Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Droplet-based single-cell RNA-sequencing facilitates trancritption analysis of small intestine CD4 cells from Germline free Xbp1ΔIEC and Xbp1fl/fl

ABSTRACT: We performed theDroplet-based single-cell RNA-sequencing on small intestine CD4 cells from Germline free(GF) Xbp1ΔIEC and Xbp1fl/fl mice and found the effect of ER stress in epithelia cells on CD4 cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE168947 | GEO | 2023/03/13

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

RNA-seq of small intestine tissues from VHL(fl/fl) and Ncr1(Cre)VHL(fl/fl) mice

Project description:RNA-seq of small intestine tissues from VHL(fl/fl) and Ncr1(Cre)VHL(fl/fl) mice

| PRJEB49117 | ENA

RNA-seq of small intestine tissues from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

Project description:RNA-seq of small intestine tissues from Hif1a(fl/fl) and Ncr1(Cre)Hif1a(fl/fl) mice

| PRJEB49118 | ENA

Droplet-based single-cell RNA-sequencing facilitates transcription analysis of small intestine epithelial cells from SubAA273IEC and littermate control

Project description:We performed theDroplet-based single-cell RNA-sequencing on small intestine epithelial cells from SubAA273IEC and littermate control and found the effect of ER stress in epithelia cells on epithelial cells.

2023-03-13 | GSE203538 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Reverb fl/fl and Reverb fl/fl /MHC+ cardiac Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Reverb fl/fl and Reverb fl/fl /MHC+ cardiac Transcriptomes

| PRJNA639127 | ENA

RNA seq of vhlfl/fl cd4 cre, hif1afl/fl vhlfl/fl cd4 cre and WT CD4 T cells before and after anti-CD3/CD28 stimulation

Project description:Purpose: We compared the transcriptomes of murine CD4 T cells lacking either the vhl gene ( vhlfl/fl cd4 cre (vhl cKO) ) or both vhl and hif1a (hif1afl/fl vhlfl/fl cd4 cre (dcKO)) with WT controls before and 24 h after T cell receptor stimulation using anti-CD3/CD28. Results: Using an optimized data analysis workflow, about 45-60 million sequence reads per sample to the mouse genome (build mm10) and identified ca 12500 transcripts in the CD4 T cells of WT and mutant mice after performing HISAT2 alignements to the mm10 reference. Conclusion: the segregation of the transcriptome of unstimulated WT CD4 T cells as compared to the other groups. Within the TCR-stimulated groups the gene expression of vhl cKO CD4 T cells differed to that of WT and vhl hif1a dcKO CD4 T cells which showed in comparison important similarity between them

2022-06-01 | GSE190791 | GEO

RNA-seq of fetal murine intestine, brain and placenta from germ-free vs specific pathogen free dams

Project description:The effects of maternal microbiota on the fetal development was investigated by comparing tissues of fetuses from germ-free (GF) and normal (SPF) murine dams using RNA-seq and non-targeted metabolomics (for metabolomics data, see: https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-022-02457-6). For RNA-seq, two E18.5 fetuses were collected from 6 GF dams and 6 SPF dams, and transcriptomes analyzed by QuantSeq in whole intestine, brain and placenta.

2022-12-17 | E-MTAB-12442 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Quantitative Analysis of Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl Incisor Transcriptomes

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived incisor transcriptome profiling (RNA-seq) between Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice to identify the potential target of Runx2. Methods: Incisor mRNA profiles from one week after induction of one-month-old Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice were generated by deep sequencing, in triplicate, using Illumina NextSeq500. Results: Using an optimized data analysis workflow, we mapped about 68 million sequence reads per sample to the mouse genome ( mm10) and identified 80,214 transcripts in th incisors of Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice with Partek E/M workflow. Five hundred and eleven differentially regulated genes were identified (＞2-fold, p＜0.05), of which 299 were upregulated and 212 were downregulated.

2020-03-05 | GSE146332 | GEO

RNA seq of vhlfl/fl cd4 cre, hif1afl/fl vhlfl/fl cd4 cre and WT CD4 T cells before and after anti-CD3/CD28 stimulation

Project description:RNA seq of vhlfl/fl cd4 cre, hif1afl/fl vhlfl/fl cd4 cre and WT CD4 T cells before and after anti-CD3/CD28 stimulation

| PRJNA788478 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl Mouse Molar Transcriptomes

Project description:Purpose: To study the function of Runx2 on mouse tooth root development. The goals of this study are to compare NGS-derived molar transcriptome profiling (RNA-seq) bwtween Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice to identify the potential downstream target of Runx2. Methods: molar mRNA profiles from PN7.5 Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice (induction at PN3.5) were generated by deep sequencing, using Novaseq. Results: Using an optimized data analysis workflow, we mapped about 68 million sequence reads per sample to the mouse genome ( mm10) and identified 80,214 transcripts with Partek E/M workflow. 427 differentially regulated genes were identified (＞1.8-fold, p＜0.05), of which 219 were upregulated and 208 were downregulated.

2020-08-31 | GSE151562 | GEO

Transcriptomic profiling of ex vivo isolated CD3+CD4+ T cells from spleens of colitic Rag-/- mice received naïve ERαfl/fl and CD4CreERαfl/fl CD4+ T cells

Project description:To study the role of estrogen receptor alpha (ERα) in T cell mediated inflammation, colitis was induced in Rag-/- mice by injecting FACS sorted CD4 T cells from control (ERαfl/fl) and ERα deficient (CD4CreERαfl/fl). After 8 weeks of injection, the CD4+ T cells were FACS sorted from Rag-/- spleens. RNA extraction was carried out and libraries were prepared using Illumina TruSeq RNA sample Preparation kit according to the manufacturer’s instructions.

2018-03-23 | GSE107284 | GEO

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