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Links from GEO DataSets

Items: 20

1.
Full record GDS4893

Heart response to isocitrate dehydrogenase 2 mutations IDH2R140Q and IDH2R172K

Analysis of hearts from transgenics with conditionally-activated isocitrate dehydrogenase 2 mutant (IDH2) R140Q and R172K alleles. Mutant IDH2 causes cardiomyopathy and neurodegeneration. Results provide insight into molecular mechanisms underlying the cardiac defects associated with IDH2 mutations.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 3 genotype/variation sets
Platform:
GPL6246
Series:
GSE54838
12 Samples
Download data: CEL
2.

D-2-Hydroxyglutarate produced by mutant IDH2 causes cardiomyopathy and neurodegeneration in mice

(Submitter supplied) Mutations in isocitrate dehydrogenase 1 and 2 (IDH1/2) have been discovered in several cancer types and cause the neurometabolic syndrome D2-Hydroxyglutaric aciduria (D2HGA). The mutant enzymes exhibit neomorphic activity resulting in production of D2- hydroxyglutaric acid (D-2HG). To study the pathophysiological consequences of the accumulation of D2-HG, we generated transgenic mice with conditionally activated IDH2R140Q and IDH2R172K alleles. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS4893
Platform:
GPL6246
12 Samples
Download data: CEL
Series
Accession:
GSE54838
ID:
200054838
3.

Expression from hemocytes misexpressing Idh-R195H vs. controls

(Submitter supplied) Expression profile for hemocytes from hml-Gal4, UAS-2xEGFP larvae were compared to hemocytes from hml-Gal4, UAS-2xEGFP; UAS-Idh-R195H larvae
Organism:
Drosophila melanogaster
Type:
Expression profiling by array
Platform:
GPL1322
6 Samples
Download data: CEL
Series
Accession:
GSE62008
ID:
200062008
4.

Induction of sarcomas by mutant IDH2

(Submitter supplied) More than 50% of patients with chondrosarcomas exhibit gain-of-function mutations in either isocitrate dehydrogenase 1 (IDH1) or IDH2. In this study, we performed genome-wide CpG methylation sequencing of chondrosarcoma biopsies and found that IDH mutations were associated with DNA hypermethylation at CpG islands but not other genomic regions. Regions of CpG island hypermethylation were enriched for genes implicated in stem cell maintenance/differentiation and lineage specification. more...
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL11154
27 Samples
Download data: TXT
Series
Accession:
GSE50539
ID:
200050539
5.

Global mouse gene expression data from Idh2R140Q/NHD13 DN1/DN2 T-ALL, SCL/LMO1 non-DN1/DN2 T-ALL, and Wild Type samples assessed by oligonucleotide microarrays

(Submitter supplied) Mutations in the isocitrate dehydrogenase 1 (IDH1) and IDH2 genes are frequently observed in a wide variety of hematologic malignancies, including myeloid and T-cell leukemias. In this study, we generated Idh2R140Q transgenic mice to examine the role of the Idh2R140Q mutation in leukemia. No leukemia developed in Idh2R140Q transgenic mice, suggesting a need for additional genetic events for leukemia development. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
18 Samples
Download data: CEL, XLSX
Series
Accession:
GSE181007
ID:
200181007
6.

The IDH2 mutation cooperates with the NPM1 mutation to activate Hoxa9/Meis1 and hypoxia pathways in acute myeloid leukemia

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Methylation profiling by high throughput sequencing
Platforms:
GPL13112 GPL6246
22 Samples
Download data: BED, CEL
Series
Accession:
GSE63638
ID:
200063638
7.

The IDH2 mutation cooperates with the NPM1 mutation to activate Hoxa9/Meis1 and hypoxia pathways in acute myeloid leukemia (MeDip-seq)

(Submitter supplied) Mutations in IDH1 and IDH2 are frequently observed in various cancers, including acute myeloid leukemia (AML). Mutant IDHs convert α-ketoglutarate (α-KG) to 2-hydroxyglutarate (2-HG), which dysregulates a set ofα-KG-dependent dioxygenases. To determine whether mutant IDHs are valid targets for cancer therapy, we established a mouse AML model harboring an IDH2 mutation by transplanting mice with nucleophosmin1 (NPM1)+/- mouse hematopoietic stem/progenitor cells that had been co-transduced with four mutant genes (NPMc, IDH2/R140Q, DNMT3A/R882H and FLT3/ITD) that frequently occur simultaneously in human AML patients. more...
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL13112
3 Samples
Download data: BED
Series
Accession:
GSE63635
ID:
200063635
8.

The IDH2 mutation cooperates with the NPM1 mutation to activate Hoxa9/Meis1 and hypoxia pathways in acute myeloid leukemia (expression)

(Submitter supplied) Mutations in IDH1 and IDH2 are frequently observed in various cancers, including acute myeloid leukemia (AML). Mutant IDHs convert α-ketoglutarate (α-KG) to 2-hydroxyglutarate (2-HG), which dysregulates a set ofα-KG-dependent dioxygenases. To determine whether mutant IDHs are valid targets for cancer therapy, we established a mouse AML model harboring an IDH2 mutation by transplanting mice with nucleophosmin1 (NPM1)+/- mouse hematopoietic stem/progenitor cells that had been co-transduced with four mutant genes (NPMc, IDH2/R140Q, DNMT3A/R882H and FLT3/ITD) that frequently occur simultaneously in human AML patients. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6246
19 Samples
Download data: CEL
Series
Accession:
GSE63618
ID:
200063618
9.

