N,N-Dimethyl-2-hydroxypropylammonium chloride polymer - GEO DataSets

(Submitter supplied) Hematopoietic stem and progenitor cells (HSPCs) need require tight transcriptional regulation. In-depth knowledge on how epigenetic mechanisms regulate chromatin landscape in order to control gene expression, particularly in response to external stimuli, will be key to understand the pathogenesis of hematologic disorders and improve blood stem cell-based therapies. Prostaglandin E2 (PGE2) and its metabolically resistant analog 16,16-dimethyl-PGE2 (dmPGE2) were previously identified as a potent external stimulus to enhance HSPC engraftment. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL16791 GPL20301
26 Samples

Download data: BW

Series

Accession:: GSE229396

ID:: 200229396

PubMed Full text in PMC Similar studies

Select item 2002498613.

Nucleos(t)ide analogs for hepatitis B virus infection differentially regulate the growth factor signaling in hepatocytes

(Submitter supplied) Recent clinical studies have suggested that the risk of developing hepatocellular carcinoma might be lower in chronic hepatitis B (CHB) patients receiving tenofovir disoproxil fumarate (TDF) than in patients receiving entecavir (ETV), although there is no difference in biochemical and virological remission between two drugs. The effects of nucleoside analogs (NsAs; lamivudine and ETV) or nucleotide analogs (NtAs; adefovir disoproxil [ADV], TDF, and tenofovir alafenamide [TAF]) on cell growth and the expression of growth signaling molecules were investigated. more...

Organism:: Homo sapiens

Type:: Protein profiling by protein array

Platform:: GPL34000
8 Samples

Download data: TXT

Series

Accession:: GSE249861

ID:: 200249861

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2002169914.

Small Molecule Inducers of Neuroprotective miR-132 Identified by HTS-HTS in Human iPSC-derived Neurons

(Submitter supplied) MicroRNAs (miRNAs) are short RNAs that regulate fundamental biological processes. miR-132, a key miRNA with established functions in Tau homeostasis and neuroprotection, is consistently downregulated in Alzheimer’s disease (AD) and other tauopathies. miR-132 overexpression rescues neurodegenerative phenotypes in several AD models. To complement research on miRNA-mimicking oligonucleotides targeting the central nervous system, we developed a high-throughput-screen coupled high-throughput-sequencing (HTS-HTS) in human induced pluripotent stem cell (iPSC)-derived neurons to identify small molecule inducers of miR-132. more...

Organism:: Homo sapiens

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL21697
1441 Samples

Download data: XLSX

Series

Accession:: GSE216991

ID:: 200216991

PubMed Full text in PMC Similar studies

Select item 2001427565.

Gene expression analysis of anti-tuberculous drug responses in a whole blood transcriptome model

(Submitter supplied) There is a need for better tools to evaluate new or repurposed TB drugs. The whole blood bactericidal activity (WBA) assay has been advocated for this purpose. We investigated whether transcriptional responses in the WBA assay resemble TB responses in vivo, and whether the approach might additionally reveal mechanisms of response. Microarray analysis was performed on Mycobacterium tuberculosis (Mtb) RNA extracted from whole blood cultures, sputum from TB patients on combination treatment, and drug-free broth cultures

Organism:: Mycobacterium tuberculosis

Type:: Expression profiling by array

Platform:: GPL27959
46 Samples

Download data: CEL

Series

Accession:: GSE142756

ID:: 200142756

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2001391576.

Differential DNA methylation encodes proliferation and senescence programs in human adipose-derived mesenchymal stem cells

(Submitter supplied) Adipose tissue-derived mesenchymal stem cells (ASC’s) constitute a vital population of multipotent cells capable of differentiating into end-organ tissues. However, scientific endeavors to harness the regenerative potential of ASC’s for regenerative medicine are currently limited by an incomplete understanding of the mechanisms that determine cell-lineage commitment and stemness. In the current study, we used reduced representation bisulfite sequencing (RRBS) analysis to identify epigenetic gene targets and cellular processes that are responsive to 5-azathioprine, a potent inducer of DNA methylation. more...

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL16791
4 Samples

Download data: XLSX

Series

Accession:: GSE139157

ID:: 200139157

SRA Run Selector

Select item 2000811427.

mRNA sequence of individual Drosophila melanogaster (w1118) male and female flies fed with different concentrations of dimethyl sulfoxide (DMSO) over different time periods.

(Submitter supplied) To gain an understanding of the toxic effect of a commonly used solvent, flies were exposed to 0, 0.1, 0.2, or 0.4% v/v DMSO for 0, 2, 4, or 8 h. We performed compound exposure of 800 individual flies in 4 Whole Animal Feeding Flats (WAFFL), a novel 96 well system to house, feed, and harvest individual flies. This expression profiling was part of a set of the experiments performed to evaluate the suitability of the WAFFL for high throughput small compound screening in D. more...

