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Items: 1 to 20 of 2724927

1.

Recombinant irisin enhances the differentiation, remodeling potential, and the mechanical properties of 3D-cultured human periodontal ligament cells

(Submitter supplied) Irisin is recognized as a myokine produced by muscles, regulating metabolism and energy homeostasis, however, it may play a role in many other biological functions. Little is known about its effect on periodontal ligament cells. We employed Affymetrix to profile mRNA expression patterns between 3D human periodontal ligament cell spheroids treated with and without irisin. The mRNA expression profiling identified approximately 1000 mRNAs to be differentially expressed between the two groups, which suggests that irisin is involved in gene regulation in human periodontal ligament cells.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL23159
6 Samples
Download data: CEL
Series
Accession:
GSE206938
ID:
200206938
2.

Adamantinomatous craniopharyngioma cyst fluid can trigger inflammatory activation of microglia to damage the hypothalamic neurons by inducing the production of β-amyloid

(Submitter supplied) Introduction: The mechanism by which adamantinomatous craniopharyngioma (ACP) damages the hypothalamus is still unclear. Cyst fuid rich in lipids and infammatory factors is a characteristic pathological manifestation of ACP and may play a very important role in hypothalamic injury caused by tumors. Objective: The objective of this study was to construct a reliable animal model of ACP cyst fuid-induced hypotha lamic injury and explore the specifc mechanism of hypothalamic injury caused by cyst fuid. more...
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24676 GPL24247
3 Samples
Download data: MTX, TSV
Series
Accession:
GSE206861
ID:
200206861
3.

LDL delivery of microbial small RNAs drives atherosclerosis through macrophage TLR8

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens; Mus musculus
Type:
Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL24247 GPL18573 GPL24676
28 Samples
Download data: TXT
Series
Accession:
GSE206859
ID:
200206859
4.

Effect of depletion of UHRF1, DNMT1, DNMT3B during differentiation

(Submitter supplied) To investigate gene regulation by UHRF1, DNMT1, DNMT3B in THP-1 cells during differentiation, we established stable knockdown THP-1 cell lines.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
16 Samples
Download data: TXT
Series
Accession:
GSE206742
ID:
200206742
5.

Drug combination sci-Plex Data

(Submitter supplied) Recent advances in multiplexed single-cell transcriptomics experiments are facilitating the high-throughput study of drug and genetic perturbations. However, an exhaustive exploration of the combinatorial perturbation space is experimentally unfeasible, so computational methods are needed to predict, interpret, and prioritize perturbations. Here, we present the compositional perturbation autoencoder (CPA), which combines the interpretability of linear models with the flexibility of deep-learning approaches for single-cell response modeling. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
96 Samples
Download data: MTX, TSV
Series
Accession:
GSE206741
ID:
200206741
6.

A role for phase separation to prevent RNA:DNA hybrids

(Submitter supplied) The function of phase separation for many RNA-binding proteins is poorly understood, including FUS (FUSed in sarcoma). FUS binds RNA Pol II and controls phosphorylation of serine-2 (Ser2P). We uncovered a FUS activity involving no interactions with the polymerase. FUS could activate transcription of a non-eukaryote polymerase by preventing RNA invasion of DNA to form R-loops. This activity required binding to the nascent transcript and phase separation. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL24676
10 Samples
Download data: TAB
Series
Accession:
GSE206740
ID:
200206740
7.

Maggot extracts overcome cisplatin resistance of ovarian cancer cells by targeting HSP90AB1/IGF1R signaling

(Submitter supplied) To investigate the main mechanism underlying cisplatin resistance in ovarian cancer, A2780/CDDP and SKOV3/CDDP cell lines were treated with both maggot extracts and cisplatin. We then performed gene expression profiling analysis using data obtained from RNA-seq of A2780 and A2780/CDDP cells.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23227
6 Samples
Download data: XLS
Series
Accession:
GSE206649
ID:
200206649
8.

