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Links from GEO DataSets

Items: 20

1.

DNA methylation in infant ALL

(Submitter supplied) The aggressive MLL-rearranged leukemias are well-known for their unique gene-expression profiles. The goal of this study was to characterize the MLL-specific DNA methylation profiles in infant acute lymphoblastic leukemia (ALL). Genome-wide DNA methylation profiling was performed on primary infant ALL samples. The majority of infant ALL samples demonstrated severe DNA hypermethylation compared with normal pediatric bone marrows, which implies that targeting of DNA methylation may be an interesting option for future therapeutic strategies in MLL-rearranged infant ALL. more...
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL4126
60 Samples
Download data: TXT
Series
Accession:
GSE18400
ID:
200018400
2.

Gene expression data from infants (<1 year of age) diagnosed with Acute Lymphoblastic Leukemia (ALL)

(Submitter supplied) Acute Lymphoblastic Leukemia (ALL) in infants (<1 year) is characterized by a poor prognosis and a high incidence of MLL translocations. Several studies demonstrated the unique gene expression profile associated with MLL-rearranged ALL, but generally small cohorts were analyzed as uniform patient groups regardless of the type of MLL translocation, while the analysis of translocation-negative infant ALL remained unacknowledged.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
73 Samples
Download data: CEL
Series
Accession:
GSE19475
ID:
200019475
3.

Expression data from ALL samples for patients included in the Dutch Childhood Oncology Group

(Submitter supplied) Childhood acute lymphoblastic leukemia (ALL) comprises a large group of genetic subtypes with a favorable prognosis characterized by a TEL-AML1-fusion, hyperdiploidy (>50 chromosomes) or E2A-PBX1 fusion and a smaller group with unfavorable outcome characterized by either a BCR-ABL-fusion, MLL-rearrangement or T-ALL. About 25% of precursor B-ALL are currently genetically unclassified and have an intermediate prognosis. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
107 Samples
Download data: CEL, CHP
Series
Accession:
GSE13351
ID:
200013351
4.

Promoter hypermethylation in MLL-r leukemia: biology and therapeutic targeting

(Submitter supplied) MLL-r infant acute lymphoblastic leukemia (ALL) has largely unclear oncogenesis. It has been shown unrelated to copy number change or mutations in the tyrosine kinome. We therefore, explored the possible role of genome wide CpG island hypermethylation in MLL-r infant ALL. We employed the HpaII-tiny fragment Enrichment by Ligation-mediated PCR (HELP) assay to examine MLL-r infant leukemia samples (n=5), other common childhood ALL (n=5) and normals (n=5). more...
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL6604
15 Samples
Download data: PAIR
Series
Accession:
GSE19671
ID:
200019671
5.

Gene expression data from children diagnosed with ALL in vitro sensitive or resistant to prednisolone

(Submitter supplied) Although the prognosis for childhood Acute Lymphoblastic Leukemia (ALL) in general has improved tremendously over the last decades, the survival chances for infants (<1 year of age) with ALL remains poor. A major obstacle hampering successful treatment results in infant ALL is cellular resistance to several drugs currently used in the treatment of ALL, especially to prednisolone (or prednisone). Therefore we set out to search for genes differentially expressed between from infant (children <1 year of age) and non-infant (children >1 year of age) ALL samples either resistant or sensitive to prednisolone.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL96
52 Samples
Download data: CEL, CHP
Series
Accession:
GSE19143
ID:
200019143
6.

HOXA9 is required for survival in human MLL rearranged acute leukemias

(Submitter supplied) Leukemias that harbor translocations involving the mixed lineage leukemia gene (MLL) possess unique biological characteristics and often have an unfavorable prognosis. Gene expression analyses demonstrate a distinct profile for MLL-rearranged leukemias with consistent high-level expression of select Homeobox genes including HOXA9. Here, we investigated the effects of HOXA9 suppression in MLL-rearranged and MLL-germline leukemias utilizing RNAi. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL571
12 Samples
Download data: CEL
Series
Accession:
GSE13714
ID:
200013714
7.

