Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

9 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene Expression Analysis of the Short Term Ingestion of Titanium Dioxide Nanofibers

ABSTRACT: Titanium dioxide nanofiber (TDNF) is widely used in the manufacture of various household products including cosmetics. As a result, there is a possibility of negative impact on human health. The goal of the present study is to investigate the short-term effects of titanium dioxide nanofiber ingestion of male Sprague Dawley rats. TDNF was fabricated via electrospinning method, followed by dissolution in water. Six- to seven-week-old male Sprague Dawley rats were exposed to a total of 0, 40, and 60 ppm of TDNF for 2 weeks via oral gavage. Lungs and other tissues were autopsied and excised immediately frozen in liquid nitrogen and stored at -80 deg C until analysis. Total RNA was converted to single-stranded sense-target, fragmented, labeled, and hybridized to the Affymetrix Rat Gene ST 2.0 microarray according to the manufacturer’s protocol.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Worlanyo Eric Gato

PROVIDER: E-MTAB-13260 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Investigation of the Dietary Ingestion of 2-Aminoanthracene in Sprague Dawley Rats using genomic tools.

Project description:The present research focuses on 2-aminoanthracene (2AA), recognized as a derivative of PAHs. The Centers for Disease Control and Prevention (CDC) characterizes PAHs as exhibiting properties that adversely affect the health of various living organisms. These compounds increase the risk of neoplasms in humans and animals and are implicated in the increase of genetic mutations. 2AA, an aromatic amine, has demonstrated elevated carcinogenic and mutagenic potential on animals7. In the long term, exposure to PAHs may cause damage to the liver and kidneys. Furthermore, 2AA has been associated with the onset of early diabetic symptoms9. Consumption of 2AA by Sprague-Dawley rats has shown inflammatory and genetic overregulation, increased glucose, and decreased insulin production. This study aims to examine the hepatic impact of 2AA ingestion by Sprague-Dawley Rats. Rats have anatomical structures of the organs similar to those of humans, so they are suitable for research in biomedical science.

2023-07-21 | E-MTAB-13061 | biostudies-arrayexpress

Transcriptome of human glioblastoma stem cells isolated from four patients

Project description:The transcriptome of human glioblastoma stem cells (GSCs) isolated from brain tumours of four patients (#5, #7, #8, #9) was comparatively analysed among them and in respect to common established human glioblastoma cell lines (U87MG, U373MG) and non-transformed human neural stem cells (NSCs). Cells were grown under optimal culture conditions, total RNA carefully isolated form the seven cell samples, and then subjected to global transcriptomic analysis in Array

2021-07-12 | E-MTAB-9346 | biostudies-arrayexpress

Formaldehyde-induced changes in microRNA signaling [Agilent]

Project description:MicroRNAs (miRNAs) are critical regulators of gene expression, yet much remains unknown regarding miRNA changes resulting from environmental exposures and whether they influence pathway signaling across various tissues and time. To gain knowledge on these novel topics, we set out to investigate in vivo miRNA responses to inhaled formaldehyde, an important air pollutant known to disrupt miRNA expression profiles. Rats were exposed by inhalation to either 0 or 2 ppm formaldehyde (6 hours/day) for 7 days, 28 days, or 28 days followed by a 7 day recovery. Genome-wide miRNA expression profiles and associated signaling pathways were assessed within the nasal respiratory mucosa, circulating mononuclear white blood cells (WBC), and bone marrow (BM). Male Fischer rats received nose-only inhalation exposures of 2 ppm formaldehyde. Three exposure durations were investigated: (1) 2 ppm formaldehyde exposure, 6 hours/day, for 7 days (7-day group), (2) 2 ppm formaldehyde exposure, 6 hours/day, for 28 days (28-day group), and (3) 2 ppm formaldehyde exposure, 6 hours/day, for 28 days, with a 7 day recovery period following the last exposure (28-day plus recovery group). Control (unexposed) rats were placed in nose-only exposure tubes containing room air for the same duration. After the last exposure period (or the last recovery period for the 28-day plus recovery group), animals were euthanized. RNA were assessed from sampes collected from the nasal epithelium, circulating white blood cells, and bone marrow cells. Genome-wide miRNA expression profiles were evaluated using microarrays.

2014-01-07 | E-GEOD-42393 | biostudies-arrayexpress

Formaldehyde-induced changes in microRNA signaling

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-01-07 | E-GEOD-42395 | biostudies-arrayexpress

Hepatic expression data from 2-stage carcinogenesis study in rats

Project description:Hepatic gene expression profiles in 2-stage carcinogenesis study were analyzed with comprehensive DNA methylation data. Combined analysis suggested that PTEN signaling and immune response such as antigen presentation was related to one side of early heapatocarcinogenesis. We used microarrays to obtain the global gene expression profile of livers to understand the mechanism of carcinogenesis. Rat livers sampled at the timing of partial hepatectomy and terminal euthanasia were subjected to RN extraction and hybridization on Affymetrix microarrays. We sought to obtain hepatic gene expression data treated with various initiators and their succession. Briefly, each liver at 5w (partial hepatectomized sample) and 10w (terminal sample) from same animal were subjected to microarray analysis. MC (methylcellulose) and water mean vehicle of initiator and promoter, respectively. As an initiator, diethylnitrosamine (DEN), thioacetamide (TAA), methapyrilene (MP) and acetaminophen (APAP) were administered. As a promoter, phenobarbital (PB) was given in drinking water.