KSHV Topologically Associating Domains in Latent Chromatin and Regulation of Reactivation

(Submitter supplied) Eukaryotic genomes are structurally organized via the formation of multiple loops that create gene expression regulatory units called topologically associating domains (TADs). Here we revealed the KSHV TAD structure at 500 base pair resolution and constructed a 3D KSHV genomic structural model. The latent KSHV genome formed very similar TAD structures among three different naturally infected PEL cell lines. more...
Organism:
Homo sapiens; Human gammaherpesvirus 8
Type:
Other
Platform:
GPL25719
10 Samples
Download data: HIC
Series
Accession:
GSE163696
ID:
200163696
9.

Multiple Histone modifications ChIP-seq in MCF7 cells corresponding to Ctr9 KD (paper title: Ctr9, the scaffold subunit of PAFc, govens PRC2-mediated H3K27me3 domains in breast cancer cells)

(Submitter supplied) We want to examine the alternation of histone modification spectrum on chormatin in corresponding to Ctr9 loss either in an inducible KD or stable KD fashion in MCF7 breast cancer cells.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL16791
20 Samples
Download data: BW, TSV
Series
Accession:
GSE133318
ID:
200133318
10.

Expression profiles of lncRNAs in 3D cultures.

(Submitter supplied) Breast cancer cells reprogram the oncogenic lncRNAs/mRNAs co-expression networks in three- dimensional microenvironment To have a more functional approach, organotypic 3D cell cultures that more accurately mimic the characteristics of solid tumors in vivo and the tumor microenvironment are required. In this study, DNA microarrays were employed to deline the changes in lncRNAs expression patterns of breast cancer cells, cultured in 3D and 2D conditions from BT-474 cell line. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24539
6 Samples
Download data: CEL, CHP
Series
Accession:
GSE206836
ID:
200206836
11.

MicroRNA (miRNA) expression from blood plasma of patients with a prostate cancer

(Submitter supplied) We investigated how microRNAs' expression profile changes in blood plasma depending on a prostate cancer aggresivness.
Organism:
synthetic construct; Homo sapiens
Type:
Expression profiling by array
Platform:
GPL19117
152 Samples
Download data: CEL, TSV
Series
Accession:
GSE206793
ID:
200206793
12.

The human lncRNA GOMAFU suppresses neuronal interferon response pathways affected in schizophrenia

(Submitter supplied) Long noncoding RNAs (lncRNAs) play multifaceted roles in regulating molecular networks that underlie normal brain function and the complex etiology of neuropsychiatric disorders. One example is the human neuronal lncRNA GOMAFU, which was reported to display abnormal expression in schizophrenia (SCZ) postmortem brains, regulate alternative splicing of SCZ risk gene transcripts, and harbor genetic variates contributing to the risk of SCZ. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
8 Samples
Download data: TXT
Series
Accession:
GSE206720
ID:
200206720
13.

Gene expression profile at single cell level of myeloid cells from juxta tumor (JT) and tumor (T) samples from treatment naive triple negative breast cancer (TNBC) patients

(Submitter supplied) Myeloid cell subpopulation comprises denditric cells (DC), monocytes and macrophages. We used single cell RNA sequencing (scRNA-seq) to analyze the heterogeneity of the myeloid cells, particularly to study tumor-assocaited macrophages in TNBC patients.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
7 Samples
Download data: RDS, TAR
Series
Accession:
GSE206638
ID:
200206638
14.

Gene expression profile of monocytes from healthy donor and triple negative breast cancer (TNBC) co-cultured with FAP and CD29 [bulk RNA-seq]

(Submitter supplied) These samples were either treatment naive or samples co-cultured with FAP and CD29. Myeloid cell subpopulation comprises denditric cells (DC), monocytes and macrophages. We used RNA sequencing to analyze the response of monocytes to FAP/CD29 co-culture.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
12 Samples
Download data
Series
Accession:
GSE206637
ID:
200206637
15.

