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Links from GEO DataSets

Items: 20

1.

Whole-genome DNA methylation profiling of 152 pediatric AML patients

(Submitter supplied) Genome-wide CpG-island methylation profiling on pediatric AML samples was performed to identify specific methylation patterns discriminating particular AML subgroups from the rest of AML samples based on the methylation profile.
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL9767
152 Samples
Download data: TXT
Series
Accession:
GSE100284
ID:
200100284
2.

Genetic and epigenetic instability suggest a regulated mechanism for osteosarcoma tumorigenesis

(Submitter supplied) Osteosarcomas (OS) arise more commonly during the rapid bone growth and remodeling, thus it is plausible to infer the relationship between their tumorigenesis and cell cycle disruption by genetic and epigenetic factors. Methylation data of 28 primary OS was obtained using the HM450K microarray, and compared with nine normal bone tissues. The tumor mutational burden was analyzed using data from the TruSight One sequencing panel. more...
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL13534
37 Samples
Download data: IDAT
Series
Accession:
GSE193000
ID:
200193000
3.

Gene expression profiling of the MLL-AF9 induced AML cells (wild type and Dnmt3b-KO)

(Submitter supplied) Acute myeloid leukemia (AML) is a heterogeneous hematopoietic disorder with a poor prognosis. Abnormal DNA methylation is involved in the initiation and development of AML. The de novo methyltransferases Dnmt3a and Dnmt3b are responsible for the generation of genomic methylation patterns. While DNMT3A is frequently mutated in hematologic malignancies, DNMT3B is rarely mutated. To investigate the role of Dnmt3b in AML, we genetically inactivated Dnmt3b in an MLL-AF9 induced AML mouse model. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL20775
6 Samples
Download data: CEL
Series
Accession:
GSE75401
ID:
200075401
4.

methylatedDNA_peripheralBlood

(Submitter supplied) The goal of the experiment – genome-wide profiling of DNA methylation reveals a class of normally methylated CpG island promoters Keywords: DNA methylation, Methylated CpG island amplification coupled with promoter arrays, normal tissue
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
4 related Platforms
4 Samples
Download data
Series
Accession:
GSE8810
ID:
200008810
5.

Gene expression and methylation profiling in primary AML cells treated with decitabine and cytarabine

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Methylation profiling by genome tiling array
Platforms:
GPL5188 GPL13534
115 Samples
Download data: CEL
Series
Accession:
GSE40871
ID:
200040871
6.

Transient low-dose decitabine treatment of primary AML samples

(Submitter supplied) Genome-wide DNA methylation profiling of primary AML samples treated with 100nM decitabine (DAC), cytarabine (AraC), or DMSO. Eight distinct AML samples were grown using an in vitro stromal co-culture system for 4 days and then treated with either DAC, Ara-C or DMSO for 3 days. DNA was prepared for genome-wide methylation analysis with the Illumina Infinium 450k Human DNA methylation BeadChip. DNA from each sample/treatment was analyzed on duplicate arrays.
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL13534
48 Samples
Download data: TXT
Series
Accession:
GSE40870
ID:
200040870
7.

Gene expression profiling in primary AML cells treated with decitabine and cytarabine

(Submitter supplied) Acute myeloid leukemia (AML), and other myeloid malignancies, are frequently treated with hypomethylating agents like decitabine. Alterations in the epigenome, induced by decitabine, are likely to result in gene expression changes. The effects of decitabine have not been systemically studied using primary AML samples.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL5188
67 Samples
Download data: CEL
Series
Accession:
GSE40442
ID:
200040442
8.

Increased DNA Methylation of Dnmt3b-Targets Impairs Leukemogenesis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing; Expression profiling by array
Platforms:
GPL16173 GPL16570
22 Samples
Download data: CEL, TXT
Series
Accession:
GSE71041
ID:
200071041
9.

Increased DNA Methylation of Dnmt3b-Targets Impairs Leukemogenesis (expression)

(Submitter supplied) Here, we analyzed global gene expression changes that were associated with over expression of Dnmt3b in MLL-AF9 induced leukemias using the Affymetrix microarray platform.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL16570
12 Samples
Download data: CEL
Series
Accession:
GSE71040
ID:
200071040
10.

Increased DNA Methylation of Dnmt3b-Targets Impairs Leukemogenesis (RRBS)

(Submitter supplied) The de novo DNA methyltransferases Dnmt3a and Dnmt3b are of crucial importance in hematopoietic stem cells, and Dnmt3b has recently been shown to play a role in genic methylation. Forced Dnmt3b expression induced widespread DNA hypermethylation in myc-bcl2 induced leukemias, especially at promoters and gene bodies of stem cell-related genes. MLL-AF9 induced leukemogenesis showed much less pronounced DNA hypermethylation upon Dnmt3b expression. more...
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL16173
10 Samples
Download data: TXT
Series
Accession:
GSE71039
ID:
200071039
11.

