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Items: 1 to 20 of 2539072

1.

Quiescent human glioblastoma cancer stem cells mediate tumor initiation, expansion, and recurrence following chemotherapy

(Submitter supplied) We performed single cell RNA sequencing with eight patient derived xenograft samples to identify quiescent cancer stem cells in glioblastoma. Additionally two samples treated with temozolomide was sequenced to examine the evolution of the cancer stem cells upon chemotherapeutics.
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24676 GPL21103 GPL20301
36 Samples
Download data: CSV
Series
Accession:
GSE190129
ID:
200190129
2.

Cohesin-mediated loop anchors confine the location of human replication origins

(Submitter supplied) DNA replication occurs through an intricately regulated series of molecular events and is fundamental for genome stability. It is currently unknown how the location of replication origins is determined in the human genome. Here, we dissect the role for topologically associating domains (TADs), subTADs, and loops in the positioning of replication initiation zones (IZs). We stratify TADs/subTADs by the presence of corner-dots indicative of loops and the orientation of CTCF motifs. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
4 Samples
Download data: BEDGRAPH
Series
Accession:
GSE190117
ID:
200190117
3.

A 3’-end capture sequencing method for high-throughput targeted gene expression profiling

(Submitter supplied) We describe a 3'-end capture sequencing method allowing a maximization of read allocation towards genes of interest using biotynilated probes.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
720 Samples
Download data
Series
Accession:
GSE190096
ID:
200190096
4.

Electrospun scaffold micro-architecture induces an activated transcriptional phenotype within tendon fibroblasts. Bulk RNA-seq data.

(Submitter supplied) Biomaterial augmentation of surgically repaired rotator cuff tendon tears aims to improve the high failure rates (~40%) of traditional repairs. Biomaterials that can alter cellular phenotypes through the provision of microscale topographical cues are now under development. We aimed to systematically evaluate the effect of topographic architecture on the cellular phenotype of fibroblasts from healthy and diseased tendons. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
48 Samples
Download data: TSV
Series
Accession:
GSE190085
ID:
200190085
5.

Transcriptome Analysis of Liver cancer cell Huh-7 Treated with Metformin

(Submitter supplied) Metformin is a kind of widely used antidiabetic agent, which regulates glucose homeostasis through inhibiting liver glucose production and increasing glucose uptake in muscle. Recent studies suggest that metformin exhibits anticancer properties in a variety of cancers. Although several antitumor mechanisms have been proposed for metformin action, its mode of action in human liver cancer remains not elucidated. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
6 Samples
Download data: XLSX
Series
Accession:
GSE190076
ID:
200190076
6.

ATOH8 inhibits cell proliferation through transcriptional regulating cell cycle related genes, and ATOH8 and SMAD3 form a transcriptional complex to induce an anti-cell cycle signature and prevent cell cycle progression

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL24676 GPL20795
6 Samples
Download data
Series
Accession:
GSE190062
ID:
200190062
7.

ATOH8 and SMAD3 form a transcriptional complex to induce an anti-cell cycle signature and prevent cell cycle progression [ChIP-seq]

(Submitter supplied) To identify ATOH8 and SMAD3 form a novel transcriptional complex, we performed chromatin immunoprecipitation followed by sequencing (ChIP-seq). Analyses of their genome occupancy profiling reveals that their genome-wide binding patterns are highly similar and they co-occupy a number of same genes. CCNE2 and CDK1 are their common downstream target genes.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
4 Samples
Download data: TXT
Series
Accession:
GSE190061
ID:
200190061
8.

ATOH8 inhibits cell proliferation through transcriptional regulating cell cycle related genes [RNA-seq]

(Submitter supplied) This experiment is designed to evaluate differential expression genes through comparing transcriptome profiling of ATOH8 overexpressing A549 with vector control.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20795
2 Samples
Download data: TXT
Series
Accession:
GSE190058
ID:
200190058
9.

Targeting the mRNA endonuclease CPSF73 inhibits breast cancer cell migration and invasion

(Submitter supplied) Cleavage by the endonuclease CPSF73 and polyadenylation of nascent RNA is an essential step in co-transcriptional mRNA maturation, and abnormal poly(A) site choices have been associated with human diseases, including cancer. Recent work has surprisingly identified CPSF73 as a promising drug target for inhibiting the growth of specific cancers. However, our understanding of the regulation of CPSF73 is still at an early stage. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
6 Samples
Download data: CSV
Series
Accession:
GSE189723
ID:
200189723
10.

A cerebrospinal fluid microRNA analysis of progressive supranuclear palsy.

(Submitter supplied) The cerebrospinal fluid miRNAs expression was markedly altered in the patients with progressive supranuclear palsy and controls.
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL29077
19 Samples
Download data
Series
Accession:
GSE186921
ID:
200186921
11.

Expression data from intestinal mucosa of patients with Crohn disease

(Submitter supplied) We used microarrays to detail the global signature of gene expression underlying endoscopic recurrence of CD and identified distinct gene signature predicting postoperative recurrence.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
489 Samples
Download data
Series
Accession:
GSE186582
ID:
200186582
12.

