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Organelle Dynamics in Apicomplexan Parasites

Verhoef JMJ. mBio. 2021

PMID: 34425697PMCID: PMC8406264

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Items: 1 to 20 of 982

  • The following terms were not found in GEO DataSets: 10.1128, mBio.01409, mBio.01409-21.
  • See the search details.
1.

Transcriptomic Landscape of Treatment - Naïve Non-Erosive Reflux Disease

(Submitter supplied) Non-Erosive Reflux Disease (NERD) is one of the most prominent and common forms of gastroesophageal reflux disease (GERD). We performed transcriptomic analysis (RNA sequencing) of esophageal biopsies from patients with NERD and healthy controls to increase understanding of complex cellular and molecular pathways in NERD.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
15 Samples
Download data: XLSX
Series
Accession:
GSE182974
ID:
200182974
2.

Differential interferon-α immune signatures prevent SARS-CoV-2 infection

(Submitter supplied) Type 1 interferons (IFN-I) exert pleiotropic biological effects during viral infections, balancing virus control and immune-mediated pathology and have been successfully employed for the treatment of viral diseases. In humans, there are twelve IFN-alpha (α) subtypes, which activate downstream signalling cascades and result in a distinct pattern of immune responses and differential antiviral responses. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
60 Samples
Download data: XLSX
Series
Accession:
GSE189613
ID:
200189613
3.

Endothelial cell-specific reduction of heparan sulfate suppresses glioma growth in mice

(Submitter supplied) we examined how HS-reduced vascular endothelial cells are involved in the proliferation of glioma by using mice in which Ext-1 expression is specifically suppressed in vascular endothelial cells.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL21163
8 Samples
Download data: TXT
Series
Accession:
GSE175419
ID:
200175419
4.

Identification of JMJD1A and JMJD2B target genes in hypoxic colon carcinoma cells

(Submitter supplied) The Hypoxia-Inducible Factors induce the expression of the histone demethylases JMJD1A (KDM3A) and JMJD2B (KDM4B), linking the hypoxic tumor microenvironment to epigenetic mechanisms that may foster tumor progression. This dataset includes expression data obtained from exposing colon carcinoma cells to hypoxia in combination with siRNA-mediated knockdown of the hypoxia-inducible histone demethylases JMJD1A and JMJD2B.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL5175
18 Samples
Download data: CEL
Series
Accession:
GSE166991
ID:
200166991
5.

Attention to time-of-day variability improves the reproducibility of gene expression patterns in multiple sclerosis

(Submitter supplied) Most biomarkers for the diagnosis and prognosis of multiple sclerosis (MS) are not yet clinically available due to low reproducibility. Here, we show that times of day affect gene expression profiles in MS patients. Thus sample collection has to be standardized based on the time-points biomarkers are expressed to increase reproducibility. In this study, we examined transcriptome profiles in whole blood of MS patients collected at two different time-points of the day, around 2 pm as the daytime and 9 pm as the nighttime. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23227
20 Samples
Download data: TXT
Series
Accession:
GSE150337
ID:
200150337
6.

Global analysis of the zinc homeostasis network in Pseudomonas aeruginosa (DOI: 10.3389/fmicb.2021.739988)

(Submitter supplied) In this study we followed up the dynamics of all genes involved in zinc homeostasis in Pseudomonas aeruginosa from starvation to excess, as it happens during infection. The results showed a hierarchical induction of the export systems and a global repression of import mechanisms
Organism:
Pseudomonas aeruginosa PAO1
Type:
Other
Platform:
GPL30568
24 Samples
Download data: RCC, XLSX
Series
Accession:
GSE183060
ID:
200183060
7.