Methylation array of shNC, shUHRF1, shDNMT1, shDNMT3B THP-1 cells before and after PMA treatment

(Submitter supplied) This methylation array was conducted to find out changes in genome-wide methylation pattern in THP-1 cells upon differentiation. Also, we tried to figure out the effects of knockdown of UHRF1, DNMT1 and DNMT3B in THP-1 cells in regulating genome-wide DNA methylation.
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL21145
8 Samples
Download data: IDAT, TXT
Series
Accession:
GSE206620
ID:
200206620
16.

Multiplexed transcriptome-based profiling of drug combinations using deterministic barcoding in picolitre-sized droplets [dataset 3]

(Submitter supplied) K562 cells were perturbed with drug combinations for 12h in droplets. Subsequently cells were processed to generate liraries for RNA-Seq.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL18573 GPL15520
199 Samples
Download data: CSV
Series
Accession:
GSE206599
ID:
200206599
17.

Osteogenic transdifferentiation of primary human fibroblasts to osteoblast-like cells with human platelet lysate

(Submitter supplied) Inherited bone disorders account for about 10% of documented Mendelian disorders and are associated with high financial burden. Their study requires osteoblasts which play a critical role in regulating the development and maintenance of bone tissue. However, bone tissue is not always available from patients. We developed a highly efficient platelet lysate-based approach to directly transdifferentiate skin-derived human fibroblasts to osteoblast-like cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
6 Samples
Download data: TSV
Series
Accession:
GSE206594
ID:
200206594
18.

Pro-Inflammatory Cytokines Mediate the Epithelial-to-Mesenchymal-Like Transition of Pediatric Posterior Fossa Ependymoma

(Submitter supplied) Pediatric ependymoma is a devastating brain cancer marked by its relapsing pattern and lack of effective chemotherapies. This shortage of treatments is due to limited knowledge about ependymoma tumorigenic mechanisms. By means of single-nucleus chromatin accessibility and gene expression profiling of posterior fossa primary tumors and distal metastases, we reveal key transcription factors and enhancers associated with the differentiation of ependymoma tumor cells into tumor-derived cell lineages and their transition into a mesenchymal-like state. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL18573 GPL24676
15 Samples
Download data
Series
Accession:
GSE206580
ID:
200206580
19.

Pro-Inflammatory Cytokines Mediate the Epithelial-to-Mesenchymal-Like Transition of Pediatric Posterior Fossa Ependymoma (single-nucleus ATAC-seq)

(Submitter supplied) Pediatric ependymoma is a devastating brain cancer marked by its relapsing pattern and lack of effective chemotherapies. This shortage of treatments is due to limited knowledge about ependymoma tumorigenic mechanisms. By means of single-nucleus chromatin accessibility and gene expression profiling of posterior fossa primary tumors and distal metastases, we reveal key transcription factors and enhancers associated with the differentiation of ependymoma tumor cells into tumor-derived cell lineages and their transition into a mesenchymal-like state. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
6 Samples
Download data: MTX, RDS, TSV
Series
Accession:
GSE206579
ID:
200206579
20.

Pro-Inflammatory Cytokines Mediate the Epithelial-to-Mesenchymal-Like Transition of Pediatric Posterior Fossa Ependymoma (single-nucleus RNA-seq)

(Submitter supplied) Pediatric ependymoma is a devastating brain cancer marked by its relapsing pattern and lack of effective chemotherapies. This shortage of treatments is due to limited knowledge about ependymoma tumorigenic mechanisms. By means of single-nucleus chromatin accessibility and gene expression profiling of posterior fossa primary tumors and distal metastases, we reveal key transcription factors and enhancers associated with the differentiation of ependymoma tumor cells into tumor-derived cell lineages and their transition into a mesenchymal-like state. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
9 Samples
Download data: MTX, RDS, TSV
Series
Accession:
GSE206578
ID:
200206578
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