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Items: 1 to 20 of 1005783

1.

Muc1-C Induces Pbrm1-Mediated Chromatin Remodeling in Driving Chronic Inflammation and DNA Damage Resistance in Triple-Negative Breast Cancer

(Submitter supplied) STAT1 and IRF1 are essential effectors of the type I and II interferon (IFN) pathways. Here, we report that the oncogenic MUC1-C protein is necessary for inducing chromatin accessibility and activation of the STAT1 and IRF1 genes in triple-negative breast cancer (TNBC) cells. Our results demonstrate that MUC1-C activates the PBRM1 subunit of the SWI/SNF PBAF chromatin remodeling complex and forms a nuclear complex with PBRM1. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
18 Samples
Download data: CSV
Series
Accession:
GSE206212
ID:
200206212
2.

High-Yield Monocyte, Macrophage, and Dendritic Cell Differentiation from Induced Pluripotent Stem Cells

(Submitter supplied) Differentiation of induced pluripotent stem cells (iPSC) into monocytes, monocyte-derived macrophages (MDM), and monocyte-derived dendritic cells (moDC) represents a powerful tool for studying human innate immunology and developing novel iPSC-derived immune therapies. Challenges include inefficiencies in iPSC-derived cell cultures, labor-intensive culture conditions, low purity of desired cell types, and feeder cell requirements. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
18 Samples
Download data: TXT
Series
Accession:
GSE206201
ID:
200206201
3.

The histone variant macroH2A modulates inflammatory response in cancer [UMI-4C]

(Submitter supplied) MacroH2A histone variants have a major role in nuclear organization and large-scale 3D chromatin architecture. How these alterations impinge on the behaviour of cancer cells is not known. Here, we describe the analysis of the total macroH2A loss of function phenotype in a model of hepatoblastoma, the main childhood liver cancer. Performing transcriptomic analyses in xenografts and cell cultures, we find that macroH2A modulated the response of cancer cells to paracrine inflammatory signalling. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL24676
19 Samples
Download data: TSV
Series
Accession:
GSE203475
ID:
200203475
4.

Delamination of trophoblast-like syncytia from the amniotic ectodermal analogue in human primed embryonic stem cell-based differentiation model [scRNA-seq]

(Submitter supplied) Human embryonic stem cells were converted into GATA3-expressing extraembryonic cells (GATA3+ ExE cells) when they were exposed to chemical inhibitors for ACTIVIN/NODAL (A83-01, 1uM) and FGF signaling (PD173074, 100nM). We refer here to this inhibitor-induced differentiation method as an 'AP' protocol. To understand the transcriptional properties of the AP-induced GATA3+ ExE cells, we obtained the gene expression profile from the single cells treated with AP for 2, 3 and 4 days. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
3 Samples
Download data: CSV
Series
Accession:
GSE196365
ID:
200196365
5.

A regulatory axis between Epithelial Splicing Regulatory Proteins and Estrogen Receptor alpha modulates the alternative transcriptome of luminal breast cancer

(Submitter supplied) The epithelial splicing regulatory proteins 1 and 2 (ESRP1/2) control the epithelial‐to‐mesenchymal transition (EMT) splicing program in cancer. However, their exact role in Breast Cancer (BC) remains under debate. Here, we report that ESRP1, but not ESRP2, is overexpressed in luminal BCs patients with poor prognosis and correlates with Estrogen Receptor α (ERα) mRNA levels. Analysis of ERα genome binding profiles in both cell lines and primary breast tumors showed its binding on both ESRP1 and ESRP2 promoters, and the expression of these genes strongly decreased by ERα silencing in hormone-deprived conditions (apoERα). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
6 Samples
Download data: RESULTS
Series
Accession:
GSE206474
ID:
200206474
6.

