Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Next Generation Sequencing Facilities Quantitative Analysis of Wild type iNKT cells at stage2 and stage3 transcriptomes

ABSTRACT: Next Generation Sequencing Facilities Quantitative Analysis of Wild type iNKT cells at stage2 and stage3 transcriptomes

PROVIDER: PRJNA420959 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR6342040_1.fastq.gz	Fastqsanger.gz
	SRR6342040_2.fastq.gz	Fastqsanger.gz
	SRR6342041_1.fastq.gz	Fastqsanger.gz
	SRR6342041_2.fastq.gz	Fastqsanger.gz
	SRR6342042_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Next Generation Sequencing Facilities Quantitative Analysis of Wild type iNKT cells at stage2 and stage3 transcriptomes

Project description:Purpose:Next Generation Sequencing applying for compare the iNKT cells at stage2 and stage3 distict transcriptome, included pathway-enrichment analysis and genes expression of interests Methods:iNKT cells at stage2 and stage3 were isolated from thymus in 6 week old wild type mice by cell sorting. RNA was extracted, purified and checked for integrity using an Agilent Bioanalyzer 2100. Libraries were generated for sequencing using the SMARTer Stranded Total RNA-Seq Kit - Pico Input Mammalian. Libraries were sequenced using an Illumina HiSeq X Ten sequencer. Resluts: Using an optimized data analysis workflow, we mapped about 30 million sequence reads per sample to further analyse Conclusions:Our study represents the detailed analysis of iNKT cells at stage2 and stage3 transcriptomes, with biologic replicates

2018-08-10 | GSE107642 | GEO

Next generation sequencing facilities quantitative analysis of SHARPIN knockout or non-target LoVo cells

Project description:Next generation sequencing facilities quantitative analysis of SHARPIN knockout or non-target LoVo cells

| PRJNA1074367 | ENA

iNKT gene profiling_Map3k1

Project description:Transcriptional profiling of iNKT gene expression in Map3k1 control and mutant mice

2016-06-01 | E-MTAB-1561 | biostudies-arrayexpress

Expression data of hepatic iNKT cells from pLck-hCD1d transgenic mice

Project description:CD1d expression by thymocytes is required to select iNKT cells. When CD1d is expressed only on thymocytes (pLck-CD1d tg mice), iNKT cells are hyperresponsive to antigen stimulation suggesting that, in physiological conditions, these cells undergo functional education mediated by additional CD1d-expressing cells. Here, we investigated the mechanisms of this functional education. We find that peripheral iNKT cells from pLck-CD1d tg mice express significantly less SHP-1, a tyrosine phosphatase negatively regulating TCR signaling, than WT cells. iNKT cells from heterozygous SHP-1-mutated motheaten mice, displaying similar SHP-1 reduction as pLck-CD1d tg iNKT cells, are antigen-hyperresponsive. Restoring normal CD1d expression in pLck-CD1d tg mice normalizes SHP-1 expression and responsiveness of iNKT cells. In WT mice, iNKT cells upregulate SHP-1 and decrease responsiveness upon emigration from thymus to periphery. This depends on contacts with CD1d-expressing DCs. iNKT cell functional education is therefore controlled by DCs via tuning SHP-1 expression level in the periphery. Hepatic iNKT cells from wild-type and transgenic mice (expressing hCD1d molecule under the pLck promoter)

2013-03-01 | E-GEOD-42835 | biostudies-arrayexpress

RNA sequencing of WT and Uhrf1 KO iNKT cells

Project description:Deletion of Uhrf1 resulted in stage 1-specific defects during iNKT cell development. To investigate the molecular mechanism, we sorted WT and Uhrf1-KO stage 1 iNKT cells and performed RNA-seq. By comparing gene expression profile, we found metabolic defects in Uhrf1-KO stage 1 iNKT cells. The expression of CD71 (Tfrc), two subunits of CD98 (Slc3a2 and Slc7a5) and Glut3 (Slc2a3) was reduced in stage 1 iNKT cells. Besides, the downstream pathways of AKT-mTOR axis were significantly reduced. Collectively, our results suggest that Uhrf1 is required for iNKT cell development by regulating the Akt-mTOR signaling pathway. We first sorted WT and Uhrf1-KO stage 1 iNKT cells, extracted the mRNA and performed RNA-seq. We then analyzed the differentially expressed genes and performed KEGG pathway analysis. We used RT-PCR to verify the expression of the key nutrient related genes (Tfrc, Slc3a2, Slc7a5 and Slc2a3) and used flow cytometry to test the protein level of metabolic related molecules. Besides, we also analyzed the expression of genes of mTOR downstream pathways to demonstrate that Uhrf1 mediated AKt-mTOR axis regulates iNKT cell development.

2016-03-10 | E-GEOD-77941 | biostudies-arrayexpress

Next generation sequencing facilities quantitative analysis of ASAP2 knockout or wild-type Panc1 and MiaPaCa2 cells

Project description:Next generation sequencing facilities quantitative analysis of ASAP2 knockout or wild-type Panc1 and MiaPaCa2 cells

| PRJNA628186 | ENA

Next generation sequencing facilities quantitative analysis of negative control HCT116 cells and 5MP1-overexpressed HCT116 cells.

Project description:Next generation sequencing facilities quantitative analysis of negative control HCT116 cells and 5MP1-overexpressed HCT116 cells.

| PRJNA484417 | ENA

Transcription profiling of human right ventricular samples acquired during cardiac surgery

Project description:Right ventricular samples were serially acquired during surgical repair of ventricular septal defect. Expression profiling revealed three patterns of gene expression: (1) increased expression above control levels within one hour of cardioplegic arrest, with further amplification during early reperfusion; (2) increased expression limited to the reperfusion phase; and (3) reduced expression during reperfusion. Experiment Overall Design: 4 replicates each: Experiment Overall Design: Stage2, End-ischemia Experiment Overall Design: Stage1, Immediately post-cardioplegic arrest Experiment Overall Design: Stage3, After 5 min. Reperfusion

2008-06-14 | E-GEOD-6381 | biostudies-arrayexpress

RNA-seq of human iNKT cells primed with Porphyromonas gingivalis

Project description:We performed RNA sequencing of primary human iNKT cell lines pulsed with Porphyromonas gingivalis (Pg) compared to basal activated iNKT cells.

2025-01-02 | E-MTAB-14021 | biostudies-arrayexpress

Mouse iNKT cell: Wild type Vs Bcl11b deficient

Project description:Transcriptional profiling of mouse iNKT cells comparing wild type and Bcl11b deficient cell. The mice were treated with 4 Î¼g of Î±-galactosylceramide. Goal was to determine the effects of transcription factor Bcl11b removal in iNKT cells. Intraperitoneal treatment with 4 Î¼g of Î±-Galactosylceramide. Two pair of wild type (BCL11b F/F VÎ±14 transgenic) and Knock out (BCL11b F/F PLZF-Cre VÎ±14 transgenic)) mice were treated. Lymphocytes from spleen and liver were enriched and stain with PBS-57 Loaded CD1d tetramer. Pure iNKT cells were collected through cell sorter.

2016-08-10 | E-GEOD-73679 | biostudies-arrayexpress

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