Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

10 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Array comparative genomic hybridization data from 313 CLL specimens to study outcome associations

ABSTRACT: This study investigates genomic imbalance in chronic lymphocytic leukemia (CLL) and aims to identify genomic gains and losses with prognostic significance. Two-condition experiment, Test CLL specimens vs. Reference human genome DNA equimixture of normal male and normal female.

ORGANISM(S): Homo sapiens

SUBMITTER: Jane Houldsworth

PROVIDER: E-GEOD-40834 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Array comparative genomic hybridization data from 313 CLL specimens to study outcome associations

Project description:This study investigates genomic imbalance in chronic lymphocytic leukemia (CLL) and aims to identify genomic gains and losses with prognostic significance.

2013-09-07 | GSE40834 | GEO

Epigenetic regulation of miRNA in CLL

Project description:This SuperSeries is composed of the following subset Series: GSE33304: Epigenetic regulation of miRNA in CLL [ChIP_hsa_miRNA_v2] GSE33305: Epigenetic regulation of miRNA in CLL [ChIP_hsa_miRNA_v3b] GSE33623: Epigenetic regulation of miRNA in CLL [MCIp_hsa_miRNA_v3b] Refer to individual Series

2012-05-30 | E-GEOD-33347 | biostudies-arrayexpress

CLL Patients

Project description:Genomic profiles of CLL (Chronic Lymphocytic Leukemia) patients. 11 CLL patients were selected for detection of genomic aberrations, 8 patients with atypical CLL and 3 patients with typical CLL. Patient's DNA were hybridized against Promega control on Agilent G4410A arrays and scanned with the Agilent G2505B scanner.

2010-05-18 | E-GEOD-19458 | biostudies-arrayexpress

Epigenetic regulation of miRNA in CLL [MCIp_hsa_miRNA_v3b]

Project description:Genome-wide profiling of DNA methylation 35 kb upstream and 5 kb downstream of microRNAs in 24 CLL patients and B cells of 2 healthy donors versus a pool of 10 healthy donors. 26 samples total (24 CLL B cell samples and 2 healthy donor B cell samples) were hybridized against a pool of 10 healthy donor B cell samples.

2012-05-30 | E-GEOD-33623 | biostudies-arrayexpress

Epigenetic regulation of miRNA in CLL [ChIP_hsa_miRNA_v2]

Project description:Genome-wide profiling of histone 3 lysine 4 trimethylation is used for identification of microRNA transcriptional start sites. Various cell types allow a broad range detection of putative promoters rather independent of tissue specific expression patterns. These data are used for identification of aberrant epigenetic regulation at the respective regions. 5 samples total: 1 primary CLL sample, 1 CLL related cell line -/+ 5-aza-2M-bM-^@M-^Y-deoxycytidine (DAC) treatment (Granta-519), myeloid cell line Kasumi-1 (-/+ 5-aza-2M-bM-^@M-^Y-deoxycytidine treatment); H3K4me3 enriched vs. Input

2012-05-30 | E-GEOD-33304 | biostudies-arrayexpress

Epigenetic regulation of miRNA in CLL [ChIP_hsa_miRNA_v3b]

Project description:Genome-wide profiling of histone 3 lysine 4 trimethylation is used for identification of microRNA transcriptional start sites. Various cell types allow a broad range detection of putative promoters rather independent of tissue specific expression patterns. These data are used for identification of aberrant epigenetic regulation at the respective regions. 11 samples total: 3 primary B-cell samples (1 chronic lymphocytic leukemia [CLL] and 2 healthy controls), 2 CLL related cell lines -/+ 5-aza-2M-bM-^@M-^Y-deoxycytidine (DAC) treatment (Mec-1, EHEB), T-lymphoid cell line JURKAT, myeloid cell line HL-60, colon cancer cell line HCT-116 wild type and double knock out; H3K4me3 enriched vs. input

2012-05-30 | E-GEOD-33305 | biostudies-arrayexpress

T-Cells from CLL patients

Project description:T cells may have a role in sustaining the leukemic clone in chronic lymphocytic leukemia (CLL). In this study, we have examined the ability of T cells from CLL patients to support the survival of the leukemic B cells in vitro. Additionally, we compared global gene expression of T cells from indolent CLL patients with healthy individuals and multiple myeloma (MM) patients. Apoptosis of purified CLL cells was inhibited in vitro when cocultured with increasing numbers of autologous T cells (p<0.01) but not with normal donors. The anti-apoptotic effect exceeded that of the antiapoptotic cytokine IL-4 (p=0.02) and was greater with CD8+ T cells than with CD4+ cells (p<0.05). The effect depended mainly on cell-cell contact although a significant effect was observed in transwell experiments (p<0.05). Additionally, about 356 genes involved in different cellular pathways were deregulated in T cells of CLL patients compared to healthy individuals and MM patients. The results of gene expression profiling was verified for 7 genes (KLF6, TRAF1, CCL4, CCL5, RANTES, XCL1 and XCL2) using qRT-PCR and immunoblotting. Our results demonstrate that CLL-derived T cells can prevent apoptosis of leukemic cells and have altered expression of genes that may facilitate survival of the leukemic clone. Peripheral blood was collected by venipuncture from CLL patients, multiple myeloma (MM) patients and age-matched healthy individuals with informed consent and approval of the local Ethics Committee in keeping with the Helsinki declaration on the use of human subjects for research.

2011-03-23 | E-GEOD-28107 | biostudies-arrayexpress

CLL Patients

2009-12-16 | GSE19458 | GEO

Gene expression study in WT and NOTCH1 mutated CLL cells.

Project description:Stabilizing mutations of NOTCH1 have been identified in about 10% of chronic lymphocytic leukemia (CLL) cases at diagnosis, with a higher frequency in unmutated IGHV (IGHV-UM) CLL, chemorefractory CLL and CLL in advanced disease phases. Clinically, the presence of NOTCH1 mutations is an independent predictor of overall survival in CLL and associates with resistance to anti-Cd20 immunotherapy. The Gene Expression Profile was generated to identify the peculiar molecular signatures of NOTCH1 mutated CLL in the context of IGHV-UM CLL. Constitutive gene expression in CLL cells bearing or not NOTCH1 mutation (c.7541_7542delCT). Five samples were selected for each category (WT vs MUT).

2016-03-01 | E-GEOD-75122 | biostudies-arrayexpress

Integrated proteomic and phosphoproteomic analysis reveal novel targets and suggest rationale for ibrutinib efficacy in UM-CLL

Project description:n order to decipher the underlying mechanisms we aimed to analyze and compare the global phosphoproteome of UM-CLL and M-CLL cells.

2022-01-14 | PXD016421 | Pride

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