A Multicenter, First-in-Pediatrics, Randomized Study to Evaluate the Safety and Efficacy of Decitabine as Epigenetic Priming with Induction Chemotherapy in Children with Acute Myelogenous Leukemia

(Submitter supplied) Purpose: Decitabine is a deoxycytidine nucleoside derivative inhibitor of DNA-methyltransferases indicated for treatment of myelodysplastic syndrome (MDS). Laboratory evidence shows that pretreatment of AML cell lines can sensitize leukemia cells to chemotherapy and inhibit clonogenic potential. We conducted a randomized study of decitabine when used as priming before standard induction therapy in children with newly diagnosed acute myelogenous leukemia (AML) to evaluate the safety, pharmacokinetics, and any potential early efficacy signal. more...
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL13534
36 Samples
Download data: TXT
Series
Accession:
GSE78963
ID:
200078963
12.

Analysis of genome-wide methylation and gene expression induced by decitabine treatment in HL60 leukemia cell line

(Submitter supplied) Epigenetic changes play a role in the pathogenesis of myeloid malignancies and hypomethylating agents have shown efficacy in these diseases. We studied the apoptotic effect, the genome-wide methylation and gene expression profiles in HL60 cells following decitabine treatment, using micro-array technologies. Decitabine treatment resulted in a decrease in global DNA methylation, corresponding to 4876 probeset IDs with significantly reduced methylation levels, while expression of 2583 IDs was induced. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Methylation profiling by genome tiling array
Platforms:
GPL570 GPL5082
12 Samples
Download data: CEL, TXT
Series
Accession:
GSE24224
ID:
200024224
13.

Genome wide DNA methylation and expression profiling of Epstein-Barr virus infected immortalized normal oral keratinocytes

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Methylation profiling by high throughput sequencing
Platforms:
GPL570 GPL16791
18 Samples
Download data: BED, CEL, CHP, CSV
Series
Accession:
GSE59843
ID:
200059843
14.

Genome wide DNA methylation of Epstein-Barr virus infected immortalized normal oral keratinocytes

(Submitter supplied) The oral cavity is the persistent reservoir for EBV with lifelong infection of resident epithelial and B cells. Infection of these cell types results in distinct EBV gene expression patterns that are regulated by epigenetic modifications involving DNA methylation and chromatin structure. Such regulation of EBV gene expression relies on viral manipulation of the host epigenetic machinery that may inadvertently result in long-lasting, oncogenic host epigenetic reprogramming. more...
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL16791
6 Samples
Download data: BED, CSV
Series
Accession:
GSE59842
ID:
200059842
15.

Expression data from Epstein-Barr virus infection of immortalized normal oral keratinocytes

(Submitter supplied) The oral cavity is the persistent reservoir for EBV with lifelong infection of resident epithelial and B cells. Infection of these cell types results in distinct EBV gene expression patterns that are regulated by epigenetic modifications involving DNA methylation and chromatin structure. Such regulation of EBV gene expression relies on viral manipulation of the host epigenetic machinery that may inadvertently result in long-lasting, oncogenic host epigenetic reprogramming. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
12 Samples
Download data: CEL, CHP
Series
Accession:
GSE58914
ID:
200058914
16.

Aza treated AML3 cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing
Platforms:
GPL11154 GPL10999
10 Samples
Download data: BIGWIG, TXT
Series
Accession:
GSE55125
ID:
200055125
17.

Genome-wide methylation maps for untreated and Aza treated AML3 cells

(Submitter supplied) AML3 cells were treated with Azacytidine and compared against untreated cells
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL11154
4 Samples
Download data: BIGWIG, TXT
Series
Accession:
GSE55124
ID:
200055124
18.

Expression data from untreated and Aza treated AML3 cells

(Submitter supplied) AML3 cells were treated with Azacytidine and compared against untreated cells
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL10999
6 Samples
Download data: BIGWIG
19.

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below. DNA methylation is an epigenetic modification associated with transcriptional repression of promoters and is essential for mammalian development. Establishment of DNA methylation is mediated by the de novo DNA methyltransferases DNMT3A and DNMT3B, whereas DNMT1 ensures maintenance of methylation through replication. Absence of these enzymes is lethal, and somatic mutations in these genes have been associated with several human diseases. more...
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL16417
21 Samples
Download data: TAB, WIG
Series
Accession:
GSE57413
ID:
200057413
20.

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation [ChIP-Seq]

(Submitter supplied) DNA methylation is an epigenetic modification associated with transcriptional repression of promoters and is essential for mammalian development. Establishment of DNA methylation is mediated by the de novo DNA methyltransferases DNMT3A and DNMT3B, whereas DNMT1 ensures maintenance of methylation through replication. Absence of these enzymes is lethal, and somatic mutations in these genes have been associated with several human diseases. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
15 Samples
Download data: WIG
Series
Accession:
GSE57412
ID:
200057412
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