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17275
96 Samples

Download data: TXT

Series

Accession:: GSE81142

ID:: 200081142

SRA Run Selector

Select item 2000599278.

Drug Matrix Data - CodeLink Arrays

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Rattus norvegicus

Type:: Expression profiling by array

Platforms:: GPL5426 GPL5425 GPL5424
12921 Samples

Download data: TXT

Series

Accession:: GSE59927

ID:: 200059927

Analyze with GEO2R

Select item 2000599139.

Exposure of rat to a variety of toxicants, kidney assayed by CodeLink microarray

(Submitter supplied) DrugMatrix is a comprehensive rat toxicogenomics database and analysis tool developed to facilitate the integration of toxicogenomics into hazard assessment. Using the whole genome and a diverse set of compounds allows a comprehensive view of most pharmacological and toxicological questions and is applicable to other situations such as disease and development.

Organism:: Rattus norvegicus

Type:: Expression profiling by array

Platforms:: GPL5426 GPL5425 GPL5424
2862 Samples

Download data: TXT

Series

Accession:: GSE59913

ID:: 200059913

Analyze with GEO2R

Select item 20002618610.

Broad chromosomal domains of histone modification patterns in C. elegans

(Submitter supplied) Chromatin immunoprecipitation identifies specific interactions between genomic DNA and proteins, advancing our understanding of gene-level and chromosome-level regulation. Based on chromatin immunoprecipitation experiments using validated antibodies, we define the genome-wide distributions of 19 histone modifications, one histone variant, and eight chromatin-associated proteins in Caenorhabditis elegans embryos and L3 larvae. more...

Organism:: Caenorhabditis elegans

Type:: Genome binding/occupancy profiling by genome tiling array

5 related Platforms
109 Samples

Download data: GFF, GFF3, PAIR, TXT, WIG

Series

Accession:: GSE26186

ID:: 200026186

PubMed Full text in PMC Similar studies modENCODE Analyze with GEO2R

Select item 20001898311.

Effect of the explosive compound TNT on wild type seedlings

(Submitter supplied) The aim of this experiment was to identify the genes involved in the detoxification of the toxic pollutant and explosive compound 2,4,6-trinitrotolune (TNT). Fourteen-day-old, liquid culture grown, Arabidopsis seedlings, ecotype Col0 (NASC stock code N1093), were dosed with 60 uM TNT dissolved in 60 ul dimethyl formamide (DMF) solvent, or 60 ul DMF only. After six hours, RNA was extracted and used for the microarray analysis. more...

Organism:: Arabidopsis thaliana

Type:: Expression profiling by array

Platform:: GPL198
6 Samples

Download data: CEL

Series

Accession:: GSE18983

ID:: 200018983

Select item 20000533712.

Gene Expression Profiling In Rat Smooth Muscle Cells Modulated by Rapamycin and Paclitaxel.

(Submitter supplied) Background: Drug-eluting stents (DES) have rapidly become a standard therapy for treatment of obstructive coronary artery disease. Differences exist in therapeutic responses to different DES formulations, and mechanisms to predict drug responses in the preclinical setting have not been standardized. Results: We have used gene expression profiling to characterize the patterns of gene regulation within cultures of rat aortic smooth muscle cells (RASMC) treated with rapamycin or paclitaxel, the two drugs widely used in commercially available DES. more...

Organism:: Rattus norvegicus

Type:: Expression profiling by array

Platform:: GPL890
224 Samples

Download data: GPR

Series

Accession:: GSE5337

ID:: 200005337

Analyze with GEO2R

Select item 20000505113.

Cross-Platform Array Comparative Genomic Hybridization (array CGH) Meta-Analysis

(Submitter supplied) A series of studies have been published that evaluate the chromosomal copy number changes of different tumor classes using array Comparative Genomic Hybridization (array CGH), however the chromosomal aberrations that distinguish the different tumor classes have not been fully characterized. Therefore, we performed a meta-analysis of different array CGH data sets in an attempt to classify samples tested across different platforms. more...

Organism:: Homo sapiens

Type:: Genome variation profiling by array; Genome variation profiling by genome tiling array

8 related Platforms
167 Samples

Download data

Series

Accession:: GSE5051

ID:: 200005051

Select item 20000001614.

Microarray-based CGH in human cancer cell lines

(Submitter supplied) This series represents the data set from the paper <u>Assembly of microarrays for genome-wide measurement of DNA copy number</u> appearing in Nat Genet 2001 Nov;29(3):263-4 and it's web supplement. Specimen procurement, labeling, hybridization and imaging protocols from Nat Genet 2001 Nov;29(3):263-4 web supplement: <b>Specimens.</b> We obtained GM03563, GM00143, GM05296, GM07408, GM01750, GM03134, GM13330, GM03576, GM01535, GM07081, GM02948, GM04435, GM10315, GM13031 and GM01524 cell strains from the NIGMS Human Genetics Cell Repository (Coriell Institute for Medical Research), and cultured them under the recommended conditions. more...