Post-GWAS functional analysis identifies CUX1 as a regulator of p16INK4a and cellular senescence

(Submitter supplied) Accumulation of senescent cells with age is believed to be an important driver of aging and age-related diseases. However, the underlying mechanisms and the signaling pathways that regulate senescence remain elusive. In this report, we couple high throughput (HTP) mapping of disease-associated functional SNPs (fSNPs) with proteomics analysis of fSNP-binding regulatory proteins to dissect the CDKN2A/B locus, a locus known to be associated with multiple age-related diseases, as well as overall human longevity. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
6 Samples
Download data: TXT
Series
Accession:
GSE186528
ID:
200186528
13.

circRNA expression profile of HBV-positive liver cancer cells

(Submitter supplied) A large part of liver cancer is caused by hepatitis B virus (HBV) infection. In recent years, more and more reports have proved that circular RNAs (circRNAs) has a regulatory effect on the development of cancers, but the role of circRNAs in HBV-positive liver cancer needs to be further studied. In this study, the abnormally expressed circRNAs in two HBV-positive liver cancer cells compared to another two HBV-negative liver cancer cell lines were identified through microarray analysis. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL29703
4 Samples
Download data: XLSX
Series
Accession:
GSE181988
ID:
200181988
14.

RNA seq analysis of T cells,EpCAM CAR-T cells and rapamycin-pretreated EpCAM CAR-T cells

(Submitter supplied) Purpose: Compared the differences in the transcriptome of T cells versus EpCAM CAR-T cells and EpCAM CAR-T cells versus rapamycin-pretreated EpCAM CAR-T cells.Methods: Next-generation sequencing (NGS) has revolutionized the systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived transcriptome profiling (RNA-seq) between T cells and EpCAM CAR-T cells,and between EpCAM CAR-T cells and rapamycin-pretreated EpCAM CAR-T cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
9 Samples
Download data: TXT
Series
Accession:
GSE162796
ID:
200162796
15.

Tumor-derived exosomal miR-181a-5p activates hepatic stellate cells to promote liver metastasis of colorectal cancer

(Submitter supplied) A previous study suggested that the expression of miR181a-5p was higher in CRC tissues, but whether CRC cell-derived exosomes regulate the activation of HSCs through secreting miR181a-5p and promoting CRLM warrants further investigation. We compared the miRNA expression profiles between exosomes from highly metastatic CRC cells (RKO and SW620) and those from weakly-metastatic CRC cells (HT29 and SW480).
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL24741
12 Samples
Download data: TXT
Series
Accession:
GSE141997
ID:
200141997
16.

RNA-seq of MDA-MB-231/Tet-shHOTAIR and MDA-MB-231/Tet-shCtrl cells

(Submitter supplied) To further understand the cellular function of HOTAIR, we have profiled RNA expression in breast cancer cell lines harboring tetracycline-inducible shRNA of human HOTAIR (Tet-shHOTAIR) or the control shRNA of scrambled sequence (Tet-shCtrl).
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
6 Samples
Download data: TXT
Series
Accession:
GSE123395
ID:
200123395
17.

mRNA-sequencing analysis of peripheral blood cells from an aggressive refractory pemphigus vulgaris patient

(Submitter supplied) Pemphigus vulgaris (PV) is a kind of IgG-mediated autoimmune blistering disease (AIBD). The peripheral immune system plays a vital role in the pathophysiology of pemphigus vulgaris. This study aimed to explore the changes of peripheral immune cells of the patient before and after medication administration.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
3 Samples
Download data: TXT
Series
Accession:
GSE190024
ID:
200190024
18.

RNA Sequencing in COVID-19 patients identifies neutrophil activation biomarkers as promising diagnostic platform for infections.

(Submitter supplied) Infection with the SARS-CoV2 virus can vary from asymptomatic, flu-like with moderate disease, to critically severe.  Severe disease, termed COVID-19, involves acute respiratory deterioration that is frequently fatal.  To understand the highly variable presentation, and identify biomarkers for disease severity, blood RNA from COVID-19 patient in an intensive care unit was analyzed by whole transcriptome RNA sequencing.  Both SARS-CoV2 infection and the severity of COVID-19 syndrome were associated with up to 25-fold increased expression of neutrophil-related transcripts, such as neutrophil defensin 1 (DEFA1), and 3-5-fold reductions in T cell related transcripts such as the T cell receptor (TCR). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
24 Samples
Download data: XLSX
Series
Accession:
GSE189990
ID:
200189990
19.

Transcriptional profiling of TSC2-null cell lines UMB1949 and 621-102 (TRI102)

(Submitter supplied) RNA-sequencing was performed to establish the transcriptional profiles of two cell lines used in our study. 621-102 (TRI102) were originally isolated from a lymphangioleiomyomatosis-associated renal angiomyolipoma. UMB1949 were originally isolated from a male tuberous sclerosis complex (TSC) patient with renal angiomyolipoma and immortalized via SV40 large T antigen and hTERT introduction. These samples were seuqenced as part of a larger study (Martin et al. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
2 Samples
Download data: TXT
Series
Accession:
GSE189969
ID:
200189969
20.

The RNA methyltransferase METTL8 installs m3C32 in mitochondrial tRNAsThr/Ser(UCN) to optimise tRNA structure and mitochondrial translation

(Submitter supplied) Modified nucleotides in tRNAs are important determinants of folding, structure and function. Here, we identify METTL8 as a mitochondrial matrix protein and active RNA methyltransferase responsible for installing m3C32 in the human mitochondrial (mt-)tRNAThr and mt-tRNASer(UCN). METTL8 crosslinks to the anticodon stem loop (ASL) of many mt-tRNAs in cells, raising the question of how methylation target specificity is achieved. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
2 Samples
Download data: TXT
Series
Accession:
GSE185015
ID:
200185015
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