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Items: 1 to 20 of 4375579

1.

Disrupting the adult-globin promoter alleviates promoter competition and reactivates foetal-globin gene expression

(Submitter supplied) The benign condition Hereditary Persistence of Foetal Haemoglobin (HPFH) is known to ameliorate symptoms when co-inherited with beta-haemoglobinopathies, such as sickle cell disease and beta-thalassaemia. The condition is sometimes associated with point mutations in the foetal globin promoters that disrupt the binding of the repressors BCL11A or ZBTB7A/LRF, which have been extensively studied. HPFH is also associated with a range of deletions within the beta-globin locus that all reside downstream of the foetal HBG2 gene. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL30173
6 Samples
Download data: BIGWIG
Series
Accession:
GSE194064
ID:
200194064
2.

Circulating MicroRNAs From Serum Small Extracellular Vesicles as Potential diagnostic Biomarkers in Pediatric Epilepsy and Drug-Resistant Epilepsy

(Submitter supplied) Pediatric epilepsy is a neurological condition that causes repeated and unprovoked seizures and is more common in 1–5-year-old children. Drug resistance has been indicated as a key challenge in improving the clinical outcomes of patients with pediatric epilepsy. In the present study, we aimed to identify serum small extracellular vesicles (sEVs) derived microRNAs (miRNAs) from the serum samples of children for predicting the prognosis in patients with epilepsy and drug-resistant epilepsy
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL20301
35 Samples
Download data: TXT
Series
Accession:
GSE193842
ID:
200193842
3.

Bidirectional genome-wide CRISPR screens reveal host factors regulating SARS-CoV-2, MERS-CoV and seasonal HCoVs

(Submitter supplied) Several genome-wide CRISPR knockout screens have been conducted to identify host factors regulating SARS-CoV-2 replication, but the models used have often relied on overexpression of ACE2 receptor and didn’t express TMPRSS2 protease, known to be important for viral entry at the plasma membrane. Here, we conducted a meta-analysis of these screens and showed a high level of cell-type specificity of the identified hits, arguing for the necessity to pursue efforts to uncover the full landscape of SARS-CoV-2 regulators. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL16791
37 Samples
Download data: XLSX
Series
Accession:
GSE193834
ID:
200193834
4.

Expression data of hippocampal CA3 from Adora1 knockout and wild type mice

(Submitter supplied) Purpose: The goals of this study are to analyze the mRNAs expression in hippocampal CA3 after Adora1 knockout by High-throughput sequencing. Methods: The brain was dissected and followed by 20 μm cryosection onto 20 glass slides. The hippocampus CA3 was isolated from brain slides by using laser capture microdissection. Then the samples were stored on dry ice until RNA extraction by Trizol. The RNAseq was conducted by using Illumina HiSeq2000 platform. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: TXT
Series
Accession:
GSE193826
ID:
200193826
5.

Colocalization of GWAS and molecular QTL signals in human vascular smooth muscle cells predict candidate causal genes for coronary artery disease and vascular disorders

(Submitter supplied) Coronary artery disease (CAD) is the leading cause of death worldwide. A recent meta-analysis of genome-wide association studies (GWAS) identified 175 loci associated with CAD. The majority of these loci are in non-coding regions and are predicted to regulate gene expression. We hypothesized that a subset of the CAD GWAS loci was associated with the regulation of transcription in vascular smooth muscle cells (SMCs), which play critical roles in the development of CAD. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
284 Samples
Download data: TSV
Series
Accession:
GSE193817
ID:
200193817
6.

Analysis of gene expression in zebrafish cornea during wound healing

(Submitter supplied) The cornea, transparent and outermost structure of camera-type eyes, is prone to environmental challenges, but has remarkable wound healing capabilities which enables to preserve vision. The manner in which cell plasticity impacts wound healing remains to be determined. In this study, we report rapid wound closure after zebrafish corneal epithelium abrasion. Furthermore, by investigating the cellular and molecular events taking place during corneal epithelial closure, we show the induction of a bilateral response to a unilateral wound. more...
Organism:
Danio rerio
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20828
8 Samples
Download data: XLSX
Series
Accession:
GSE193784
ID:
200193784
7.