2016-10-24 | E-GEOD-51797 | biostudies-arrayexpress

Formaldehyde-induced changes in microRNA signaling [Affymetrix]

Project description:In addition to gaining knowledge on in vivo miRNA responses to formaldehyde, we set out to relate these miRNA responses to transcriptional profiles modified by formaldehyde. Rats were exposed by inhalation to either 0 or 2 ppm formaldehyde (6 hours/day) for 28 days. Genome-wide transcriptional profiles and associated signaling pathways were assessed within the nasal respiratory mucosa and circulating mononuclear white blood cells (WBC). Male Fischer rats received nose-only inhalation exposures of 2 ppm formaldehyde for 7 days or 28 days (6 hours/day). Control (unexposed) rats were placed in nose-only exposure tubes containing room air for the same duration. After the last exposure period, animals were euthanized. RNA were assessed from sampes collected from the nasal epithelium and circulating white blood cells. Genome-wide mRNA expression profiles were evaluated using microarrays.

2014-01-07 | E-GEOD-42394 | biostudies-arrayexpress

Regulation of the cardiac transcriptome by the E3 ubiquitin ligase Huwe1.

Project description:Analysis of the cardiac transcriptome by heart-specific acute genetic ablation of Huwe1 in adult male mice employing a tamoxifen-inducible Cre-loxP system.

2016-09-30 | E-MTAB-5112 | biostudies-arrayexpress

Global Changes in Chlamydomonas Gene Expression Regulated by Carbon Dioxide and CIA5/CCM1

Project description:We used RNA-Seq to query the Chlamydomonas reinhardtii transcriptome for regulation by CO2 concentration and by the transcription regulator CIA5(CCM1). Both CO2 concentration and CIA5 are known to play roles in induction of an essential CO2-concentrating mechanism (CCM), but the degree of interaction and the extent of global regulation beyond the CCM were not previously understood. We compared the transcriptome of a wild type strain vs. a cia5 strain under 3 CO2 supply conditions: high CO2 (H-CO2; 5%); low CO2 (L-CO2; 0.03 to 0.05%); and very-low CO2 (VL-CO2; <0.02%). Our goals were to: 1) reveal candidate genes that, through changes in their expression, distinguish multiple acclimation states induced by H-CO2, L-CO2, and VL-CO2; 2) reveal genes regulated directly or indirectly by CIA5; and 3) reveal genes responding to the interaction between CIA5 and changes in CO2 concentration. Our results revealed a small group of genes as encoding putative Ci transporters based on their expression patterns. The results also showed a massive and much broader impact on global gene regulation by CIA5/CCM1, which directly or indirectly affected 15% of the Chlamydomonas genome. The transcriptomes under L-CO2 and VL-CO2 conditions were not significantly different, suggesting that these two acclimation states must be controlled by mechanisms operating beyond transcript abundance. Both 137c wild type (cc125) and cia5 mutant were induced for 4 hours induction under H-CO2 (5%), L-CO2 (300~500 ppm), and VL-CO2 (100~200 ppm) conditions. 2 biological replicates were done for each strain -CO2 combination.

2012-08-10 | E-GEOD-33927 | biostudies-arrayexpress

Rat Pancreatic Tissue From Animals Fed Either an Iron Deficient or Iron Loaded vs. Iron Adequate Diet

Project description:Microarray analysis of pancreatic tissue comparing gene expression in rats fed an iron deficient or iron loaded diet vs. iron adequate diet. Goal was to determine changes in gene expression in response to iron status. 2 separate two-condition experiments: iron deficient (FeD) vs. iron adequate (FeA), and iron overload (FeO) vs. iron adequate (FeA). Performed in dye-switched duplicates. Samples pooled (n=6).

2013-02-27 | E-GEOD-44699 | biostudies-arrayexpress

Discontinuation of chronic delta-9-tetrahydrocannabinol diminishes impact on male fertility and the sperm epigenome in rhesus macaques

Project description:Cannabis is commonly used amongst reproductive age males. Our group and others have shown that chronic delta-9-tetrahydrocannabinol (THC) use adversely impacts male fertility, but less is known about the potential reversibility of these changes. Our study’s objective was to determine if THC discontinuation mitigates THC-associated changes in male reproductive health using a rhesus macaque (RM) model of daily THC edible consumption over a 280-day period (4 spermatogenic cycles). Testicular volume, serum male hormones, semen parameters, sperm DNA fragmentation, seminal fluid proteomics, and whole genome bisulfite sequencing (WGBS) of sperm DNA were assessed at pre-THC, moderate-THC, and heavy-THC dosing, and at 70 and 140 days after THC discontinuation. Chronic THC use resulted in significant testicular atrophy, increased gonadotropins, decreased serum sex steroids, and increased DNA fragmentation. THC discontinuation led to partial recovery of testicular volume, sex steroids and sperm DNA integrity. Seminal fluid proteome analysis revealed differential expression of proteins enriched for processes related to cellular secretion, immune response, and fibrinolysis. WGBS identified significant differential methylation in heavy-THC versus pre-THC sperm, with partial restoration of methylation after discontinuation of THC. Genes associated with differentially methylated regions (DMRs) were enriched for pathways involved in nervous system development and function. This is the first study demonstrating that chronic THC use in RMs adversely impacts male reproductive health, methylation of genes involved in development, and expression of proteins important for male fertility. THC discontinuation improves impacts to male fertility, including partial restoration of THC-associated sperm DMRs in genes important for development.

2023-05-18 | PXD039802 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data