GEO DataSets

(Submitter supplied) RNA-seq was performed to identify the genes regulated by YBX1 in cancer-associated fibroblasts in HGSOC.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

9 Samples

Download data: XLSX

(Submitter supplied) Purpose:Comparative transcriptome analyses was applied to characterize gene expression after overexpression GaTOP6B in Arabidopsis thaliana. Methods:The fresh leaves were collected from 4-week-old WT plants and transgenic Arabidopsis lines under drought treatments. The total RNA was first extracted using TRIzol Reagent (TaKaRa, Tokyo, Japan), and treated with RNase-free DNase I (TaKaRa), and then followed with mRNA purification using the Magnetic Oligo (dT) Beads (Illumina, San Diego, CA, USA) according to the manufacturer’s protocol. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

6 Samples

Download data: XLSX

(Submitter supplied) Achilles tendinopathy is often thought to be a consequence of overuse of the Cells within the Achilles tendon of healthy rats undergo a series of changes following physiologic levels of mechanical stimulation after running, and we further explored the transcriptome changes in Achilles tendon cells during post-exercise recovery. Our current experiment reveals RNA-seq analysis of the transcriptome of the rat Achilles tendon after 12 hours of rest following running.

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25947

8 Samples

Download data: TXT

(Submitter supplied) The Achilles tendon is the thickest tendon in the human body, and Achilles tendinopathy is its most prevalent disorder, often considered a consequence of overuse. While disruption to the collagen fibers represents a significant manifestation of Achilles tendinopathy, strikingly little is known about the mechanisms by which healthy tendon accumulates damage in vivo.As existing studies of tendon biomechanics and mechanobiology predominantly relied on in vitro or ex vivo experiments on isolated tissues, it is still largely unknown whether and how disruptions occur to the collagen molecules in healthy Achilles tendons following physiological activities. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25947

8 Samples

Download data: TXT

(Submitter supplied) Changes of specific gene expression after subarachnoid hemorrhage

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25947

18 Samples

Download data: XLS

(Submitter supplied) [Background] Antenatal steroid (ACS) therapy conveys lifesaving benefits to the preterm fetus. However, current treatments are associated with increased risk of growth, endocrine, and neurodevelopmental abnormalities. [Objectives] To inform ACS therapy optimisation we used a sheep model of pregnancy to test whether adverse fetal brain effects were independent of respiratory benefit and ACS pharmacokinetics. more...

Organism:

Ovis aries

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27721

48 Samples

Download data: TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL20272 GPL16324

14 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) Epigenetic regulation in response to CO2 fluctuation and epigenome-association with phenotypic plasticity of CCM are firstly uncovered in marine microalga Nannochloropsis oceanica IMET1. The result showed that Kbu and H3K9m2 histone modifications were present in N. oceanica IMET1. Moreover, both Kbu and H3K9m2 positively regulated gene expression.

Organism:

Nannochloropsis oceanica

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20272

8 Samples

Download data: BEDGRAPH, TSV

(Submitter supplied) To be consistent with ChIP-seq data in this study, transcription regulation of CCM was reaccessed. In this experiment, about 800M clean reads were obtained for each sample. Obtained clean reads in each sample were over 84%, which were then mapped to the N. oceanica IMET1 reference genome. Differential expression analysis between low CO2-treated (LC) and control (high CO2; 5% CO2; HC) samples was performed by edgeR. more...

Organism:

Nannochloropsis oceanica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16324

6 Samples

Download data: TXT

(Submitter supplied) To understand the catalytic activity-independent functions of TERT in global chromatin structure, we acutely deleted TERT in spermatogonial stem cell (SSC) populations in the testis, and performed ATAC-seq. We find significant global loss of open chromatin structure in TERT-deleted SSC populations.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21103

22 Samples

Download data: TXT

(Submitter supplied) The acquisition of knowledge pertaining to the molecular mechanisms that govern cardiomyocyte (CM) proliferation would enable the creation of novel approaches to promote cardiac regeneration in adult individuals, a crucial therapeutic objective that has yet to be accomplished. The limited regenerative response observed in adult myocardium may be attributed, in part, to the relatively low proliferative capacity of cardiomyocytes. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25947

18 Samples

Download data: BW, TXT

(Submitter supplied) For the RNA-seq experiments, two-week-old seedlings were cutting and harvested the basal ends of stem cuttings (0.5 cm). Samples were collected from two biological replicates (40 cuttings each).