Identification of Potential Gene targets and Pathways Shared by Diabetes and Atherosclerosis

(Submitter supplied) We analyzed the microarray gene expression datasets of DM and AS in Ba-Ma mini pigs models using different combinations of high cholesterol (HC) diet, high lipo (HL)-diet, and streptozotocin (STZ) injection. Common differentially expressed genes (DEGs) were identified between DM and AS comparing with the control group, which further underwent Gene Ontology (GO), KEGG pathway, and protein–protein interactions (PPI) analyses to screen the significant molecular pathways and hub proteins common to DM and AS.
Organism:
Sus scrofa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26351
20 Samples
Download data: TXT
Series
Accession:
GSE193781
ID:
200193781
8.

A High-Resolution Route Map Reveals Distinct Stages of Chondrocyte Dedifferentiation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21273
638 Samples
Download data
Series
Accession:
GSE193744
ID:
200193744
9.

A High-Resolution Route Map Reveals Distinct Stages of Chondrocyte Dedifferentiation (ATAC-Seq)

(Submitter supplied) Objectives: Articular cartilage damage has become a universal health burden. Despite the recent progresses in cell-based cartilage regeneration, chondrocyte dedifferentiation has compromised the clinical outcomes, which is frequently seen in chondrocyte expansion and osteoarthritis, involving functional phenotype loss. However, its concept remains elusive with unknown intermediate process and mechanisms. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21273
4 Samples
Download data: CSV
Series
Accession:
GSE193743
ID:
200193743
10.

A High-Resolution Route Map Reveals Distinct Stages of Chondrocyte Dedifferentiation (RNA-Seq)

(Submitter supplied) Objectives: Articular cartilage damage has become a universal health burden. Despite the recent progresses in cell-based cartilage regeneration, chondrocyte dedifferentiation has compromised the clinical outcomes, which is frequently seen in chondrocyte expansion and osteoarthritis, involving functional phenotype loss. However, its concept remains elusive with unknown intermediate process and mechanisms. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21273
634 Samples
Download data
Series
Accession:
GSE193742
ID:
200193742
11.

H3K4me3 ChIP_Seq in mouse decidua

(Submitter supplied) To detect the direct target genes of H3K4me3 in decidual stromal cells, decidual stromal cells are collected and subjected to ChIP-Seq. After aligned to mouse mm10 by STAR, peaks are called by MACS2. We found that H3K4me3 was significantly enriched at the transcription start site (TSS) of expressed genes (RPKM>1). A direct comparison of Menin and H3K4me3 ChIP-seq peaks at gene promoters showed a significantly strong positive correlation (R2=0.5888291). more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24247
2 Samples
Download data: TDF
Series
Accession:
GSE191327
ID:
200191327
12.

YTHDC2 CLIP and RNA-seq and Ribo-seq of Ythdc2KO and Ythdc2-WLA mutants

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL19057 GPL16417 GPL17021
48 Samples
Download data
Series
Accession:
GSE190981
ID:
200190981
13.

RNA-seq and Ribo-seq of Ythdc2KO and Ythdc2-WLA mutants

(Submitter supplied) We sequenced RNA from testis of Ythdc2 mutant and wild type mice to compare gene expression level, and translation efficiency.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL17021
30 Samples
Download data
Series
Accession:
GSE190980
ID:
200190980
14.

YTHDC2 CLIP

(Submitter supplied) Mouse testes samples from P8, P10, adult, and Ythdc2-WLA homozygous mutant mice were subjected to CLIP assays to generate YTHDC2-RNA interaction maps.
Organism:
Mus musculus
Type:
Other
Platforms:
GPL19057 GPL16417
18 Samples
Download data
Series
Accession:
GSE190979
ID:
200190979
15.