Real-time quantitative PCR analysis of mouse skin samples

(Submitter supplied) Development of chronic Graft Versus Host Disease (cGVHD) represents a major impediment in allogeneic hematopoietic stem cell transplantation (HSCT). This disorder has been shown to be associated with severe impairment of B-cell homeostasis, regulatory B-cell function and distribution. Conversely, the presence of bone marrow and circulating hematogones has been correlated with reduced GVHD risks. We herein raised the question whether B-cell progenitors that upon activation with the TLR-9 agonist CpG (CpG-proBs) provide protection in various models of autoimmune diseases, could as well reduce disease in a sclerodermatous model of cGVHD. more...
Organism:
Mus musculus
Type:
Expression profiling by RT-PCR
Platform:
GPL30509
6 Samples
Download data: TXT
Series
Accession:
GSE182025
ID:
200182025
8.

Multiomic study of skin/peripheral blood cell transcriptome and serum proteins: Is serum proteome a reflection of disease process at the end-organ level in systemic sclerosis?

(Submitter supplied) This is a global gene expression study of peripheral blood cell samples collected from a subset of 49 systemic sclerosis patients enrolled in the GENISOS cohort, as well as unaffected controls.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
74 Samples
Download data: TXT
Series
Accession:
GSE179153
ID:
200179153
9.

Class I histone deacetylases (HDAC) critically contribute to Ewing sarcoma pathogenesis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
78 Samples
Download data: CEL
Series
Accession:
GSE162789
ID:
200162789
10.

Class I histone deacetylases (HDAC) critically contribute to Ewing sarcoma pathogenesis II

(Submitter supplied) Background: Ewing sarcoma (EwS) are characterized by oncogenic chimeric EWS-ETS proteins. EZH2 is upregulated via predominant EWS-FLI1 in EwS. RNAi of EZH2 revealed an EZH2-maintained, undifferentiated, stemness phenotype. Herein, microarray analysis demonstrated that treatment with HDAC inhibitors (HDACi) entinostat or TSA resulted in the induction of a similar pattern of differentiation genes as observed after EZH2 RNAi. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6244
24 Samples
Download data: CEL
Series
Accession:
GSE162786
ID:
200162786
11.

The effect of 5-ASA on colitis-associated carcinogenesis

(Submitter supplied) The impact of the antiinflammatory agent 5-aminosalicylic acid (5-ASA) on the risk for colitis-associated colorectal cancer remains controversial. The chemopreventive activity of 5-ASA was evaluated in the Swiss Webster model of azoxymethane (AOM)/dextran sulfate sodium (DSS)-induced colitis-associated neoplasia. Mice were injected with AOM (7.4 mg/kg i.p.) and randomized to receive either vehicle or 5-ASA (75mg/kg) for the remainder of the study. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL7042
15 Samples
Download data: TXT
Series
Accession:
GSE185599
ID:
200185599
12.

miRNA profiling of colitis-associated dysplasia in animals submitted to the AOM/DSS model

(Submitter supplied) The impact of the antiinflammatory agent 5-aminosalicylic acid (5-ASA) on the risk for colitis-associated colorectal cancer remains controversial. The chemopreventive activity of 5-ASA was evaluated in the Swiss Webster model of azoxymethane (AOM)/dextran sulfate sodium (DSS)-induced colitis-associated neoplasia. Mice were injected with AOM (7.4 mg/kg i.p.) and randomized to receive either vehicle or 5-ASA (75mg/kg) for the remainder of the study. more...
Organism:
Mus musculus
Type:
Non-coding RNA profiling by array
Platform:
GPL30827
11 Samples
Download data: RCC
Series
Accession:
GSE185504
ID:
200185504
13.

Hspa1a-regulated gene expression and alternative splicing in mouse cardiomyocytes are tightly related to cardiac hypertrophy

(Submitter supplied) Regulatory factors play important roles in cardiac hypertrophy by regulating gene expression in cardiomyocytes.HSP70, a heat shock protein encoded by HSPA1A ,is induced by hypertrophic stimulation and then causes cardiac hypertrophy. However, the regulation mechanism of HSP70 in cardiac hypertrophy is unknown. In this study, we established the cardiac hypertrophy mouse model to explore the differentially expressed genes and found Hspa1a was significantly increased in treated samples. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
6 Samples
Download data: TXT
Series
Accession:
GSE158635
ID:
200158635
14.

