Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Total RNA-Seq of primary hepatocytes treated with serum of conventionally raised (convR) and Germ-free (GF) male and female mice.

ABSTRACT: Total RNA-Seq of primary hepatocytes treated with serum of conventionally raised (convR) and Germ-free (GF) male and female mice.

PROVIDER: PRJNA471913 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7181430_1.fastq.gz	Fastqsanger.gz
	SRR7181430_2.fastq.gz	Fastqsanger.gz
	SRR7181440_1.fastq.gz	Fastqsanger.gz
	SRR7181440_2.fastq.gz	Fastqsanger.gz
	SRR7181450_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 240

Similar Datasets

Transcriptional profiling of 53 tissue samples from germ-free and conventionally raised mice

2014-01-31 | GSE31115 | GEO

Transcriptional profiling of 77 tissue samples from germ-free and conventionally raised mice.

2011-12-08 | GSE17438 | GEO

Transcriptional profiling of 53 tissue samples from germ-free and conventionally raised mice

Project description:Whole-transcriptome survey of gene expression differences between germ-free (GF) and conventionally raised (CONV-R) mice. To assess the role of toll-like receptor signalling, both wild-type and Myd88 -/- mice were used. Three different tissues were harvested from 20 mice (5 WT CONV-R, 5 Myd88 -/- CONV-R, 4 WT GF, 6 Myd88 -/- GF) and expression profiles were determines using the Affymetrix Mouse Gene 1.0ST platform.

2014-01-31 | E-GEOD-31115 | biostudies-arrayexpress

Genome-wide Expression Differences in Colonocytes Isolated From Conventionally Raised or Germfree Mice

Project description:Microarray transcriptome analysis of colonocytes from conventionally raised and germfree mice. 12 samples were analyzed, with 6 germfree (GF) samples vs. 6 conventionally raised (CONV) samples.

2011-03-15 | E-GEOD-27950 | biostudies-arrayexpress

Transcriptional profiling of intestinal tissue samples from germ-free and conventionally raised mice which are either wild-type or Myd88-/-

Project description:Whole-transcriptome survey of gene expression differences between germ-free (GF) and conventionally raised (CONV-R) mice. To assess the role of toll-like receptor signalling, both wild-type and Myd88 -/- mice were used. Four different tissues were harvested from 20 mice (5 WT CONV-R, 5 Myd88 -/- CONV-R, 4 WT GF, 6 Myd88 -/- GF) and expression profiles were determines using the Affymetrix Mouse Gene 1.0ST platform. 77 samples remained after quality control.

2011-12-08 | E-GEOD-17438 | biostudies-arrayexpress

RNA-seq analysis of conventionally raised zebrafish larvae compared to germ-free zebrafish larvae and germ-free larvae treated with zebrafish metabolites.

Project description:Here, we explore the impact of rearing zebrafish embryos in the absence of microbes on early neural development as well as investigate whether any potential changes can be rescued with treatment of metabolites derived from the zebrafish gut microbiota. RNA was extracted from a pool of five heads for each treatment at long-pec stage (2 days post fertilization) and sequenced at a depth of 80-100 million reads per sample. We identified 361 genes significantly down regulated in GF embryos compared to conventionally raised embryos via RNA-Seq analysis. Of these, 42 were rescued with the treatment of zebrafish gut-derived metabolites to GF embryos. Gene ontology analysis revealed that these genes are involved in prominent neurodevelopmental pathways including transcriptional regulation and Wnt signalling.

2022-01-01 | GSE182725 | GEO

Genome-wide Expression Differences in Colonocytes Isolated From Conventionally Raised or Germfree Mice

Project description:Microarray transcriptome analysis of colonocytes from conventionally raised and germfree mice.

2011-03-15 | GSE27950 | GEO

Total RNA-Seq of primary hepatocytes treated with serum of conventionally raised (convR) and Germ-free (GF) male and female mice.

Project description:Gut microbiota and the circadian clock are both key regulators of the metabolic processes. Although recent evidence points to the impact of the circadian clock on microbiota, gut microbiota effect on diurnal host gene expression remains elusive. A transcriptome analysis of germ-free mice reveals subtle changes in circadian clock gene expression. However, a lack of microbiome leads to liver feminization and alters the expression of male-specific genes involved in lipid metabolism and xenobiotic detoxification associated with sustained activation of the Growth Hormone pathway. These results emphasize the mutual interaction of gut microbiota and its host even on unexpected functions.

2018-09-01 | GSE114613 | GEO

The transcriptome profiling analysis of intestines and kidneys in conventionally raised (CV) and germ-free (GF) wild type zebrafish embryos

Project description:To investigate how the zebrafish embryos respond to the absence of the microbiota, the intestinal tissue-associated and the kidney tissue-associated gene expressions were examined at 5 dpf and 7 dpf respectively. 32,948 cDNAs of the zebrafish genome assembly were annotated after reads mapping for further analysis. For the 5 dpf intestinal tissue samples, 948 genes (4% of the total number of genes) were differentially expressed, 371 genes were up-regulated and 577 genes were down-regulated in the GF group . For the 7 dpf kidney tissue samples, 697 genes (3% of the total number of genes) were differentially expressed, 341 genes were up-regulated and 356 genes were down-regulated in the GF group. The enrichment analysis showed that the immune and cytokine related pathways were affected by the GF treatment in the wildtype embryos (both in intestines at 5 dpf and in kidneys at 7 dpf). To investigate how the transcriptome changes in the chd8-/- zebrafish embryos, the intestinal tissue-associated and the kidney tissue-associated gene expressions were examined at 5 dpf and 7 dpf respectively.

2023-03-15 | GSE200577 | GEO

The transcriptome profiling analysis of intestines and kidneys in conventionally raised (CV) and germ-free (GF) wild type zebrafish embryos

Project description:The transcriptome profiling analysis of intestines and kidneys in conventionally raised (CV) and germ-free (GF) wild type zebrafish embryos

| PRJNA825466 | ENA

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