Zinc finger protein 521 overexpression is a feature of MLL-rearranged acute myeloid leukemia and contributes to the maintenance of myeloid differentiation block

(Submitter supplied) ZNF521 is a multiple zinc finger transcription factor previously identified because abundantly and selectively expressed in normal CD34+ hematopoietic stem and progenitor cells. From microarray datasets, aberrant expression of ZNF521 has been reported in both pediatric and adult acute myeloid leukemia (AML) patients with MLL gene rearrangements. However, a proper validation of microarray data is lacking, likewise ZNF521 contribution in MLL-rearranged AML is still uncertain. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
6 Samples
Download data: CEL
Series
Accession:
GSE79110
ID:
200079110
8.

Gene expression data from obatoclax-treated SEM-K2 and RS4:11 cell lines

(Submitter supplied) Effects of the pan-anti-apoptotic BCL-2 family small molecule inhibitor, obatoclax mesylate (GeminX Pharmaceuticals), on gene expression were evaluated by microarray analysis in order to gain insights into the killing mechanism by this compound in two human MLL-AF4 cell lines. The results of the gene expression profiling substantiated other lines of evidence derived from genetic and chemical cell death pathway inhibition, Western blot analysis, flow cytometric apoptosis assays, and electron microscopic analyses, showing triple apoptosis, autophagy, and necroptosis death pathway activation by this agent. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
12 Samples
Download data: CEL
Series
Accession:
GSE36149
ID:
200036149
9.

In vitro prednisolone resistance signature in MLL-rearranged infant ALL

(Submitter supplied) Acute Lymphoblastic Leukemia (ALL) in infants (<1 year of age) is characterized by a high incidence of MLL translocations which is associated with a poor prognosis. Contributing to this poor prognosis is cellular drug resistance, especially to glucocorticoids like prednisolone. Although in vitro prednisolone resistance mechanisms have been proposed in pediatric ALL, it has never been studied in MLL-rearranged infant ALL, which are highly resistant to glucocorticoids in vitro and in vivo.
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS4297
Platform:
GPL570
43 Samples
Download data: CEL
Series
Accession:
GSE32962
ID:
200032962
10.
Full record GDS4297

MLL-rearranged infant acute lymphoblastic leukemia in vitro resistant to prednisolone

Analysis of primary MLL-rearranged ALL samples (>90% leukemic blasts) from untreated infants. In vitro prednisolone sensitivity was assessed by a 4day cytotoxicity (MTT) assay. Results provide insight into the molecular basis of glucocorticoid resistance in MLL-rearranged infant ALL patients.
Organism:
Homo sapiens
Type:
Expression profiling by array, transformed count, 2 disease state sets
Platform:
GPL570
Series:
GSE32962
43 Samples
Download data: CEL
DataSet
Accession:
GDS4297
ID:
4297
11.

BCL6 represents a therapeutic target in E2A-PBX1 and MLL-rearranged acute lymphoblastic leukemia

(Submitter supplied) We used ChIPseq to identify target genes of BCL6 that are involved in leukemogenesis of E2A-PBX1 and MLL-AF4 pre-B ALL.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11154
12 Samples
Download data: BIGBED, BIGWIG
Series
Accession:
GSE59541
ID:
200059541
12.

RUNX1 is a key target gene in t(4;11) leukemias and contributes to gene activation by interacting with the AF4-MLL complex

(Submitter supplied) The Mixed Lineage Leukemia 1 protein (MLL1) is an important epigenetic regulator required for the maintenance of gene activation during development. MLL1 chromosome translocations produce novel fusion proteins that cause aggressive leukemias in humans. Individual MLL1 fusion proteins have distinct leukemic phenotypes even when expressed in the same cell type, but how this distinction is delineated on a molecular level is poorly understood. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11154
2 Samples
Download data: BIGBED, BIGWIG
Series
Accession:
GSE42075
ID:
200042075
13.

The HDAC inhibitor Panobinostat (LBH589) exerts in vivo anti-leukaemic activity against in MLL-rearranged Acute Lymphoblastic Leukaemia and involves the RNF20/RNF40/WAC – H2B ubiquitination axis

(Submitter supplied) We demonstrate the in vivo efficacy of the histone deacetylase inhibitor Panobinostat (LHB589) against MLL-rearranged ALL using xenograft mouse models of MLL-rearranged ALL cell lines and primary patient cells. Panobinostat monotherapy showed strong anti-leukaemic effects, extending survival and reducing overall disease burden. Comprehensive molecular analyses in vitro showed the anti-leukaemic activity in MLL-rearranged ALL to involve depletion of H2B ubiquitination via suppression of the RNF20/RNF40/WAC E3 ligase complex.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
32 Samples
Download data: CEL
Series
Accession:
GSE78234
ID:
200078234
14.

Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in Acute Myeloid Leukemia

(Submitter supplied) Here we used Illumina NGS for high-throughput profiling of the DNA methylome in two human colon cancer derived cell lines, two human normal bone marrow CD34+ controls and in five human Acutre Myeloid Leukeima patient samples. These data can be used to determine the CpG cytosine methylation pattern at base pair resolution in each sample and to determine differentially methylated cytosines and regions between samples
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platforms:
GPL10999 GPL11154
19 Samples
Download data: TXT
Series
Accession:
GSE37454
ID:
200037454
15.

DNA Methylation Potential Energy Landscape Analysis of MLL-rearranged Acute Myeloid Leukemia (AML) and Normal hematopoietic precursors [WGBS]

(Submitter supplied) Acute myeloid leukemia (AML) carrying MLL rearrangements. We applied WGBS and the informME analysis pipeline to investigate the role of DNA methylation stochasticity in MLL-rearranged AML.
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL20301
15 Samples
Download data: BED
Series
Accession:
GSE135869
ID:
200135869
16.

Expression data from infant ALL with MLL-AF4 rearrangement

(Submitter supplied) MLL-AF4+ blasts from infant B-ALL, CB-derived CD34+CD38-CD19-CD33- HSC, CB-derived CD34+CD19+CD33- B-cell HPCs and CB-derived CD34+CD33+CD19- myeloid HPCs. We used microarray to estudy gene expression profile comparing ALL vs HSC, HPC and myeloid HPSC.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
12 Samples
Download data: CEL
Series
Accession:
GSE79450
ID:
200079450
17.

MicroRNAs characterize genetic diversity and drug resistance in pediatric acute lymphoblastic leukemia

(Submitter supplied) MicroRNAs (miRNAs) regulate activity of protein-coding genes including those involved in hematopoietic cancers. The goal of the current study was to explore which miRNAs are unique for seven different subtypes of pediatric acute lymphoblastic leukemia (ALL). Therefore, the expression levels of 397 miRNAs (including novel miRNAs) were measured by quantitative RT-PCR in 81 pediatric leukemia cases and 17 normal hematopoietic control cases. more...
Organism:
Homo sapiens
Type:
Other
Platforms:
GPL10708 GPL10709
196 Samples
Download data: TXT
Series
Accession:
GSE23024
ID:
200023024
18.

Promoter DNA methylation pattern identifies prognostic subgroups in childhood T-cell acute lymphoblastic leukemia

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Methylation profiling by array
Platforms:
GPL10558 GPL8490
68 Samples
Download data
Series
Accession:
GSE42080
ID:
200042080
19.

Genome wide methylation array analysis in T-ALL

(Submitter supplied) In short: Genome wide promoter DNA methylation profiling of 43 T-ALL samples and 5 T-cell controls (normal bone marrow and stimulated T-cells) . The Illumina Infinium 27k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 27,000 CpGs. Manuscript abstract: Background: Treatment of pediatric T-cell acute lymphoblastic leukemia (T-ALL) has improved, but there is a considerable fraction of patients experiencing a poor outcome. more...
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL8490
48 Samples
Download data: TXT
Series
Accession:
GSE42079
ID:
200042079
20.

Genome wide gene expression array analysis in T-ALL

(Submitter supplied) In short: The objective with the gene expression array (Illumina HT-12 v.4) analysis of 17 T-ALL samples was to correlate gene expression levels with DNA promoter methylation status. Manuscript Abstract: Background: Treatment of pediatric T-cell acute lymphoblastic leukemia (T-ALL) has improved, but there is a considerable fraction of patients experiencing a poor outcome. There is a need for better prognostic markers and aberrant DNA methylation is a candidate in other malignancies, but its potential prognostic significance in T-ALL is hitherto undecided. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
20 Samples
Download data: TXT
Series
Accession:
GSE41621
ID:
200041621
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