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Items: 1 to 20 of 364

1.

Transcriptomic profile of normal immortalized fallopian tube cells in response to long-term norepinephrine treatment

(Submitter supplied) The goal of this study was to identify transcriptional changes that occur in response to long-term norepinephrine (NE) treatment on normal immortalized fallopian tube cells (iFTSEC283). We treated isogenic cell lines (iFTSEC283 and iFTSEC283p53R175H) with 10μM NE or vehicle control (water) for 137 days with media change every two days followed by whole-transcriptome RNA seq. We identified 123 differentially expressed genes in 10μM NE vs mock-treated iFTSEC283. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
12 Samples
Download data: XLSX
Series
Accession:
GSE168097
ID:
200168097
2.

Triple negative, JAK2V617F and CALR mutated essential thrombocythaemia patients share a unique gene expression signature

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Methylation profiling by genome tiling array
Platforms:
GPL16791 GPL23976
56 Samples
Download data: IDAT, TXT
Series
Accession:
GSE156547
ID:
200156547
3.

Triple negative, JAK2V617F and CALR mutated essential thrombocythaemia patients share a unique gene expression signature [array]

(Submitter supplied) Using gene expression analysis in combination with genome-wide methylation profiling, we discovered a unique signature pattern that is consistent across the essential thrombocythaemia population regardless of mutation status.
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL23976
34 Samples
Download data: IDAT, TXT
Series
Accession:
GSE156546
ID:
200156546
4.

Triple negative, JAK2V617F and CALR mutated essential thrombocythaemia patients share a unique gene expression signature [RNA-seq]

(Submitter supplied) There is a unique signature pattern that is consistent across the essential thrombocythaemia (ET) population regardless of mutation status. ET phenotype may therefore, at least in part and regardless of mutation type, be driven by transcriptional mis-regulation and may propagate downstream via the MAPK, TNF and NFκB pathways with resultant JAK/STAT activation.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
22 Samples
Download data: TXT
Series
Accession:
GSE156336
ID:
200156336
5.

Selective single-nuclei sequencing of microglia and astrocytes reveals transcriptomic changes with pTau pathology in Alzheimer’s disease

(Submitter supplied) To better define roles that microglia and astrocytes play in Alzheimer’s disease (AD), we used single-nuclei RNA-sequencing to comprehensively characterize transcriptomes in these glial nuclei isolated post mortem from non-diseased control and neuropathologically-defined AD brains. Genes associated with AD risk were highly represented, especially in microglia. Transcriptome differences significantly correlated with immunohistochemical phospho-Tau (pTau) density included genetic risk genes for both microglia (APOE, BIN1, MS4A6A, PILRA) and astrocytes (APOE, CLU, MEF2C, IQCK). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
24 Samples
Download data: TAR
Series
Accession:
GSE160936
ID:
200160936
6.

Asah2 represses the p53-Hmox1 axis to protect myeloid-derived suppressive cells from ferroptosis

(Submitter supplied) Myeloid-derived suppressor cells (MDSCs) are immune suppressive cells that massively accumulate under pathological conditions to suppress T cell immune response. Dysregulated cell death contributes to MDSC accumulation, but the molecular mechanism underlying this cell death dysregulation is not fully understood. We report here that neutral ceramidase (N-acylsphingosine amidohydrolase, ASAH2) is highly expressed in tumor-infiltrating MDSCs in colon carcinoma and acts as a MDSC survival factor. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL16570
4 Samples
Download data: CEL, XLSX
Series
Accession:
GSE163399
ID:
200163399
7.

Cooperative genetic networks drive embryonic stem cell transition from naïve to formative pluripotency

(Submitter supplied) In the mammalian embryo, epiblast cells must exit the naïve state and acquire formative pluripotency. This cell state transition is recapitulated by mouse embryonic stem cells (ESCs), which undergo pluripotency progression in defined conditions in vitro. However, our understanding of the molecular cascades and gene networks involved in the exit from naïve pluripotency remains fragmentary. Here, we employed a combination of genetic screens in haploid ESCs, CRISPR/Cas9 gene disruption, large-scale transcriptomics and computational systems biology to delineate the regulatory circuits governing naïve state exit. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL21103 GPL21493
340 Samples
Download data: CSV
Series
Accession:
GSE145653
ID:
200145653
8.

Global Translational Landscape of the Candida albicans Morphological Transition

(Submitter supplied) Candida albicans is a major human fungal pathogen that represents the fourth leading cause of hospital-acquired bloodstream infections in the U.S. and is associated with high mortality and/or morbidity rates in a wide variety of immunocompromised individuals, including cancer and AIDS patients. While the C. albicans morphological transition from yeast to filamentous cells is required for virulence, considerably little is known about translational mechanisms important for controlling this transition as well as other virulence-related processes in C. more...
Organism:
Candida albicans
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL27827
12 Samples
Download data: TSV
9.