Spheroid culture differentially affects cancer cell sensitivity to drugs in melanoma and RCC models

(Submitter supplied) 2D culture as a model for drug testing often turns to be clinically futile. Therefore, 3D cultures (3Ds) show potential to better model responses to drugs observed in vivo. In preliminary studies, using melanoma (B16F10) and renal (RenCa) cancer, we confirmed that 3Ds better mimics the tumor microenvironment. Here, we evaluate how the proposed 3D mode of culture affects tumor cell susceptibility to anti-cancer drugs, which have distinct mechanisms of action (everolimus, doxorubicin, cisplatin). more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
4 Samples
Download data
Series
Accession:
GSE190296
ID:
200190296
16.

A MicroRNA Next-Generation-Sequencing Discovery Assay (miND) For Genome-Scale and Absolute Quantitation of Circulating MicroRNA Biomarkers

(Submitter supplied) The plasma levels of tissue-specific microRNAs can be used as prognostic and diagnostic biomarkers for chronic and acute diseases. Thereby, the combination of diverse miRNAs into biomarker signatures using multivariate statistics seems especially powerful in view to tissue and condition specific miRNA shedding into the plasma. Although Next-Generation Sequencing (NGS) technology enables to analyse circulating microRNAs on a genome-scale level, it suffers from potential biases (e.g. more...
Organism:
synthetic construct; Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL16791 GPL19604
81 Samples
Download data: CSV
Series
Accession:
GSE189930
ID:
200189930
17.

Genome-wide identification of transcriptional targets for H4K12la in total brain cells and microglia of WT and 5XFAD mice

(Submitter supplied) In this study, we found that H4K12la level is elevated in plaque-adjacent microglia of 5XFAD mice. To further explore the potential functional significance of H4K12la in AD, we performed genome-wide cleavage under targets and tagmentation (CUT&Tag) analysis to identify candidate genes regulated by H4K12la in total brain cells and microglia. Following CUT&Tag, H4K12la-associated DNAs were amplified using non-biased conditions, labeled, and sequenced with Illumina novaseq 150PE.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24247
8 Samples
Download data: BW, TXT
Series
Accession:
GSE188765
ID:
200188765
18.

Transcriptome analysis of young and old zebrafish ventricles

(Submitter supplied) The gradual decline of tissue functionality is the main reason why humans suffer from age-related diseases. The prevalence for cardiovascular diseases increases with increasing age. In order to prevent age-related cardiac diseases, it is of importance to understand the respective age-associated risk factors. We have therefore compared the ventricular transcriptome of old and young hearts of the model organism zebrafish. more...
Organism:
Danio rerio
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18413
6 Samples
Download data
Series
Accession:
GSE182979
ID:
200182979
19.

Menin and H3K4me3 ChIP_Seq in mouse decidua

(Submitter supplied) To detect the direct target genes of Menin and H3K4me3 in decidual stromal cells, decidual stromal cells are collected and subjected to ChIP-Seq. After aligned to mouse mm10 by STAR, peaks are called by MACS2. We found that Menin and H3K4me3 was significantly enriched at the transcription start site (TSS) of expressed genes (RPKM>1). A direct comparison of Menin and H3K4me3 ChIP-seq peaks at gene promoters showed a significantly strong positive correlation (R2=0.5888291). more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24247
5 Samples
Download data: TDF
Series
Accession:
GSE182539
ID:
200182539
20.

Gene expression in D8 WT and Menin KO uteri

(Submitter supplied) Differential expression genes were normalized to fragments per kilobase of exon model per million mapped reads (RPKM) using EdgeR package in R with the criteria of fold change significantly greater than 1.5 and P<0.05. Gene ontology (GO) enrichment analysis of the DEGs was analyzed by using DAVID (the Database for Annotation, Visualization and Integrated Discovery, https://david.ncifcrf.gov). GO terms with corrected p <0.05 were considered significantly enriched. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
4 Samples
Download data
Series
Accession:
GSE182525
ID:
200182525
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