Harvey Mudd College, Claremont, CA 91711 3. Department of Mathematics, Pomona College, Claremont, CA, 91711, United States Abstract B cell chronic lymphocytic leukemia (B-CLL) is known to have substantial clinical heterogeneity. There is no cure, but treatments allow for disease management. However, the wide range of clinical courses experienced by B-CLL patients makes prognosis and hence treatment a significant challenge. In an attempt to study disease progression across different patients via a unified yet flexible approach, we present a mathematical model of B-CLL with immune response, that can capture both rapid and slow disease progression. This model includes four different cell populations in the peripheral blood of humans: B-CLL cells, NK cells, cytotoxic T cells and helper T cells. We analyze existing data in the medical literature, determine ranges of values for parameters of the model, and compare our model outcomes to clinical patient data. The goal of this work is to provide a tool that may shed light on factors affecting the course of disease progression in patients. This modeling tool can serve as a foundation upon which future treatments can be based. Keywords: NK cell, chronic lymphocytic leukemia, mathematical model, T cell., B-CLL.

2020-01-09 | MODEL2001090002 | BioModels

Homo sapiens

Project description:Comparison of Chronic Lymphocytic Leukemia patients expressing high or low levels of ZAP70 mRNA

| PRJNA112641 | ENA

Comparison of Chronic Lymphocytic Leukemia patients expressing high or low levels of ZAP70 mRNA

Project description:Comparison of Chronic Lymphocytic Leukemia patients expressing high or low levels of ZAP70 mRNA: prognostic factors and interaction with the microenvironment. Zeta-associated protein 70 (ZAP70) is a widely recognized prognostic factor in chronic lymphocytic leukemia (CLL), but mechanisms by which its higher expression leads to a poor outcome remain to be fully explained. In an attempt to unveil unfavorable cellular properties linked to high ZAP70 expression, we used gene expression profiling to identify genes associated with disparities in B-cells from CLL patients expressing high versus low ZAP70 mRNA, measured by quantitative real-time PCR. Keywords: comparison of poor and good prognosis CLL patient transcriptome regarding ZAP70 expression

2009-04-18 | GSE12734 | GEO

Transcription profiling of human chronic lymphocytic leukemia patients expressing high or low levels of ZAP70 mRNA

Project description:Comparison of Chronic Lymphocytic Leukemia patients expressing high or low levels of ZAP70 mRNA: prognostic factors and interaction with the microenvironment. Zeta-associated protein 70 (ZAP70) is a widely recognized prognostic factor in chronic lymphocytic leukemia (CLL), but mechanisms by which its higher expression leads to a poor outcome remain to be fully explained. In an attempt to unveil unfavorable cellular properties linked to high ZAP70 expression, we used gene expression profiling to identify genes associated with disparities in B-cells from CLL patients expressing high versus low ZAP70 mRNA, measured by quantitative real-time PCR. Experiment Overall Design: Two groups of seven CLL patients were compared, selected on the basis of either high or low ZAP70 mRNA expression. Total RNA from CD19+ purified cells was exctracted and hybidyzed on Affymetrix GeneChipÃÂ® Human Genome U133 Plus 2.0 Array. Amplification, hybridization and scanning were done according to standard Affymetrix protocols (www.affymetrix.com). CEL files were ,normalized with RMA method.

2009-04-25 | E-GEOD-12734 | biostudies-arrayexpress

Genomic profiling of typical and atypical chronic lymphocytic leukemia patients using Agilent Whole Human Genome microarrays

Project description:Deciphering typical and atypical chronic lymphocytic leukemia genomics. DNA was isolated from peripheral blood leucocyte samples of each patient using the QIAamp kit in order to compare typical and atypical chronic lymphocytic leukemia patients using Agilent Whole Human Genome 44K and 244K microarrays.

2011-10-19 | E-GEOD-24823 | biostudies-arrayexpress

Gene expression profile after dexamethasone in chronic lymphocytic leukemia cells according to IGHV/ZAP-70 status

Project description:Glucocorticoids are part of the therapeutic armamentarium of chronic lymphocytic leukemia where it has been suggested that cells with unmutated IGHV genes exhibit higher sensitivity. The mechanisms by which glucorticoids are active in CLL are not well elucidated. We used microarrays to detail the global programme of gene expression underlying dexamethasone differential activity according to the prognostic subgroups mutated IGHV genes / low ZAP-70 expression and unmutated IGHV genes / high ZAP-70 expression. We aimed to ascertain the molecular mechanisms that are influencing the diffferential response to this drug. Peripheral blood mononuclear cells from chronic lymphocytic leukemia patients were obtained. Samples were split in two for control and incubation with dexamethasone for 6 hours. RNA was extracted and processed for further hybridization on Affymetrix microarrays.

2012-12-04 | E-GEOD-33135 | biostudies-arrayexpress

To compare gene signature of CLL cells from patients with high versus low lymphocyte counts

Project description:In chronic lymphocytic leukemia (CLL) the increment in peripheral blood lymphocytes is slower than the expected increment calculated from the cells’ proliferation rate, suggesting that cellular proliferation and apoptosis are concurrent. Exploring this phenomenon, we found overexpression of caspase3, higher cleaved poly (ADP-ribose) polymerase (PARP) levels (P <0.007), and a higher apoptosis rate in cells from patients with high counts compared with cells from patients with low counts. Although we previously found that signal transducer and activator of transcription 3 (STAT3) protects CLL cells from apoptosis, STAT3 levels were significantly higher in cells from patients with high counts than in cells from patients with low counts. Furthermore, overexpression of STAT3 in MM-1 cells did not protect the cells. Rather, it upregulated caspase3 and induced apoptosis. Remarkably, putative STAT3 binding sites were identified in the caspase3 promoter and a luciferase assay, chromatin immunoprecipitation (ChIP), and an electromobility shift assay (EMSA) revealed that STAT3 activated caspase3. However, caspase3 levels increased only when STAT3 levels were sufficiently high. Using ChIP and EMSA, we found that STAT3 binds with low affinity to the caspase3 promoter, suggesting that at high levels, STAT3 activates a negative proapoptotic feedback mechanism. 4 samples from patients with high-count CLL were compared to 4 samples from patients with low-count CLL

2015-05-12 | E-GEOD-68721 | biostudies-arrayexpress

Treatment of chronic lymphocytic leukemia cells with signaling inhibitors

Project description:To identify the molecular targets of treatment, we studied gene expression profile of primary chronic lymphocytic leukemia (CLL) cells isolated from the peripheral blood of CLL patients and treated in vitro with two distinct signaling inhibitors: 1) Dimethyl fumarate targeting inflammatory pathways 2) VIVIT peptide targeting NFAT transcription factor activation.

2024-03-14 | GSE245432 | GEO

Transcription profiling of human blood from chronic lymphocytic leukemia patients before and after Fludarabine treatment

Project description:Transcription profiling of blood from human chronic lymphocytic leukemia patients before and after Fludarabine treatment

2010-09-01 | E-TABM-825 | biostudies-arrayexpress

MiRNA expression in chronic lymphocytic leukemia

Project description:MiRNA expression is known to be deregulated in chronic lymphocytic leukemia (CLL). To get insight into miRNA expression pattern in CLL, we compaired miRNA expression profiling of peripheral blood-derived CLL cells and the healthy donor, peripheral blood-derived B-lymphocytes. A set of differentially expressed miRNAs was revealed.

2012-05-02 | GSE31599 | 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