Jejunal Transcriptomic Profiling for Differences in Feed Conversion Ratio in Slow-Growing Chickens

(Submitter supplied) Slow-growing Korat chicken (KR) is an alternative to broiler chickens that has been used as a national tool to support smallholder farmers due to a higher selling price of KR meat. However, the individual variability of feed efficiency (FE) within a KR stockbreeding results in a lack of competitiveness. Therefore, improvement of FE of KR is of major importance to improve the profitability of livestock production enterprises. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24517
6 Samples
Download data: XLSX
Series
Accession:
GSE178916
ID:
200178916
15.

Urine miRNAs as potential biomarkers for systemic reactions induced by exposure to embedded metal

(Submitter supplied) Many veterans live with military grade heavy metal fragments retained in soft tissue. Retained heavy metal fragments may negatively impact health in various organ systems and can manifest as gastrointestinal, neurocognitive, pulmonary and renal disturbances. As such, a better understanding of the long-term effects of retained metals and identification of biomarkers indicative of detrimental health outcomes would benefit clinical decision making. more...
Organism:
Rattus norvegicus
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL20084
178 Samples
Download data: TXT
Series
Accession:
GSE167948
ID:
200167948
16.

Single-cell deconvolution of colon organoids exposed to carcinogens reveals novel insights into the early molecular events defining the role of smoking in colorectal cancer

(Submitter supplied) Here, we used bulk RNA-seq data derived from healthy colon organoids (un)exposed to carcinogen. Through the use of external single cell RNA-seq data, we estimate changes in cell composition. We extend this analysis by controlling for cell composition and performing WGCNA to identify modules of co-expression differentially affected by carcinogen treatment in colon organoids.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
74 Samples
Download data: CSV
Series
Accession:
GSE174650
ID:
200174650
17.

Sex-dependent gene expression dynamics in primary mouse hepatocytes

(Submitter supplied) Transcriptome of primary hepatocytes from female and male C57BL/6N wild type mice after 0 to 96 hours of culture. This study aimed to deliver fundamental information on sex differences in primary mouse hepatocytes in vitro.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL23038
50 Samples
Download data: CEL
Series
Accession:
GSE166969
ID:
200166969
18.

SPOP mutation reshapes chromatin landscape and transcriptional response to androgens.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL21103 GPL30172 GPL19057
78 Samples
Download data: BED, BW, NARROWPEAK
Series
Accession:
GSE145333
ID:
200145333
19.

SPOP mutation reshapes chromatin landscape and transcriptional response to androgens [ChIP-seq]

(Submitter supplied) To define the epigenomic response to AR activation, we employed the 3D organoid model of murine prostate tissue. Control and SPOP-mutant prostate organoids were stimulated with 10 nM dihydrotestosterone (DHT) or vehicle. Next, we performed the transcriptomic analysis (mRNA-seq) together with profiling of the accessibility landscape (ATAC-seq), transcription factor (AR, and FOXA1) binding and H3K4me2 modified nucleosomes.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
40 Samples
Download data: BED, BIGWIG, NARROWPEAK
Series
Accession:
GSE145196
ID:
200145196
20.

DNA methylation and transciptomic signatures in patients with peanut- and multi-food allergy [array]

(Submitter supplied) This study profiled the epigenomes and transcriptomes of total B cell populations from adolescents with peanut-only (single food allergy- SA) and multi-food allergy (MA). We found distinct epigenetic and transcriptomic differences between food allergic patients and controls, in addition to SA- and MA- group specific signatures, with
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL21145
26 Samples
Download data: CSV, IDAT
Series
Accession:
GSE166067
ID:
200166067
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