The genome-wide impact of trisomy 21 on DNA methylation and its implications for hematopoiesis

(Submitter supplied) Background: Down syndrome (DS) is associated with a wide range of phenotypes. To address the hypothesis that the genome-wide perturbation of gene regulation in DS is modulated by epigenetic changes, we performed an epigenome-wide association study (EWAS) on neonatal bloodspots comparing 196 newborns with DS and 439 newborns without DS. Results: We identified 652 epigenome-wide significant CpGs (P<7.67x10-8) and 1,052 differentially methylated regions (DMRs) across the genome. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21697
6 Samples
Download data: TXT
Series
Accession:
GSE160637
ID:
200160637
10.

Capture of mouse and human stem cells with features of formative pluripotency

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL21103
423 Samples
Download data: BW
Series
Accession:
GSE156589
ID:
200156589
11.

Capture of mouse and human stem cells with features of formative pluripotency [scRNA-seq]

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
384 Samples
Download data: CSV
Series
Accession:
GSE156588
ID:
200156588
12.

Capture of mouse and human stem cells with features of formative pluripotency [ChIP-seq]

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
39 Samples
Download data: BW
Series
Accession:
GSE156261
ID:
200156261
13.

Capture of mouse and human stem cells with features of formative pluripotency [mouse, RNA-Seq 2]

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
16 Samples
Download data: TXT
Series
Accession:
GSE131555
ID:
200131555
14.

Capture of mouse and human stem cells with features of formative pluripotency [mouse, RNA-Seq 1]

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
21 Samples
Download data: TXT
Series
Accession:
GSE131553
ID:
200131553
15.

Capture of mouse and human stem cells with features of formative pluripotency [human, RNA-seq]

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
18 Samples
Download data: XLS
Series
Accession:
GSE131551
ID:
200131551
16.

Capture of mouse and human stem cells with features of formative pluripotency [ATAC-Seq]

(Submitter supplied) Pluripotent cells emerge as a naïve founder population in the blastocyst, acquire capacity for germline and soma formation, and then undergo lineage priming. Mouse embryonic stem (ES) cells and epiblast stem cells (EpiSCs) respectively represent the initial naïve and final primed phases of pluripotency. Here we investigated the intermediate formative stage. Using minimal exposure to specification cues, we derived stem cells from formative mouse epiblast. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
26 Samples
Download data: BROADPEAK
Series
Accession:
GSE131549
ID:
200131549
17.

Cancer-Related Mutations are Not Enriched in Naïve Human Pluripotent Stem Cells

(Submitter supplied) A recent paper reported multiple oncogenic point mutations in naïve human pluripotent stem cells (hPSC) and implicated selective culture conditions. However, we observed that those “polymorphisms” are only found when naïve hPSCs are co-cultured with mouse feeder cells. Inspection of the reads containing the reported mutations revealed that they are identical to mouse sequences. Filtering the data sets to remove reads contributed by mouse feeder cells reveals that the actual incidence of cancer-related polymorphisms is close to zero. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
8 Samples
Download data: TXT
Series
Accession:
GSE150933
ID:
200150933
18.

An epigenome-wide association study of Alzheimer’s disease blood highlights robust DNA hypermethylation in the HOXB6 gene.

(Submitter supplied) Alzheimer case-control samples originate from the EU funded AddNeuroMed Cohort, which is a large cross-European AD biomarker study relying on human blood as the source of DNA.
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL13534
300 Samples
Download data: CSV
Series
Accession:
GSE144858
ID:
200144858
19.

Altered DNA methylation profiles in blood from patients with sporadic Creutzfeldt-Jakob disease

(Submitter supplied) Prion diseases are fatal and transmissible neurodegenerative disorders caused by the misfolding and aggregation of prion protein. Although recent studies have implicated epigenetic variation in common neurodegenerative disorders, no study has yet explored their role in human prion diseases. Here we profiled genome-wide blood DNA methylation in the most common human prion disease, sporadic Creutzfeldt-Jakob disease (sCJD). more...
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL13534
219 Samples
Download data: CSV, IDAT
Series
Accession:
GSE156994
ID:
200156994
20.

Human Single Cell Transcriptional Profiling Identifies Epigenetically Altered PGE2 Pathway that Modulates Diabetic Macrophage Phenotype and Wound Repair

(Submitter supplied) single cell RNA-sequencing to profile the transcriptomes of lesional skin of diabetic patients at the cellular level.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
2 Samples
Download data: MTX, TSV
Series
Accession:
GSE154557
ID:
200154557
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