DNA methylation changes induced by overexpression of IDH1mut or treatment with 2HG in the sorted mouse bone marrow cells

(Submitter supplied) Mutations in the enzymes IDH1 and IDH2 have been identified in a wide variety of tumors like glioma, chondrosarcoma, thyroid cancer, lymphoma, melanoma, and in acute myeloid leukemia. Mutated IDH1/2 produces the metabolite 2-hydroxyglutarate (2HG), which interferes with epigenetic regulation of gene expression, and thus may promote tumorigenesis.
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL16173
6 Samples
Download data: TXT
Series
Accession:
GSE77828
ID:
200077828
10.

Gene expression changes induced by overexpression of IDH1mut and treatment with 2HG in the sorted mouse bone marrow cells

(Submitter supplied) Mutations in the enzymes IDH1 and IDH2 have been identified in a wide variety of tumors like glioma, chondrosarcoma, thyroid cancer, lymphoma, melanoma, and in acute myeloid leukemia. Mutated IDH1/2 produces the metabolite 2-hydroxyglutarate (2HG), which interferes with epigenetic regulation of gene expression, and thus may promote tumorigenesis.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
12 Samples
Download data: CEL
Series
Accession:
GSE77594
ID:
200077594
11.

IDH2 mutation induced histone and DNA hypermethylation is progressively reversed by small molecule inhibition

(Submitter supplied) Mutations of IDH1 (R132) and IDH2 (R172 and R140), which produce an oncometabolite 2-hydroxyglutarate (2HG), have been identified in several tumors including acute myeloid leukemia (AML). Recent studies have shown that expression of the IDH mutant enzymes results in high levels of 2HG and a block in cellular differentiation that can be reversed with IDH-mutant specific small molecule inhibitors. To further understand the role of IDH mutations in cancer, we conducted mechanistic studies in the TF-1/IDH2 R140Q erythroleukemia model system and found that IDH2 mutant expression caused both histone and genomic DNA methylation changes that can be reversed when IDH2 mutant activity is inhibited. more...
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL13534
36 Samples
Download data: TXT
Series
Accession:
GSE51352
ID:
200051352
12.

The oncometabolite D-2HG alters T cell metabolism to impair CD8+ T cell function

(Submitter supplied) The tumor-derived oncometabolite D-2HG impairs CD8+ T cell function through a novel metabolic target
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
9 Samples
Download data: CSV
Series
Accession:
GSE209757
ID:
200209757
13.

Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Methylation profiling by array
Platforms:
GPL13534 GPL6244
180 Samples
Download data: CEL
Series
Accession:
GSE39004
ID:
200039004
14.

Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis (Illumina)

(Submitter supplied) This study identified DNA methylation patterns that were associated with tumor subtypes, disease outcome, and distinct metabolome and gene expression patterns.
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL13534
72 Samples
Download data: TXT
Series
Accession:
GSE37754
ID:
200037754
15.

Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis (Affymetrix)

(Submitter supplied) This study identified DNA methylation patterns that were associated with tumor subtypes, disease outcome, and distinct metabolome and gene expression patterns.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
108 Samples
Download data: CEL
Series
Accession:
GSE37751
ID:
200037751
16.

D- 2-hydroxyglutarate is an immunometabolite that accumulates in macrophages after TLR activation and inhibits inflammatory responses

(Submitter supplied) Macrophages undergo extensive metabolic rewiring upon activation and this serves many roles beyond the production of energy and anabolic building blocks. So-called immunometabolites that accumulate upon immune activation can serve as co-factors for enzymes and can mediate posttranslational modifications of histones, transcription factors, enzymes and other key proteins that modulate macrophage function. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
9 Samples
Download data: TXT
Series
Accession:
GSE196315
ID:
200196315
17.

Single-cell analysis of accessible chromatin using scATAC-seq and transcriptome analysis using RNA-seq in human mammary epithelial cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL21290 GPL18573
306 Samples
Download data
Series
Accession:
GSE161628
ID:
200161628
18.

Transcriptome analysis using RNA-seq in human mammary epithelial cells

(Submitter supplied) Epigenome delineates lineage-specific transcriptional programs and restricts cell plasticity to prevent non-physiological cell fate transitions. Although cell diversification fosters tumor evolution and therapy resistance, upstream mechanisms that regulate the stability and plasticity of cancer epigenome remain elusive. Here, we show that 2-hydroxyglutarate (2HG) not only suppresses DNA repair but also mediates high-plasticity chromatin landscape. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21290
18 Samples
Download data: TXT
Series
Accession:
GSE161627
ID:
200161627
19.

Single-cell analysis of accessible chromatin in human mammary epithelial cells using scATAC-seq [scATAC-seq]

(Submitter supplied) Epigenome delineates lineage-specific transcriptional programs and restricts cell plasticity to prevent non-physiological cell fate transitions. Although cell diversification fosters tumor evolution and therapy resistance, upstream mechanisms that regulate the stability and plasticity of cancer epigenome remain elusive. Here, we show that 2-hydroxyglutarate (2HG) not only suppresses DNA repair but also mediates high-plasticity chromatin landscape. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
288 Samples
Download data: BED
Series
Accession:
GSE135412
ID:
200135412
20.

Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and L2hgdh-/- mice brain Transcriptomes

(Submitter supplied) We report the transcriptional difference of L2hgdh gene knock out mice brain with wild type control using RNA-seq technology.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
6 Samples
Download data: TXT
Series
Accession:
GSE89806
ID:
200089806
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