Transcriptome sequencing of triple-matched samples of gastric cancer patients with ovarian metastasis

(Submitter supplied) Our aim was to decipher the underlying molecular mechanism of synchronous ovarian metastasis of gastric cancer. We hereby conducted transcriptome sequencing of triple-matched samples including normal gastric mucosa, primary gastric cancer and ovarian metastatic tumors from 3 individual patients with the application of Illumina sequencing platform with 150-bp paired-end. Follow-up analyses not only identified differentially expressed genes between different sample sets (a threshold of fold change >2 and adjusted P value <0.05) but also uncovered significantly enriched signaling pathways of individual type. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
9 Samples
Download data: TXT
Series
Accession:
GSE206329
ID:
200206329
7.

Single cell gene expression profile of hPSC-derived nephric duct spheroids (day 7) and collecting duct organoiods (day 18)

(Submitter supplied) We performed directed differentiation of human pluripotent stem cells (hPSCs) into ureteric bud (UB) organoids and performed single cell transcriptomics to analyze different stages of development. At day 7, the spheroids exhibited a nephric duct (ND) signature, and we identified there is also a population of stromal progenitor cells within the cluster. At day 18, the organoids comprise more differentiated collecting duct (CD) cell types including principal cells.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21697
1 Sample
Download data: CSV, XLSX
Series
Accession:
GSE206153
ID:
200206153
8.

Effects of triiodothyronine on human osteoblast-like cells: novel insights from a global transcriptome analysis

(Submitter supplied) In order to investigate, at the mRNA level, the signaling pathways through which triiodothyronine (T3) affects osteoblast function, human mesenchymal stem cells derived from adipose tissue were subjected to a pre-established osteoinduction protocol, resulting in osteoblast-like cells, which were cultured with or without T3. RNA-Seq was performed using Illumina platform, and differential gene expression was assessed with DESeq2. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
9 Samples
Download data: CSV
Series
Accession:
GSE205678
ID:
200205678
9.

Different transcriptomic response to T. cruzi infection in hiPSC-derived cardiomyocytes from Chagas disease patients with and without chronic cardiomyopathy

(Submitter supplied) Investigate transcriptional responses of T. cruzi infected hiPSC-derived cardiomyocytes from chagasic patients with and without cardiomyopathy.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
20 Samples
Download data: TXT
Series
Accession:
GSE203525
ID:
200203525
10.

Epigenetic mechanism and survival prognosis analysis of serum exosomes from ovarian cancer patients based on sequencing technology and Bioinformatics

(Submitter supplied) Background: This study aimed to screen the signaling axis of epigenetic modification in serum exosomes of ovarian cancer patients based on sequencing technology and raw signal analysis, perform an in-depth study of the potential mechanism of action of ovarian cancer, predict potential therapeutic targets and perform a survival prognosis analysis of potential targets Methods: Serum exosomes from three ovarian cancer patients were selected as the experimental group, and serum exosomes from three uterine fibroid patients were selected as the control group. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
6 Samples
Download data: TXT
Series
Accession:
GSE194238
ID:
200194238
11.

Dietary Protein Restriction Reverses Metabolic Dysfunction in Patients with Metabolic Syndrome: a Randomized, Controlled Trial

(Submitter supplied) Aims/hypothesis: Dietary restriction (DR) reduces adiposity and improves metabolism in patients with one or more symptoms of the metabolic syndrome. Nonetheless, it remains elusive whether the benefits of DR in humans are mediated by calorie or nutrient restriction. This study was conducted to identify whether isocaloric dietary protein restriction is sufficient to confer the beneficial effects of dietary restriction in patients with metabolic syndrome. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
39 Samples
Download data: CSV
Series
Accession:
GSE192587
ID:
200192587
12.

Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [scRNA-Seq]

(Submitter supplied) SARS-CoV-2 infection triggers profound and variable immune responses in human hosts. Chromatin remodeling has been observed in individuals severely ill or convalescing with COVID-19, but chromatin remodeling early in disease prior to anti-spike protein IgG seroconversion has not been defined. We performed the Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) and RNA-seq on peripheral blood mononuclear cells (PBMCs) from outpatients with mild or moderate symptom severity at different stages of clinical illness. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
41 Samples
Download data: H5
Series
Accession:
GSE206283
ID:
200206283
13.

Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [bulkATAC-Seq]

(Submitter supplied) SARS-CoV-2 infection triggers profound and variable immune responses in human hosts. Chromatin remodeling has been observed in individuals severely ill or convalescing with COVID-19, but chromatin remodeling early in disease prior to anti-spike protein IgG seroconversion has not been defined. We performed the Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) and RNA-seq on peripheral blood mononuclear cells (PBMCs) from outpatients with mild or moderate symptom severity at different stages of clinical illness. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
70 Samples
Download data
Series
Accession:
GSE206266
ID:
200206266
14.

Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [bulkRNA-Seq]

(Submitter supplied) SARS-CoV-2 infection triggers profound and variable immune responses in human hosts. Chromatin remodeling has been observed in individuals severely ill or convalescing with COVID-19, but chromatin remodeling early in disease prior to anti-spike protein IgG seroconversion has not been defined. We performed the Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) and RNA-seq on peripheral blood mononuclear cells (PBMCs) from outpatients with mild or moderate symptom severity at different stages of clinical illness. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
71 Samples
Download data
Series
Accession:
GSE206263
ID:
200206263
15.

Methyl-SNP-seq reveals dual readouts of methylome and variome at molecule resolution

(Submitter supplied) We developed Methyl-SNP-seq, a technology that takes advantage of the redundancy of the double helix, to extract the methylation and sequence information from a single original DNA molecule We demonstrate the usefulness of this technology on a broad spectrum of applications ranging from allele specific methylation analysis in humans to methylation identification in complex bacterial communities.
Organism:
Homo sapiens; Clostridium acetobutylicum; Escherichia coli
Type:
Other
4 related Platforms
9 Samples
Download data: COV, VCF
Series
Accession:
GSE206253
ID:
200206253
16.

targeted single-cell RNA sequencing data of residual TIM-3+ leukemic stem cells post-SCT_2

(Submitter supplied) Since AML is hierarchically organized by self-renewing LSCs with heterogeneous sub-populations, we employed single-cell RNA sequencing to evaluate the changes in AML heterogeneity in terms of gene expression profiling, throughout the clinical course.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21697
1 Sample
Download data: CSV, FASTA, XLSX
Series
Accession:
GSE206251
ID:
200206251
17.

Transcriptome changes after curcumin analog treatment in human glioblastoma cells

(Submitter supplied) Glioblastoma cells were treated with curcumin analog CCA-1.1 and analyzed mRNA expression through mRNA sequencing
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
2 Samples
Download data: TXT
Series
Accession:
GSE206241
ID:
200206241
18.

Generation of mesenchymal stem/stromal cells (MSCs) from human iPSCs via neural crest cells (NCCs)

(Submitter supplied) To clarify the changes in cell properties during the differentiation process from iPSCs into MSC through NCCs, we sampled each cell during the differentiation process and compared gene expression patterns.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24014
30 Samples
Download data: TXT
Series
Accession:
GSE206128
ID:
200206128
19.

Single-cell RNA sequencing of human hypopharynx

(Submitter supplied) Cellular origins of hypopharynx diseases are crucial for further diagnosis and treatments, and the immune microenvironment in tissues may also be associated with specific cell types simultaneously. For the above reasons, we should rapidly investigate the classification and transcriptomic information of the human hypopharynx. Thus, we obtained a single-cell suspension of normal hypopharynx and conducted single-cell RNA sequencing (scRNA-seq). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
5 Samples
Download data: TAR
Series
Accession:
GSE206038
ID:
200206038
20.

Methylation of HBP1 by PRMT1 inhibits its tumor-suppressive function through regulating 2 GSN-mediated actin cytoskeleton remodeling

(Submitter supplied) HBP1 is a sequence-specific transcription factor which acts as a tumor inhibitor. HBP1 exerts tumor-suppressive function through regulating the expression of many genes during cell metabolism and cell cycle process. Posttranslational modification of HBP1 is crucial for its function. In this study, we found that HBP1 was methylated at R378 by PRMT1, which decreased 16 HBP1 protein stability by promoting its ubiquitination and proteasome-mediated degradation. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL29480
6 Samples
Download data: TXT
Series
Accession:
GSE205932
ID:
200205932
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