Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Antibiotic-induced longevity benefits in Escherichia coli

ABSTRACT: The genomes of Escherichia coli growing in doxycycline and drug-free media over 21 days.

PROVIDER: PRJEB56505 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Effects of dynamic compressive loading on MSC chondrogenesis

Project description:Long-term dynamic compression enhanced the mechanical properties of MSC-seeded constructs only when loading was initiated after 21 days of chondrogenic differentiation. This study examined the molecular differences of chondrogenic MSCs compared to undifferentiated MSCs (TGF-beta vs no TGF-beta) and the effects of dynamic loading on MSC chondrogenesis (loading vs free-swelling). Free-swelling MSC-seeded constructs were cultured for 21 days in chemically defined media. Chondrogenesis was induced with TGF-beta3. Undifferentiated controls were maintained in parallel. After 21 days of chondrogenic differentiation, a subset of constructs were subjected to 21 days of dynamic compressive loading. On days 21 and 42, construct mechanical properties and biochemical content were assessed. Microarray analysis was carried out on day 3, day 21 and day 42 constructs. 6 arrays.

2010-11-01 | E-GEOD-18879 | biostudies-arrayexpress

Effect of doxycycline treatment on germ-free mice

Project description:To characterize the mitochondrial stress response induced by Doxycycline in vivo in liver and kidneys, we administered doxycycline (Dox) at 500 mg/kg/day (mpkd) in the drinking water to 9 weeks-old germ-free C57BL/6J mice for 16 days, hence eliminating the potential confounding impacts of Doxycycline on the microbiome.

2022-09-14 | GSE202754 | GEO

Real-time quantitative PCR analysis of human induced T regulatory cells (Tregs) for metabolic enzymes

Project description:Human naïve CD4 T cells were purified from healthy volunteers' blood and were differentiated into induced Tregs in vitro by culturing for 5 days in the presence of anti-CD3 and CD28 antibodies (2 µg/ml each), IL-2 (100 units/ml) and TGF-β1 (5 ng/ml) for 5 days, then in presence of anti-CD3 and CD28 antibodies for 2 days. Human iTregs were harvested on day 7 post differentiation, then treated with either vehicle or IL-21 (100 ng/ml) in serum-free RPMI media for 18 hours.

2023-04-30 | GSE224033 | GEO

Single cell RNA sequencing of CellTagging lung organoids

Project description:Here, we used a lentiviral-based barcoding method (CellTagging) to lineage trace progenitor cells in a human lung organoid model. 21-day cultures were transduced for 7 days, fluorescence activated cell sorted for GFP+ expression, and regrown as sparsely plated cells for additional 30 days before sequencing. Cultures were grown in serum-free basal media supplemented with FGF-10, A-8301, NOGGIN, and Y-27632 (‘DSI media’).

2023-04-21 | E-MTAB-12753 | biostudies-arrayexpress

Time course of serum starved ARPE19 cells

Project description:Cells from the human retina pigment epithilium cell line, ARPE-19, were cultured in media supplemented with 10% fetal bovine serum. Then, the supplemented media was replaced with serum free media. Cells were collected and RNA prepared from the serum free cultures on days 0, 1, 3, 5, and 7. Changes in gene expression were calculated using the day0 sample for reference.

2014-12-13 | GSE64116 | GEO

Comparison of HEK293T cells grown in serum supplemented media to cells serum starved for 3 days

Project description:HEK293T cells grown to confluence in media +10% fetal bovine serume. Media was removed and replaced with serum free media, and cultured for 3 days. RNA was harvested from day0 (serum supplemented), control, and day3 (serum starved) cultures, experiment.

2014-12-13 | GSE64117 | GEO

RNA-seq data for: A conserved mito-cytoplasmic translational balance links two longevity pathways

Project description:Slowing down mRNA translation in either the cytoplasm or the mitochondria are both conserved longevity mechanisms. Here, we found a non-interventional natural correlation of mitochondrial and cytoplasmic ribosomal proteins when looking at mouse population genetics, suggesting a mito-cytoplasmic translational balance. Additionally, inhibiting mitochondrial translation in C. elegans in turn reduced cytoplasmic translation and repressed growth pathways while upregulating stress responses at both proteome and transcriptome levels. This coordinated repression of cytoplasmic translation is dependent on the atf-5/Atf4 transcription factor and is conserved in mammalian cells upon inhibiting mitochondrial translation pharmacologically with the antibiotic doxycycline. Lastly, extending this to a mammalian setting using doxycycline-treated germ-free mice, we found repressed cytoplasmic translation and ribosomal proteins in liver. These data demonstrate that inhibiting mitochondrial translation initiates a signaling cascade leading to coordinated repression of cytoplasmic translation, unlike previously described unidirectional cyto-to-mito translational communication in yeast, which can be targeted to promote healthy aging.

2019-12-11 | GSE122097 | GEO

Bulk RNA-seq of mouse ileum of Lactobacillus rhamnosus GG or Ruminococcus gnavus monoassociated mice.

Project description:Lacticaseibacillus rhamnosus GG (LGG) is a widely consumed probiotic whose potential beneficial effects in humans have been examined in over 250 clinical trials. However, the mechanisms by which LGG modulates host gut physiology remains unknown. R. gnavus is a pathobiont that is strongly associated with inflammatory bowel diseases. Germ free mice were mono-associated with L. rhamonosus (LGG) or R. gnavus (RG) for 21 days, ileum bulk RNA-seq were performed to compare the transcriptomic profiles of LGG or RG associated mice with the transcriptome of germ-free mouse ileum.

2023-10-01 | GSE237101 | GEO

Genome-wide analysis gene expression of MCF10A cells growing in the presence of EGF or AREG or without EGF or AREG for 24 hrs

Project description:Results of growing MCF10A cells continuously in serum free media supplemented with EGF (MCF10A) or AREG (MCF10A+AREG) followed by 24 hours of ligand withdrawl and measuring gene expression provides information as to what genes are regulated by AREG and EGF in a normal mammary epithelial cell model

2010-12-23 | GSE26264 | GEO

AltitudeOmics methylation data

Project description:Acclimatization to high altitude over 21 days, and upon re-ascent 7 and 21 days post-descent. See Subudhi et al. (2014) PLOS ONE 9(3):e92191, PMCID PMC3962396 for experiment details.

2017-10-19 | GSE105123 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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