Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome profiling of Bma1 knock out mouse by RNASeq

ABSTRACT: Transcriptome profiling of Bma1 knock out mouse by RNASeq

PROVIDER: PRJEB8913 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR793472_1.fastq.gz	Fastqsanger.gz
	ERR793472_2.fastq.gz	Fastqsanger.gz
	ERR793473_1.fastq.gz	Fastqsanger.gz
	ERR793473_2.fastq.gz	Fastqsanger.gz
	ERR793474_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 32

Similar Datasets

ARRDC4 knock out Mouse Heart Analysis

Project description:ARRDC4 knock out Mouse Heart Analysis

| PRJNA773414 | ENA

Transcriptome of FERRY component knock-out cell lines

Project description:Goal: elucidate transcriptomic changes upon knock-out of components of the FERRY complex Methods: RNA extraction from HeLa wildtype and fy-1, fy-2, fy-4 and fy-5 knock-out celllines and subsequent RNASeq Results: We observed differences in the transcriptome of all four knock-out cell lines Conclusions: In the Analysis we focused on genes that were differentially expressed in all four KO cell lines or upon KO of fy-1 and fy-2.

2023-04-27 | GSE230114 | GEO

RNA-Seq profiling of BIN1 knock-out mouse microglia cells

Project description:RNA-Seq profiling of BIN1 knock-out mouse microglia cells

| PRJNA549308 | ENA

Mouse HFD Liver Skeletal Muscle SLC16A13 Knock-Out

Project description:Mouse HFD Liver Skeletal Muscle SLC16A13 Knock-Out

| PRJNA641022 | ENA

Transcriptome changes in mouse livers upon Bmal1 knock out

Project description:To explore the circadian regulations of Bmal1, we examined the transcriptome changes in mouse livers upon Bmal1 knock out at two circadian time points, CT0 and CT12.

2016-09-21 | GSE73271 | GEO

Transcriptome upon PDXK knock-out in mouse and human leukemic cells

Project description:To study transcriptomic changes upon PDXK knock-out in mouse and human leukemic cells

2020-01-13 | GSE139905 | GEO

Fz2-Fz7 double knock-out E8.5 mouse

Project description:Fz2Fz7 double knock out mouse microarray (E8.5)

2012-04-13 | GSE37221 | GEO

Single cell RNASeq of whole mouse kidneys from Uromodulin/Tamm horsfall protein knock-out mice

Project description:Single cell RNASeq of whole mouse kidneys from Uromodulin/Tamm horsfall protein knock-out mice

| PRJNA720395 | ENA

Gene expression profiling of miR-183/96 knock out mouse cochlea

Project description:Gene expression profiling of miR-183/96 knock out mouse cochlea

| PRJNA417332 | ENA

RNAseq and quantitative proteomic analysis of Dictyostelium knock-out cells lacking the core autophagy proteins ATG9 and/or ATG16

Project description:Autophagy is an evolutionary ancient mechanism that sequesters substrates for degradation within autolysosomes. The process is driven by many autophagy-related (ATG) proteins, including the core members ATG9 and ATG16. Here, we applied RNAseq and tandem mass tag (TMT) proteomic approaches to identify differentially expressed genes (DEGs) and proteins (DEPs) in ATG9‾, ATG16‾ and ATG9‾/16‾ strains in comparison to AX2 wild-type cells. In total, we identified 332 (279 up and 53 down), 639 (487 up and 152 down) and 260 (114 up and 146 down) DEGs and 124 (83 up and 41 down), 431 (238 up and 193 down) and 677 (347 up and 330 down) DEPs in ATG9‾, ATG16‾ and ATG9‾/16‾ strains, respectively. Thus, in the single knock-out strains, the number of DEGs was higher than the number of DEPs while in the double knock-out strain the number of DEPs was higher. Comparison of RNAseq and proteomic data further revealed, that only a small proportion of the transcriptional changes were reflected on the protein level. This suggests that most changes in protein abundance were not caused by transcriptional changes but were rather due to changes in protein homeostasis. Gene ontology (GO) analysis revealed an enrichment of DEPs involved in lipid metabolism and oxidative phosphorylation. Furthermore, we found increased expression of the anti-oxidant enzymes glutathione reductase (gsr) and catalase A (catA) in ATG16‾ and ATG9‾/16‾ cells, respectively, indicating adaptation to excess reactive oxygen species (ROS). Our study provides the first combined transcriptome and proteome analysis of ATG9‾, ATG16‾ and ATG9‾/16‾ cells and adds to our knowledge of functions of these proteins.

2021-06-15 | PXD023730 | Pride

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