Organism:

Populus ussuriensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25374

2 Samples

Download data: TXT

(Submitter supplied) Ferroptosis, an emerging nonapoptotic, regulated cell death process distinguished by iron accumulation and subsequent lipid peroxidation, is intricately implicated in the development and progression of multiple cancer types. Here, we aimed to reveal that triggering ferroptosis is a promising treatment strategy for ovarian cancer. In this study, we not only validated that daphnetin caused ferroptosis, but evaluated the effects of daphnetin (and/or cisplatin) in vitro and vivo.Here, we elucidated that daphnetin, a natural product isolated from Daphne Korean Nakai, can exert antitumor effects by inducing the death and suppressing the migration of ovarian cancer cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

18 Samples

Download data: XLS

(Submitter supplied) This study was to predict neoantigens in 1956 and F244 murine MCA-sarcomas (female C57BL/6N and male 129S6 lines, respectively). Mutations were called by comparing tumor versus normal whole exome sequencing (WES) data, and filtered for expressing mutations using RNA-seq data. Out of expressing mutations, MHC class I or II neoantigens were predicted and screened by T cell reactivities (IFN-gamma ELISPOT and tetramer staining). more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL24247

6 Samples

Download data: VCF, XLSX

(Submitter supplied) We ued CRISPR/Cas9 to knock out EphA2 gene in PC3 cells, and overexpress EphA2 gene in Du145 cells with overexpressed plasmids to explore the underlying mechanisms of EphA2 function in castration-resistant prostate cancer(CRPC) and clinical relevance, providing more evidence for EphA2 as a potential therapeutic target for CRPC.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

8 Samples

Download data: XLSX

(Submitter supplied) To investigate the effect of SELENOW KO in TA muscle of aging mice

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

6 Samples

Download data: TXT

(Submitter supplied) In this study 14 different RAF, MEK, or ERK inhibitors were tested in ASPC1 and PANC1 PDA cell lines

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

152 Samples

Download data: CSV

(Submitter supplied) High-mobility group B1 (HMGB1) is both a DNA binding nuclear factor modulating transcription and a crucial cytokine that mediates the response to both infectious and noninfectious inflammation.Recently data show that HMGB1is a RNA-binding protein also affecting splicing.Howerer we still lack understanding of the functional roles of HMGB1 in protein translation.To address theses we applied Improved RNA immunoprecipitation by UV cross-linking and deep sequencing (iRIP-seq) experiment revealed that HMGB1 selectively bound to mRNAs and structured RNAs. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL20795 GPL24676

14 Samples

Download data: TXT

(Submitter supplied) Root exudates contain specialised metabolites that affect the plant’s root microbiome. How host-specific microbes cope with these bioactive compounds, and how this ability shapes root microbiomes, remains largely unknown. We investigated how maize root bacteria metabolise benzoxazinoids, the main specialised metabolites of maize. Diverse and abundant bacteria metabolised the major compound in the maize rhizosphere MBOA and formed AMPO. more...

Organism:

Microbacterium sp. LMB2-1.2

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34376

10 Samples

Download data: TXT

(Submitter supplied) The biocontrol agent Pythium oligandrum, which is a member of phylum Oomycota, can control diseases caused by a taxonomically wide range of plant pathogens, including fungi, bacteria, and oomycetes. However, whether P. oligandrum could control diseases caused by plant root-knot nematodes (RKNs) was unknown. We investigated a recently isolated P. oligandrum strain GAQ1, and the P. oligandrum CBS530.74 strain, for the control of RKN Meloidogyne incognita infection of tomato (Solanum lycopersicum L.). more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27957

6 Samples

Download data: TXT